downloading reverse dependencies ... downloading anyLib_1.0.5.tar.gz ... ok downloading aroma.core_3.3.1.tar.gz ... ok downloading BayesianPlatformDesignTimeTrend_1.2.3.tar.gz ... ok downloading CALANGO_1.0.20.tar.gz ... ok downloading CAMML_1.0.0.tar.gz ... ok downloading FastUtils_0.2.1.tar.gz ... ok downloading ggm_2.5.1.tar.gz ... ok downloading gpcp_0.1.0.tar.gz ... ok downloading HiCociety_0.1.38.tar.gz ... ok downloading influential_2.2.9.tar.gz ... ok downloading librarian_1.8.1.tar.gz ... ok downloading lipidomeR_0.1.2.tar.gz ... ok downloading mergen_0.2.1.tar.gz ... ok downloading MuPETFlow_0.1.1.tar.gz ... ok downloading NMF_0.28.tar.gz ... ok downloading pkgndep_1.99.3.tar.gz ... ok downloading rafalib_1.0.4.tar.gz ... ok downloading RCPA_0.2.6.tar.gz ... ok downloading riskmetric_0.2.5.tar.gz ... ok downloading rjtools_1.0.18.tar.gz ... ok downloading rvcheck_0.2.1.tar.gz ... ok downloading rworkflows_1.0.6.tar.gz ... ok downloading SCRIP_1.0.0.tar.gz ... ok downloading tinyarray_2.4.3.tar.gz ... ok downloading umiAnalyzer_1.0.0.tar.gz ... ok downloading available_1.1.0.tar.gz ... ok downloading bbl_1.0.0.tar.gz ... ok downloading BeeBDC_1.2.1.tar.gz ... ok downloading bulkAnalyseR_1.1.0.tar.gz ... ok downloading ClustAssess_1.1.0.tar.gz ... ok downloading CNVScope_3.7.2.tar.gz ... ok downloading CytoProfile_0.2.1.tar.gz ... ok downloading deepdep_0.4.3.tar.gz ... ok downloading demulticoder_0.1.2.tar.gz ... ok downloading devtools_2.4.5.tar.gz ... ok downloading discourseGT_1.2.0.tar.gz ... ok downloading genBaRcode_1.2.8.tar.gz ... ok downloading GeneSelectR_1.0.1.tar.gz ... ok downloading ggsector_1.7.0.tar.gz ... ok downloading ibawds_1.1.0.tar.gz ... ok downloading LCMSQA_1.0.2.tar.gz ... ok downloading maGUI_4.0.tar.gz ... ok downloading manynet_1.3.2.tar.gz ... ok downloading MetabolSSMF_0.1.0.tar.gz ... ok downloading metacoder_0.3.8.tar.gz ... ok downloading MiscMetabar_0.14.2.tar.gz ... ok downloading multiclassPairs_0.4.3.tar.gz ... ok downloading orthGS_0.1.8.tar.gz ... ok downloading pacman_0.5.1.tar.gz ... ok downloading pathwayTMB_0.1.3.tar.gz ... ok downloading PCMBase_1.2.14.tar.gz ... ok downloading pcutils_0.2.8.tar.gz ... ok downloading pkggraph_0.2.3.tar.gz ... ok downloading pliman_3.0.0.tar.gz ... ok downloading RcmdrPlugin.BiclustGUI_1.1.3.1.tar.gz ... ok downloading renv_1.1.4.tar.gz ... ok downloading RepeatedHighDim_2.4.0.tar.gz ... ok downloading rsconnect_1.4.1.tar.gz ... ok downloading SeuratExplorer_0.1.0.tar.gz ... ok downloading SRTsim_0.99.7.tar.gz ... ok downloading switchr_0.14.8.tar.gz ... ok downloading TcGSA_0.12.10.tar.gz ... ok downloading tidyHeatmap_1.11.6.tar.gz ... ok downloading updateme_0.1.0.tar.gz ... ok downloading wrswoR_1.1.1.tar.gz ... ok installing dependencies ‘affy’, ‘AGHmatrix’, ‘ANCOMBC’, ‘AnnoProbe’, ‘AnnotationHub’, ‘aroma.light’, ‘base64’, ‘BatchExperiments’, ‘BcDiag’, ‘bdc’, ‘beadarray’, ‘BiBitR’, ‘BicARE’, ‘BiocManager’, ‘BiocPkgTools’, ‘BiocVersion’, ‘biocViews’, ‘Boruta’, ‘BSgenome.Hsapiens.UCSC.hg19’, ‘caroline’, ‘castor’, ‘Category’, ‘CePa’, ‘ComplexUpset’, ‘coop’, ‘CoordinateCleaner’, ‘dada2’, ‘dashboardthemes’, ‘ddalpha’, ‘dearseq’, ‘DECIPHER’, ‘distill’, ‘doMPI’, ‘dslabs’, ‘emld’, ‘ensembldb’, ‘eulerr’, ‘expectile’, ‘fabia’, ‘flowCore’, ‘foghorn’, ‘future’, ‘galah’, ‘GENIE3’, ‘GenomicInteractions’, ‘GEOmetadb’, ‘gghalves’, ‘ggpattern’, ‘ggstatsplot’, ‘ggvenn’, ‘ggVennDiagram’, ‘GLAD’, ‘glmulti’, ‘gmailr’, ‘Gmedian’, ‘GOstats’, ‘gprofiler2’, ‘GSA’, ‘gutenbergr’, ‘HaarSeg’, ‘hgu133plus2.db’, ‘HiCocietyExample’, ‘HiCseg’, ‘HistData’, ‘iBBiG’, ‘indicspecies’, ‘iNEXT’, ‘InteractionSet’, ‘jointseg’, ‘KEGGgraph’, ‘kimisc’, ‘knitcitations’, ‘laGP’, ‘leiden’, ‘leukemiasEset’, ‘lsei’, ‘lumi’, ‘maftools’, ‘mapedit’, ‘MAST’, ‘metacoder’, ‘metap’, ‘mia’, ‘miniCRAN’, ‘modules’, ‘monocle3’, ‘mpcbs’, ‘MSnbase’, ‘muscle’, ‘mvSLOUCH’, ‘netdiffuseR’, ‘NNS’, ‘noisyr’, ‘oligo’, ‘openai’, ‘org.Dr.eg.db’, ‘org.Rn.eg.db’, ‘pd.hg.u133.plus.2’, ‘pdInfoBuilder’, ‘pheatmap’, ‘phyloseqGraphTest’, ‘phylotate’, ‘pkgnet’, ‘PSCBS’, ‘qs2’, ‘qualpalr’, ‘R.filesets’, ‘r.proxy’, ‘relaimpo’, ‘revtools’, ‘rgnparser’, ‘rhub’, ‘RobustRankAggreg’, ‘ROntoTools’, ‘Rook’, ‘rotl’, ‘rqubic’, ‘RSiena’, ‘rslurm’, ‘s4vd’, ‘sfit’, ‘SharedObject’, ‘shinyLP’, ‘ShortRead’, ‘smoothie’, ‘splatter’, ‘SRS’, ‘ssize’, ‘strawr’, ‘superbiclust’, ‘switchBox’, ‘synchronicity’, ‘taxadb’, ‘taxize’, ‘titanic’, ‘tmod’, ‘traits’, ‘treemapify’, ‘TxDb.Hsapiens.UCSC.hg38.knownGene’, ‘TxDb.Mmusculus.UCSC.mm10.knownGene’, ‘VAM’, ‘VariantAnnotation’, ‘venneuler’, ‘vioplot’, ‘voronoiTreemap’, ‘xcms’ Warning: packages ‘sfit’, ‘expectile’, ‘HaarSeg’, ‘mpcbs’, ‘monocle3’, ‘HiCseg’, ‘traits’ are not available for this version of R Versions of these packages for your version of R might be available elsewhere, see the ideas at https://cran.r-project.org/doc/manuals/r-devel/R-admin.html#Installing-packages also installing the dependencies ‘scrime’, ‘TxDb.Hsapiens.UCSC.hg19.knownGene’, ‘bumphunter’, ‘beanplot’, ‘siggenes’, ‘WikidataQueryServiceR’, ‘awsMethods’, ‘biovizBase’, ‘QFeatures’, ‘FDb.InfiniumMethylation.hg19’, ‘minfi’, ‘solrium’, ‘WikidataR’, ‘BiocBaseUtils’, ‘BiocNeighbors’, ‘fillpattern’, ‘RcppML’, ‘sendmailR’, ‘aws’, ‘cytolib’, ‘RProtoBufLib’, ‘gridpattern’, ‘oligoClasses’, ‘affyio’, ‘affxparser’, ‘rorcid’, ‘scuttle’, ‘potions’, ‘contentid’, ‘acnr’, ‘Gviz’, ‘hwriter’, ‘tagcloud’, ‘plotwidgets’, ‘AnnotationFilter’, ‘ProtGenerics’, ‘readMDTable’, ‘mzR’, ‘MassSpecWavelet’, ‘MsCoreUtils’, ‘MsFeatures’, ‘MsExperiment’, ‘Spectra’, ‘MetaboCoreUtils’, ‘PSMatch’, ‘vsn’, ‘MALDIquant’, ‘mzID’, ‘methylumi’, ‘BeadDataPackR’, ‘illuminaio’, ‘AnnotationForge’, ‘rredlist’, ‘ritis’, ‘worrms’, ‘natserv’, ‘wikitaxa’, ‘ggside’, ‘statsExpressions’, ‘MultiAssayExperiment’, ‘TreeSummarizedExperiment’, ‘bluster’, ‘decontam’, ‘DirichletMultinomial’, ‘rbiom’, ‘scater’, ‘ouch’, ‘PCMBase’, ‘polylabelr’, ‘ngram’, ‘leafpm’, ‘BatchJobs’, ‘TFisher’, ‘mutoss’ begin installing package ‘scrime’ begin installing package ‘TxDb.Hsapiens.UCSC.hg19.knownGene’ begin installing package ‘bumphunter’ begin installing package ‘beanplot’ begin installing package ‘WikidataQueryServiceR’ begin installing package ‘awsMethods’ begin installing package ‘solrium’ begin installing package ‘BiocBaseUtils’ begin installing package ‘BiocNeighbors’ begin installing package ‘fillpattern’ begin installing package ‘RcppML’ begin installing package ‘sendmailR’ begin installing package ‘RProtoBufLib’ begin installing package ‘gridpattern’ begin installing package ‘affyio’ begin installing package ‘affxparser’ begin installing package ‘rorcid’ begin installing package ‘scuttle’ begin installing package ‘potions’ begin installing package ‘contentid’ begin installing package ‘acnr’ begin installing package ‘hwriter’ begin installing package ‘tagcloud’ begin installing package ‘plotwidgets’ begin installing package ‘AnnotationFilter’ begin installing package ‘ProtGenerics’ begin installing package ‘readMDTable’ begin installing package ‘MassSpecWavelet’ * installing *source* package ‘BiocBaseUtils’ ... ** this is package ‘BiocBaseUtils’ version ‘1.10.0’ ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (BiocBaseUtils) begin installing package ‘MsCoreUtils’ * installing *source* package ‘awsMethods’ ... ** this is package ‘awsMethods’ version ‘1.1-1’ ** package ‘awsMethods’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C compiler: ‘gcc-14 (Debian 14.2.0-19) 14.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/Rtmpcmsezh/R.INSTALL31344b64a41864/awsMethods/src' gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c init.c -o init.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c omp_funcs.c -o omp_funcs.o gcc-14 -std=gnu23 -shared -L/home/hornik/tmp/R-d-gcc-14/lib -Wl,-O1 -o awsMethods.so init.o omp_funcs.o -fopenmp -L/home/hornik/tmp/R-d-gcc-14/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/Rtmpcmsezh/R.INSTALL31344b64a41864/awsMethods/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-awsMethods/00new/awsMethods/libs ** R ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (awsMethods) begin installing package ‘MALDIquant’ * installing *source* package ‘WikidataQueryServiceR’ ... ** this is package ‘WikidataQueryServiceR’ version ‘1.0.0’ ** package ‘WikidataQueryServiceR’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (WikidataQueryServiceR) begin installing package ‘BeadDataPackR’ * installing *source* package ‘acnr’ ... ** this is package ‘acnr’ version ‘1.0.0’ ** package ‘acnr’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (acnr) begin installing package ‘AnnotationForge’ * installing *source* package ‘readMDTable’ ... ** this is package ‘readMDTable’ version ‘0.3.2’ ** package ‘readMDTable’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (readMDTable) begin installing package ‘rredlist’ * installing *source* package ‘sendmailR’ ... ** this is package ‘sendmailR’ version ‘1.4-0’ ** package ‘sendmailR’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (sendmailR) begin installing package ‘worrms’ * installing *source* package ‘beanplot’ ... ** this is package ‘beanplot’ version ‘1.3.1’ ** package ‘beanplot’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (beanplot) begin installing package ‘natserv’ * installing *source* package ‘plotwidgets’ ... ** this is package ‘plotwidgets’ version ‘0.5.1’ ** package ‘plotwidgets’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (plotwidgets) begin installing package ‘ggside’ * installing *source* package ‘hwriter’ ... ** this is package ‘hwriter’ version ‘1.3.2.1’ ** package ‘hwriter’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (hwriter) begin installing package ‘statsExpressions’ * installing *source* package ‘contentid’ ... ** this is package ‘contentid’ version ‘0.0.19’ ** package ‘contentid’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (contentid) begin installing package ‘TreeSummarizedExperiment’ * installing *source* package ‘potions’ ... ** this is package ‘potions’ version ‘0.2.0’ ** package ‘potions’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (potions) begin installing package ‘decontam’ * installing *source* package ‘rorcid’ ... ** this is package ‘rorcid’ version ‘0.7.0’ ** package ‘rorcid’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** data *** moving datasets to lazyload DB ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (rorcid) begin installing package ‘DirichletMultinomial’ * installing *source* package ‘MassSpecWavelet’ ... ** this is package ‘MassSpecWavelet’ version ‘1.74.0’ ** using staged installation ** libs using C compiler: ‘gcc-14 (Debian 14.2.0-19) 14.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpT7CVRX/R.INSTALL3134a22a41995d/MassSpecWavelet/src' gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c find_local_maximum.c -o find_local_maximum.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c init.c -o init.o gcc-14 -std=gnu23 -shared -L/home/hornik/tmp/R-d-gcc-14/lib -Wl,-O1 -o MassSpecWavelet.so find_local_maximum.o init.o -L/home/hornik/tmp/R-d-gcc-14/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpT7CVRX/R.INSTALL3134a22a41995d/MassSpecWavelet/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-MassSpecWavelet/00new/MassSpecWavelet/libs ** R ** data ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (MassSpecWavelet) begin installing package ‘ouch’ * installing *source* package ‘ProtGenerics’ ... ** this is package ‘ProtGenerics’ version ‘1.40.0’ ** using staged installation ** R ** byte-compile and prepare package for lazy loading Creating a new generic function for ‘smooth’ in package ‘ProtGenerics’ ** help *** installing help indices ** building package indices ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (ProtGenerics) begin installing package ‘PCMBase’ * installing *source* package ‘worrms’ ... ** this is package ‘worrms’ version ‘0.4.3’ ** package ‘worrms’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (worrms) begin installing package ‘polylabelr’ * installing *source* package ‘BeadDataPackR’ ... ** this is package ‘BeadDataPackR’ version ‘1.60.0’ ** using staged installation ** libs using C compiler: ‘gcc-14 (Debian 14.2.0-19) 14.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/Rtmpv2ipTP/R.INSTALL313af221678f47/BeadDataPackR/src' gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c BeadDataPackR.c -o BeadDataPackR.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c R_init_BeadDataPackR.c -o R_init_BeadDataPackR.o gcc-14 -std=gnu23 -shared -L/home/hornik/tmp/R-d-gcc-14/lib -Wl,-O1 -o BeadDataPackR.so BeadDataPackR.o R_init_BeadDataPackR.o -L/home/hornik/tmp/R-d-gcc-14/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/Rtmpv2ipTP/R.INSTALL313af221678f47/BeadDataPackR/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-BeadDataPackR/00new/BeadDataPackR/libs ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (BeadDataPackR) begin installing package ‘ngram’ * installing *source* package ‘fillpattern’ ... ** this is package ‘fillpattern’ version ‘1.0.2’ ** package ‘fillpattern’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (fillpattern) begin installing package ‘leafpm’ * installing *source* package ‘scrime’ ... ** this is package ‘scrime’ version ‘1.3.5’ ** package ‘scrime’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (scrime) begin installing package ‘TFisher’ * installing *source* package ‘natserv’ ... ** this is package ‘natserv’ version ‘1.0.0’ ** package ‘natserv’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** data *** moving datasets to lazyload DB ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (natserv) begin installing package ‘mutoss’ * installing *source* package ‘rredlist’ ... ** this is package ‘rredlist’ version ‘1.0.0’ ** package ‘rredlist’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (rredlist) begin installing package ‘BiocVersion’ * installing *source* package ‘leafpm’ ... ** this is package ‘leafpm’ version ‘0.1.0’ ** package ‘leafpm’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (leafpm) begin installing package ‘R.filesets’ * installing *source* package ‘gridpattern’ ... ** this is package ‘gridpattern’ version ‘1.3.1’ ** package ‘gridpattern’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (gridpattern) * installing *source* package ‘BiocVersion’ ... ** this is package ‘BiocVersion’ version ‘3.21.1’ ** using staged installation ** help *** installing help indices ** building package indices ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (BiocVersion) begin installing package ‘aroma.light’ begin installing package ‘laGP’ * installing *source* package ‘solrium’ ... ** this is package ‘solrium’ version ‘1.2.0’ ** package ‘solrium’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (solrium) begin installing package ‘VAM’ * installing *source* package ‘MALDIquant’ ... ** this is package ‘MALDIquant’ version ‘1.22.3’ ** package ‘MALDIquant’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C compiler: ‘gcc-14 (Debian 14.2.0-19) 14.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/Rtmp8BOzWb/R.INSTALL313ad91a4ce406/MALDIquant/src' gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c colMedians.c -o colMedians.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c init.c -o init.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c localMaxima.c -o localMaxima.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c lowerConvexHull.c -o lowerConvexHull.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c morphologicalFilters.c -o morphologicalFilters.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c snip.c -o snip.o gcc-14 -std=gnu23 -shared -L/home/hornik/tmp/R-d-gcc-14/lib -Wl,-O1 -o MALDIquant.so colMedians.o init.o localMaxima.o lowerConvexHull.o morphologicalFilters.o snip.o -L/home/hornik/tmp/R-d-gcc-14/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/Rtmp8BOzWb/R.INSTALL313ad91a4ce406/MALDIquant/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-MALDIquant/00new/MALDIquant/libs ** R ** data ** demo ** inst ** byte-compile and prepare package for lazy loading Creating a generic function for ‘approxfun’ from package ‘stats’ in package ‘MALDIquant’ ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (MALDIquant) begin installing package ‘org.Dr.eg.db’ * installing *source* package ‘ouch’ ... ** this is package ‘ouch’ version ‘2.20’ ** package ‘ouch’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C compiler: ‘gcc-14 (Debian 14.2.0-19) 14.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpMq2Ge3/R.INSTALL3141547daf7854/ouch/src' gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c covar-matrix.c -o covar-matrix.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c init.c -o init.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c weight-matrix.c -o weight-matrix.o gcc-14 -std=gnu23 -shared -L/home/hornik/tmp/R-d-gcc-14/lib -Wl,-O1 -o ouch.so covar-matrix.o init.o weight-matrix.o -L/home/hornik/tmp/R-d-gcc-14/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpMq2Ge3/R.INSTALL3141547daf7854/ouch/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-ouch/00new/ouch/libs ** R ** data *** moving datasets to lazyload DB ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (ouch) begin installing package ‘AGHmatrix’ * installing *source* package ‘decontam’ ... ** this is package ‘decontam’ version ‘1.28.0’ ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (decontam) begin installing package ‘VariantAnnotation’ * installing *source* package ‘statsExpressions’ ... ** this is package ‘statsExpressions’ version ‘1.7.0’ ** package ‘statsExpressions’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** data *** moving datasets to lazyload DB ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (statsExpressions) begin installing package ‘strawr’ * installing *source* package ‘MsCoreUtils’ ... ** this is package ‘MsCoreUtils’ version ‘1.20.0’ ** using staged installation ** libs using C compiler: ‘gcc-14 (Debian 14.2.0-19) 14.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpIB0QIA/R.INSTALL313ab47b319e55/MsCoreUtils/src' gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c between.c -o between.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c closest.c -o closest.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c impNeighbourAvg.c -o impNeighbourAvg.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c init.c -o init.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c join.c -o join.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c localMaxima.c -o localMaxima.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c lowerConvexHull.c -o lowerConvexHull.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c maxi.c -o maxi.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c morphologicalFilters.c -o morphologicalFilters.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c reduce.c -o reduce.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c snip.c -o snip.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c sumi.c -o sumi.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c which.c -o which.o gcc-14 -std=gnu23 -shared -L/home/hornik/tmp/R-d-gcc-14/lib -Wl,-O1 -o MsCoreUtils.so between.o closest.o impNeighbourAvg.o init.o join.o localMaxima.o lowerConvexHull.o maxi.o morphologicalFilters.o reduce.o snip.o sumi.o which.o -L/home/hornik/tmp/R-d-gcc-14/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpIB0QIA/R.INSTALL313ab47b319e55/MsCoreUtils/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-MsCoreUtils/00new/MsCoreUtils/libs ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (MsCoreUtils) begin installing package ‘TxDb.Hsapiens.UCSC.hg38.knownGene’ * installing *source* package ‘ngram’ ... ** this is package ‘ngram’ version ‘3.2.3’ ** package ‘ngram’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C compiler: ‘gcc-14 (Debian 14.2.0-19) 14.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpkF7jCd/R.INSTALL3142817b6f5d31/ngram/src' gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -DNEXTWORDS -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c asweka.c -o asweka.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -DNEXTWORDS -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c babble.c -o babble.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -DNEXTWORDS -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c constructor.c -o constructor.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -DNEXTWORDS -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c converters.c -o converters.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -DNEXTWORDS -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c count.c -o count.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -DNEXTWORDS -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c getseed.c -o getseed.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -DNEXTWORDS -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c ngram_native.c -o ngram_native.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -DNEXTWORDS -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c phrase_table.c -o phrase_table.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -DNEXTWORDS -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c print.c -o print.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -DNEXTWORDS -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c ngram/src/counts.c -o ngram/src/counts.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -DNEXTWORDS -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c ngram/src/gen.c -o ngram/src/gen.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -DNEXTWORDS -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c ngram/src/hash.c -o ngram/src/hash.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -DNEXTWORDS -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c ngram/src/lex.c -o ngram/src/lex.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -DNEXTWORDS -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c ngram/src/process.c -o ngram/src/process.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -DNEXTWORDS -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c ngram/src/wordcmp.c -o ngram/src/wordcmp.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -DNEXTWORDS -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c ngram/src/rand/mt/rand_mt.c -o ngram/src/rand/mt/rand_mt.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -DNEXTWORDS -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c ngram/src/rand/mrg/rand_mrg.c -o ngram/src/rand/mrg/rand_mrg.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -DNEXTWORDS -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c ngram/src/rand/rng_interface.c -o ngram/src/rand/rng_interface.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -DNEXTWORDS -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c ngram/src/rand/samplers.c -o ngram/src/rand/samplers.o gcc-14 -std=gnu23 -shared -L/home/hornik/tmp/R-d-gcc-14/lib -Wl,-O1 -o ngram.so asweka.o babble.o constructor.o converters.o count.o getseed.o ngram_native.o phrase_table.o print.o ngram/src/counts.o ngram/src/gen.o ngram/src/hash.o ngram/src/lex.o ngram/src/process.o ngram/src/wordcmp.o ngram/src/rand/mt/rand_mt.o ngram/src/rand/mrg/rand_mrg.o ngram/src/rand/rng_interface.o ngram/src/rand/samplers.o -L/home/hornik/tmp/R-d-gcc-14/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpkF7jCd/R.INSTALL3142817b6f5d31/ngram/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-ngram/00new/ngram/libs ** R ** demo ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (ngram) begin installing package ‘TxDb.Mmusculus.UCSC.mm10.knownGene’ * installing *source* package ‘affyio’ ... ** this is package ‘affyio’ version ‘1.78.0’ ** using staged installation checking for gcc... gcc-14 -std=gnu23 checking whether the C compiler works... yes checking for C compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... no checking for suffix of object files... o checking whether we are using the GNU C compiler... yes checking whether gcc-14 -std=gnu23 accepts -g... yes checking for gcc-14 -std=gnu23 option to accept ISO C89... none needed checking how to run the C preprocessor... gcc-14 -std=gnu23 -E checking for grep that handles long lines and -e... /usr/bin/grep checking for egrep... /usr/bin/grep -E checking for ANSI C header files... yes checking for sys/types.h... yes checking for sys/stat.h... yes checking for stdlib.h... yes checking for string.h... yes checking for memory.h... yes checking for strings.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for unistd.h... yes checking for main in -lz... yes checking zlib.h usability... yes checking zlib.h presence... yes checking for zlib.h... yes checking if zlib version >= 1.1.3... yes checking for pthread_create in -lpthread... yes checking if we can use pthreads... yes checking if PTHREAD_STACK_MIN is defined... yes configure: Enabling threading for affyio configure: creating ./config.status config.status: creating src/Makevars ** libs using C compiler: ‘gcc-14 (Debian 14.2.0-19) 14.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpYdK7Vq/R.INSTALL313486da5af4a/affyio/src' gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_ZLIB=1 -DHAVE_LIBPTHREAD=1 -DUSE_PTHREADS=1 -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c fread_functions.c -o fread_functions.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_ZLIB=1 -DHAVE_LIBPTHREAD=1 -DUSE_PTHREADS=1 -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c init_package.c -o init_package.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_ZLIB=1 -DHAVE_LIBPTHREAD=1 -DUSE_PTHREADS=1 -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c read_abatch.c -o read_abatch.o read_abatch.c: In function ‘read_cel_file_intensities’: read_abatch.c:656:176: warning: format ‘%d’ expects argument of type ‘int’, but argument 3 has type ‘size_t’ {aka ‘long unsigned int’} [-Wformat=] 656 | Rprintf("Warning: found an empty line where not expected in %s.\nThis means that there is a cel intensity missing from the cel file.\nSucessfully read to cel intensity %d of %d expected\n", filename, i-1, i); | ~^ ~~~ | | | | int size_t {aka long unsigned int} | %ld read_abatch.c:656:182: warning: format ‘%d’ expects argument of type ‘int’, but argument 4 has type ‘size_t’ {aka ‘long unsigned int’} [-Wformat=] 656 | Rprintf("Warning: found an empty line where not expected in %s.\nThis means that there is a cel intensity missing from the cel file.\nSucessfully read to cel intensity %d of %d expected\n", filename, i-1, i); | ~^ ~ | | | | int size_t {aka long unsigned int} | %ld read_abatch.c:665:146: warning: format ‘%d’ expects argument of type ‘int’, but argument 3 has type ‘size_t’ {aka ‘long unsigned int’} [-Wformat=] 665 | Rprintf("Warning: found an incomplete line where not expected in %s.\nThe CEL file may be truncated. \nSucessfully read to cel intensity %d of %d expected\n", filename, i-1, rows); | ~^ ~~~ | | | | int size_t {aka long unsigned int} | %ld read_abatch.c:665:152: warning: format ‘%d’ expects argument of type ‘int’, but argument 4 has type ‘size_t’ {aka ‘long unsigned int’} [-Wformat=] 665 | Rprintf("Warning: found an incomplete line where not expected in %s.\nThe CEL file may be truncated. \nSucessfully read to cel intensity %d of %d expected\n", filename, i-1, rows); | ~^ ~~~~ | | | | int size_t {aka long unsigned int} | %ld read_abatch.c:677:145: warning: format ‘%d’ expects argument of type ‘int’, but argument 3 has type ‘size_t’ {aka ‘long unsigned int’} [-Wformat=] 677 | Rprintf("Warning: found an incomplete line where not expected in %s.\nThe CEL file may be truncated. \nSucessfully read to cel intensity %d of %d expected\n", filename, i-1, rows); | ~^ ~~~ | | | | int size_t {aka long unsigned int} | %ld read_abatch.c:677:151: warning: format ‘%d’ expects argument of type ‘int’, but argument 4 has type ‘size_t’ {aka ‘long unsigned int’} [-Wformat=] 677 | Rprintf("Warning: found an incomplete line where not expected in %s.\nThe CEL file may be truncated. \nSucessfully read to cel intensity %d of %d expected\n", filename, i-1, rows); | ~^ ~~~~ | | | | int size_t {aka long unsigned int} | %ld read_abatch.c:689:145: warning: format ‘%d’ expects argument of type ‘int’, but argument 3 has type ‘size_t’ {aka ‘long unsigned int’} [-Wformat=] 689 | Rprintf("Warning: found an incomplete line where not expected in %s.\nThe CEL file may be truncated. \nSucessfully read to cel intensity %d of %d expected\n", filename, i-1, rows); | ~^ ~~~ | | | | int size_t {aka long unsigned int} | %ld read_abatch.c:689:151: warning: format ‘%d’ expects argument of type ‘int’, but argument 4 has type ‘size_t’ {aka ‘long unsigned int’} [-Wformat=] 689 | Rprintf("Warning: found an incomplete line where not expected in %s.\nThe CEL file may be truncated. \nSucessfully read to cel intensity %d of %d expected\n", filename, i-1, rows); | ~^ ~~~~ | | | | int size_t {aka long unsigned int} | %ld read_abatch.c: In function ‘read_cel_file_stddev’: read_abatch.c:764:178: warning: format ‘%d’ expects argument of type ‘int’, but argument 3 has type ‘size_t’ {aka ‘long unsigned int’} [-Wformat=] 764 | Rprintf("Warning: found an empty line where not expected in %s.\n This means that there is a cel intensity missing from the cel file.\n Sucessfully read to cel intensity %d of %d expected\n", filename, i-1, i); | ~^ ~~~ | | | | int size_t {aka long unsigned int} | %ld read_abatch.c:764:184: warning: format ‘%d’ expects argument of type ‘int’, but argument 4 has type ‘size_t’ {aka ‘long unsigned int’} [-Wformat=] 764 | Rprintf("Warning: found an empty line where not expected in %s.\n This means that there is a cel intensity missing from the cel file.\n Sucessfully read to cel intensity %d of %d expected\n", filename, i-1, i); | ~^ ~ | | | | int size_t {aka long unsigned int} | %ld read_abatch.c:774:145: warning: format ‘%d’ expects argument of type ‘int’, but argument 3 has type ‘size_t’ {aka ‘long unsigned int’} [-Wformat=] 774 | Rprintf("Warning: found an incomplete line where not expected in %s.\nThe CEL file may be truncated. \nSucessfully read to cel intensity %d of %d expected\n", filename, i-1, rows); | ~^ ~~~ | | | | int size_t {aka long unsigned int} | %ld read_abatch.c:774:151: warning: format ‘%d’ expects argument of type ‘int’, but argument 4 has type ‘size_t’ {aka ‘long unsigned int’} [-Wformat=] 774 | Rprintf("Warning: found an incomplete line where not expected in %s.\nThe CEL file may be truncated. \nSucessfully read to cel intensity %d of %d expected\n", filename, i-1, rows); | ~^ ~~~~ | | | | int size_t {aka long unsigned int} | %ld read_abatch.c:785:145: warning: format ‘%d’ expects argument of type ‘int’, but argument 3 has type ‘size_t’ {aka ‘long unsigned int’} [-Wformat=] 785 | Rprintf("Warning: found an incomplete line where not expected in %s.\nThe CEL file may be truncated. \nSucessfully read to cel intensity %d of %d expected\n", filename, i-1, rows); | ~^ ~~~ | | | | int size_t {aka long unsigned int} | %ld read_abatch.c:785:151: warning: format ‘%d’ expects argument of type ‘int’, but argument 4 has type ‘size_t’ {aka ‘long unsigned int’} [-Wformat=] 785 | Rprintf("Warning: found an incomplete line where not expected in %s.\nThe CEL file may be truncated. \nSucessfully read to cel intensity %d of %d expected\n", filename, i-1, rows); | ~^ ~~~~ | | | | int size_t {aka long unsigned int} | %ld read_abatch.c:795:145: warning: format ‘%d’ expects argument of type ‘int’, but argument 3 has type ‘size_t’ {aka ‘long unsigned int’} [-Wformat=] 795 | Rprintf("Warning: found an incomplete line where not expected in %s.\nThe CEL file may be truncated. \nSucessfully read to cel intensity %d of %d expected\n", filename, i-1, rows); | ~^ ~~~ | | | | int size_t {aka long unsigned int} | %ld read_abatch.c:795:151: warning: format ‘%d’ expects argument of type ‘int’, but argument 4 has type ‘size_t’ {aka ‘long unsigned int’} [-Wformat=] 795 | Rprintf("Warning: found an incomplete line where not expected in %s.\nThe CEL file may be truncated. \nSucessfully read to cel intensity %d of %d expected\n", filename, i-1, rows); | ~^ ~~~~ | | | | int size_t {aka long unsigned int} | %ld read_abatch.c:805:145: warning: format ‘%d’ expects argument of type ‘int’, but argument 3 has type ‘size_t’ {aka ‘long unsigned int’} [-Wformat=] 805 | Rprintf("Warning: found an incomplete line where not expected in %s.\nThe CEL file may be truncated. \nSucessfully read to cel intensity %d of %d expected\n", filename, i-1, rows); | ~^ ~~~ | | | | int size_t {aka long unsigned int} | %ld read_abatch.c:805:151: warning: format ‘%d’ expects argument of type ‘int’, but argument 4 has type ‘size_t’ {aka ‘long unsigned int’} [-Wformat=] 805 | Rprintf("Warning: found an incomplete line where not expected in %s.\nThe CEL file may be truncated. \nSucessfully read to cel intensity %d of %d expected\n", filename, i-1, rows); | ~^ ~~~~ | | | | int size_t {aka long unsigned int} | %ld read_abatch.c: In function ‘read_cel_file_npixels’: read_abatch.c:870:178: warning: format ‘%d’ expects argument of type ‘int’, but argument 3 has type ‘size_t’ {aka ‘long unsigned int’} [-Wformat=] 870 | Rprintf("Warning: found an empty line where not expected in %s.\n This means that there is a cel intensity missing from the cel file.\n Sucessfully read to cel intensity %d of %d expected\n", filename, i-1, i); | ~^ ~~~ | | | | int size_t {aka long unsigned int} | %ld read_abatch.c:870:184: warning: format ‘%d’ expects argument of type ‘int’, but argument 4 has type ‘size_t’ {aka ‘long unsigned int’} [-Wformat=] 870 | Rprintf("Warning: found an empty line where not expected in %s.\n This means that there is a cel intensity missing from the cel file.\n Sucessfully read to cel intensity %d of %d expected\n", filename, i-1, i); | ~^ ~ | | | | int size_t {aka long unsigned int} | %ld read_abatch.c:879:145: warning: format ‘%d’ expects argument of type ‘int’, but argument 3 has type ‘size_t’ {aka ‘long unsigned int’} [-Wformat=] 879 | Rprintf("Warning: found an incomplete line where not expected in %s.\nThe CEL file may be truncated. \nSucessfully read to cel intensity %d of %d expected\n", filename, i-1, rows); | ~^ ~~~ | | | | int size_t {aka long unsigned int} | %ld read_abatch.c:879:151: warning: format ‘%d’ expects argument of type ‘int’, but argument 4 has type ‘size_t’ {aka ‘long unsigned int’} [-Wformat=] 879 | Rprintf("Warning: found an incomplete line where not expected in %s.\nThe CEL file may be truncated. \nSucessfully read to cel intensity %d of %d expected\n", filename, i-1, rows); | ~^ ~~~~ | | | | int size_t {aka long unsigned int} | %ld read_abatch.c:890:145: warning: format ‘%d’ expects argument of type ‘int’, but argument 3 has type ‘size_t’ {aka ‘long unsigned int’} [-Wformat=] 890 | Rprintf("Warning: found an incomplete line where not expected in %s.\nThe CEL file may be truncated. \nSucessfully read to cel intensity %d of %d expected\n", filename, i-1, rows); | ~^ ~~~ | | | | int size_t {aka long unsigned int} | %ld read_abatch.c:890:151: warning: format ‘%d’ expects argument of type ‘int’, but argument 4 has type ‘size_t’ {aka ‘long unsigned int’} [-Wformat=] 890 | Rprintf("Warning: found an incomplete line where not expected in %s.\nThe CEL file may be truncated. \nSucessfully read to cel intensity %d of %d expected\n", filename, i-1, rows); | ~^ ~~~~ | | | | int size_t {aka long unsigned int} | %ld read_abatch.c:901:145: warning: format ‘%d’ expects argument of type ‘int’, but argument 3 has type ‘size_t’ {aka ‘long unsigned int’} [-Wformat=] 901 | Rprintf("Warning: found an incomplete line where not expected in %s.\nThe CEL file may be truncated. \nSucessfully read to cel intensity %d of %d expected\n", filename, i-1, rows); | ~^ ~~~ | | | | int size_t {aka long unsigned int} | %ld read_abatch.c:901:151: warning: format ‘%d’ expects argument of type ‘int’, but argument 4 has type ‘size_t’ {aka ‘long unsigned int’} [-Wformat=] 901 | Rprintf("Warning: found an incomplete line where not expected in %s.\nThe CEL file may be truncated. \nSucessfully read to cel intensity %d of %d expected\n", filename, i-1, rows); | ~^ ~~~~ | | | | int size_t {aka long unsigned int} | %ld read_abatch.c:913:145: warning: format ‘%d’ expects argument of type ‘int’, but argument 3 has type ‘size_t’ {aka ‘long unsigned int’} [-Wformat=] 913 | Rprintf("Warning: found an incomplete line where not expected in %s.\nThe CEL file may be truncated. \nSucessfully read to cel intensity %d of %d expected\n", filename, i-1, rows); | ~^ ~~~ | | | | int size_t {aka long unsigned int} | %ld read_abatch.c:913:151: warning: format ‘%d’ expects argument of type ‘int’, but argument 4 has type ‘size_t’ {aka ‘long unsigned int’} [-Wformat=] 913 | Rprintf("Warning: found an incomplete line where not expected in %s.\nThe CEL file may be truncated. \nSucessfully read to cel intensity %d of %d expected\n", filename, i-1, rows); | ~^ ~~~~ | | | | int size_t {aka long unsigned int} | %ld read_abatch.c:924:145: warning: format ‘%d’ expects argument of type ‘int’, but argument 3 has type ‘size_t’ {aka ‘long unsigned int’} [-Wformat=] 924 | Rprintf("Warning: found an incomplete line where not expected in %s.\nThe CEL file may be truncated. \nSucessfully read to cel intensity %d of %d expected\n", filename, i-1, rows); | ~^ ~~~ | | | | int size_t {aka long unsigned int} | %ld read_abatch.c:924:151: warning: format ‘%d’ expects argument of type ‘int’, but argument 4 has type ‘size_t’ {aka ‘long unsigned int’} [-Wformat=] 924 | Rprintf("Warning: found an incomplete line where not expected in %s.\nThe CEL file may be truncated. \nSucessfully read to cel intensity %d of %d expected\n", filename, i-1, rows); | ~^ ~~~~ | | | | int size_t {aka long unsigned int} | %ld read_abatch.c: In function ‘read_gzcel_file_intensities’: read_abatch.c:1567:145: warning: format ‘%d’ expects argument of type ‘int’, but argument 3 has type ‘size_t’ {aka ‘long unsigned int’} [-Wformat=] 1567 | Rprintf("Warning: found an incomplete line where not expected in %s.\nThe CEL file may be truncated. \nSucessfully read to cel intensity %d of %d expected\n", filename, i-1, rows); | ~^ ~~~ | | | | int size_t {aka long unsigned int} | %ld read_abatch.c:1567:151: warning: format ‘%d’ expects argument of type ‘int’, but argument 4 has type ‘size_t’ {aka ‘long unsigned int’} [-Wformat=] 1567 | Rprintf("Warning: found an incomplete line where not expected in %s.\nThe CEL file may be truncated. \nSucessfully read to cel intensity %d of %d expected\n", filename, i-1, rows); | ~^ ~~~~ | | | | int size_t {aka long unsigned int} | %ld read_abatch.c:1578:145: warning: format ‘%d’ expects argument of type ‘int’, but argument 3 has type ‘size_t’ {aka ‘long unsigned int’} [-Wformat=] 1578 | Rprintf("Warning: found an incomplete line where not expected in %s.\nThe CEL file may be truncated. \nSucessfully read to cel intensity %d of %d expected\n", filename, i-1, rows); | ~^ ~~~ | | | | int size_t {aka long unsigned int} | %ld read_abatch.c:1578:151: warning: format ‘%d’ expects argument of type ‘int’, but argument 4 has type ‘size_t’ {aka ‘long unsigned int’} [-Wformat=] 1578 | Rprintf("Warning: found an incomplete line where not expected in %s.\nThe CEL file may be truncated. \nSucessfully read to cel intensity %d of %d expected\n", filename, i-1, rows); | ~^ ~~~~ | | | | int size_t {aka long unsigned int} | %ld read_abatch.c:1589:145: warning: format ‘%d’ expects argument of type ‘int’, but argument 3 has type ‘size_t’ {aka ‘long unsigned int’} [-Wformat=] 1589 | Rprintf("Warning: found an incomplete line where not expected in %s.\nThe CEL file may be truncated. \nSucessfully read to cel intensity %d of %d expected\n", filename, i-1, rows); | ~^ ~~~ | | | | int size_t {aka long unsigned int} | %ld read_abatch.c:1589:151: warning: format ‘%d’ expects argument of type ‘int’, but argument 4 has type ‘size_t’ {aka ‘long unsigned int’} [-Wformat=] 1589 | Rprintf("Warning: found an incomplete line where not expected in %s.\nThe CEL file may be truncated. \nSucessfully read to cel intensity %d of %d expected\n", filename, i-1, rows); | ~^ ~~~~ | | | | int size_t {aka long unsigned int} | %ld read_abatch.c: In function ‘read_gzcel_file_stddev’: read_abatch.c:1665:145: warning: format ‘%d’ expects argument of type ‘int’, but argument 3 has type ‘size_t’ {aka ‘long unsigned int’} [-Wformat=] 1665 | Rprintf("Warning: found an incomplete line where not expected in %s.\nThe CEL file may be truncated. \nSucessfully read to cel intensity %d of %d expected\n", filename, i-1, rows); | ~^ ~~~ | | | | int size_t {aka long unsigned int} | %ld read_abatch.c:1665:151: warning: format ‘%d’ expects argument of type ‘int’, but argument 4 has type ‘size_t’ {aka ‘long unsigned int’} [-Wformat=] 1665 | Rprintf("Warning: found an incomplete line where not expected in %s.\nThe CEL file may be truncated. \nSucessfully read to cel intensity %d of %d expected\n", filename, i-1, rows); | ~^ ~~~~ | | | | int size_t {aka long unsigned int} | %ld read_abatch.c:1677:145: warning: format ‘%d’ expects argument of type ‘int’, but argument 3 has type ‘size_t’ {aka ‘long unsigned int’} [-Wformat=] 1677 | Rprintf("Warning: found an incomplete line where not expected in %s.\nThe CEL file may be truncated. \nSucessfully read to cel intensity %d of %d expected\n", filename, i-1, rows); | ~^ ~~~ | | | | int size_t {aka long unsigned int} | %ld read_abatch.c:1677:151: warning: format ‘%d’ expects argument of type ‘int’, but argument 4 has type ‘size_t’ {aka ‘long unsigned int’} [-Wformat=] 1677 | Rprintf("Warning: found an incomplete line where not expected in %s.\nThe CEL file may be truncated. \nSucessfully read to cel intensity %d of %d expected\n", filename, i-1, rows); | ~^ ~~~~ | | | | int size_t {aka long unsigned int} | %ld read_abatch.c:1689:145: warning: format ‘%d’ expects argument of type ‘int’, but argument 3 has type ‘size_t’ {aka ‘long unsigned int’} [-Wformat=] 1689 | Rprintf("Warning: found an incomplete line where not expected in %s.\nThe CEL file may be truncated. \nSucessfully read to cel intensity %d of %d expected\n", filename, i-1, rows); | ~^ ~~~ | | | | int size_t {aka long unsigned int} | %ld read_abatch.c:1689:151: warning: format ‘%d’ expects argument of type ‘int’, but argument 4 has type ‘size_t’ {aka ‘long unsigned int’} [-Wformat=] 1689 | Rprintf("Warning: found an incomplete line where not expected in %s.\nThe CEL file may be truncated. \nSucessfully read to cel intensity %d of %d expected\n", filename, i-1, rows); | ~^ ~~~~ | | | | int size_t {aka long unsigned int} | %ld read_abatch.c:1701:145: warning: format ‘%d’ expects argument of type ‘int’, but argument 3 has type ‘size_t’ {aka ‘long unsigned int’} [-Wformat=] 1701 | Rprintf("Warning: found an incomplete line where not expected in %s.\nThe CEL file may be truncated. \nSucessfully read to cel intensity %d of %d expected\n", filename, i-1, rows); | ~^ ~~~ | | | | int size_t {aka long unsigned int} | %ld read_abatch.c:1701:151: warning: format ‘%d’ expects argument of type ‘int’, but argument 4 has type ‘size_t’ {aka ‘long unsigned int’} [-Wformat=] 1701 | Rprintf("Warning: found an incomplete line where not expected in %s.\nThe CEL file may be truncated. \nSucessfully read to cel intensity %d of %d expected\n", filename, i-1, rows); | ~^ ~~~~ | | | | int size_t {aka long unsigned int} | %ld read_abatch.c: In function ‘read_gzcel_file_npixels’: read_abatch.c:1769:145: warning: format ‘%d’ expects argument of type ‘int’, but argument 3 has type ‘size_t’ {aka ‘long unsigned int’} [-Wformat=] 1769 | Rprintf("Warning: found an incomplete line where not expected in %s.\nThe CEL file may be truncated. \nSucessfully read to cel intensity %d of %d expected\n", filename, i-1, rows); | ~^ ~~~ | | | | int size_t {aka long unsigned int} | %ld read_abatch.c:1769:151: warning: format ‘%d’ expects argument of type ‘int’, but argument 4 has type ‘size_t’ {aka ‘long unsigned int’} [-Wformat=] 1769 | Rprintf("Warning: found an incomplete line where not expected in %s.\nThe CEL file may be truncated. \nSucessfully read to cel intensity %d of %d expected\n", filename, i-1, rows); | ~^ ~~~~ | | | | int size_t {aka long unsigned int} | %ld read_abatch.c:1780:145: warning: format ‘%d’ expects argument of type ‘int’, but argument 3 has type ‘size_t’ {aka ‘long unsigned int’} [-Wformat=] 1780 | Rprintf("Warning: found an incomplete line where not expected in %s.\nThe CEL file may be truncated. \nSucessfully read to cel intensity %d of %d expected\n", filename, i-1, rows); | ~^ ~~~ | | | | int size_t {aka long unsigned int} | %ld read_abatch.c:1780:151: warning: format ‘%d’ expects argument of type ‘int’, but argument 4 has type ‘size_t’ {aka ‘long unsigned int’} [-Wformat=] 1780 | Rprintf("Warning: found an incomplete line where not expected in %s.\nThe CEL file may be truncated. \nSucessfully read to cel intensity %d of %d expected\n", filename, i-1, rows); | ~^ ~~~~ | | | | int size_t {aka long unsigned int} | %ld read_abatch.c:1791:145: warning: format ‘%d’ expects argument of type ‘int’, but argument 3 has type ‘size_t’ {aka ‘long unsigned int’} [-Wformat=] 1791 | Rprintf("Warning: found an incomplete line where not expected in %s.\nThe CEL file may be truncated. \nSucessfully read to cel intensity %d of %d expected\n", filename, i-1, rows); | ~^ ~~~ | | | | int size_t {aka long unsigned int} | %ld read_abatch.c:1791:151: warning: format ‘%d’ expects argument of type ‘int’, but argument 4 has type ‘size_t’ {aka ‘long unsigned int’} [-Wformat=] 1791 | Rprintf("Warning: found an incomplete line where not expected in %s.\nThe CEL file may be truncated. \nSucessfully read to cel intensity %d of %d expected\n", filename, i-1, rows); | ~^ ~~~~ | | | | int size_t {aka long unsigned int} | %ld read_abatch.c:1801:145: warning: format ‘%d’ expects argument of type ‘int’, but argument 3 has type ‘size_t’ {aka ‘long unsigned int’} [-Wformat=] 1801 | Rprintf("Warning: found an incomplete line where not expected in %s.\nThe CEL file may be truncated. \nSucessfully read to cel intensity %d of %d expected\n", filename, i-1, rows); | ~^ ~~~ | | | | int size_t {aka long unsigned int} | %ld read_abatch.c:1801:151: warning: format ‘%d’ expects argument of type ‘int’, but argument 4 has type ‘size_t’ {aka ‘long unsigned int’} [-Wformat=] 1801 | Rprintf("Warning: found an incomplete line where not expected in %s.\nThe CEL file may be truncated. \nSucessfully read to cel intensity %d of %d expected\n", filename, i-1, rows); | ~^ ~~~~ | | | | int size_t {aka long unsigned int} | %ld read_abatch.c:1811:145: warning: format ‘%d’ expects argument of type ‘int’, but argument 3 has type ‘size_t’ {aka ‘long unsigned int’} [-Wformat=] 1811 | Rprintf("Warning: found an incomplete line where not expected in %s.\nThe CEL file may be truncated. \nSucessfully read to cel intensity %d of %d expected\n", filename, i-1, rows); | ~^ ~~~ | | | | int size_t {aka long unsigned int} | %ld read_abatch.c:1811:151: warning: format ‘%d’ expects argument of type ‘int’, but argument 4 has type ‘size_t’ {aka ‘long unsigned int’} [-Wformat=] 1811 | Rprintf("Warning: found an incomplete line where not expected in %s.\nThe CEL file may be truncated. \nSucessfully read to cel intensity %d of %d expected\n", filename, i-1, rows); | ~^ ~~~~ | | | | int size_t {aka long unsigned int} | %ld read_abatch.c: In function ‘gzbinary_get_detailed_header_info’: read_abatch.c:3410:3: warning: ‘__builtin_strncpy’ specified bound depends on the length of the source argument [-Wstringop-truncation] 3410 | strncpy(header_info->AlgorithmParameters,my_header->alg_param,strlen(my_header->alg_param)-1); | ^ read_abatch.c:3410:65: note: length computed here 3410 | strncpy(header_info->AlgorithmParameters,my_header->alg_param,strlen(my_header->alg_param)-1); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ read_abatch.c: In function ‘binary_get_detailed_header_info’: read_abatch.c:2661:3: warning: ‘__builtin_strncpy’ specified bound depends on the length of the source argument [-Wstringop-truncation] 2661 | strncpy(header_info->AlgorithmParameters,my_header->alg_param,strlen(my_header->alg_param)-1); | ^ read_abatch.c:2661:65: note: length computed here 2661 | strncpy(header_info->AlgorithmParameters,my_header->alg_param,strlen(my_header->alg_param)-1); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_ZLIB=1 -DHAVE_LIBPTHREAD=1 -DUSE_PTHREADS=1 -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c read_bpmap.c -o read_bpmap.o read_bpmap.c: In function ‘ReadBPMAPFileIntoRList’: read_bpmap.c:849:39: warning: format ‘%s’ expects argument of type ‘char *’, but argument 2 has type ‘SEXP’ {aka ‘struct SEXPREC *’} [-Wformat=] 849 | error("Unable to open the file %s",filename); | ~^ ~~~~~~~~ | | | | | SEXP {aka struct SEXPREC *} | char * read_bpmap.c:698:27: warning: ‘__builtin___sprintf_chk’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 698 | sprintf(buf, "%d", j+1); | ^ In file included from /usr/include/stdio.h:970, from /home/hornik/tmp/R-d-gcc-14/include/R.h:44, from read_bpmap.c:23: In function ‘sprintf’, inlined from ‘readBPMAPSeqIdPositionInfo’ at read_bpmap.c:698:4, inlined from ‘ReadBPMAPFileIntoRList’ at read_bpmap.c:873:3: /usr/include/x86_64-linux-gnu/bits/stdio2.h:30:10: note: ‘__builtin___sprintf_chk’ output between 2 and 11 bytes into a destination of size 10 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ read_bpmap.c: In function ‘ReadBPMAPFileIntoRList’: read_bpmap.c:655:27: warning: ‘__builtin___sprintf_chk’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 655 | sprintf(buf, "%d", j+1); | ^ In function ‘sprintf’, inlined from ‘readBPMAPSeqIdPositionInfo’ at read_bpmap.c:655:4, inlined from ‘ReadBPMAPFileIntoRList’ at read_bpmap.c:873:3: /usr/include/x86_64-linux-gnu/bits/stdio2.h:30:10: note: ‘__builtin___sprintf_chk’ output between 2 and 11 bytes into a destination of size 10 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ read_bpmap.c: In function ‘ReadBPMAPFileIntoRList’: read_bpmap.c:603:25: warning: ‘__builtin___sprintf_chk’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 603 | sprintf(buf, "%d", j+1); | ^ In function ‘sprintf’, inlined from ‘readBPMAPSeqIdPositionInfo’ at read_bpmap.c:603:2, inlined from ‘ReadBPMAPFileIntoRList’ at read_bpmap.c:873:3: /usr/include/x86_64-linux-gnu/bits/stdio2.h:30:10: note: ‘__builtin___sprintf_chk’ output between 2 and 11 bytes into a destination of size 10 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_ZLIB=1 -DHAVE_LIBPTHREAD=1 -DUSE_PTHREADS=1 -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c read_cdf_xda.c -o read_cdf_xda.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_ZLIB=1 -DHAVE_LIBPTHREAD=1 -DUSE_PTHREADS=1 -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c read_cdffile2.c -o read_cdffile2.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_ZLIB=1 -DHAVE_LIBPTHREAD=1 -DUSE_PTHREADS=1 -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c read_celfile_generic.c -o read_celfile_generic.o read_celfile_generic.c: In function ‘generic_get_detailed_header_info’: read_celfile_generic.c:272:3: warning: ‘__builtin_strncpy’ output truncated before terminating nul copying 11 bytes from a string of the same length [-Wstringop-truncation] 272 | strncpy(header_info->AlgorithmParameters,"Percentile:",11); | ^ read_celfile_generic.c:294:3: warning: ‘__builtin_strncpy’ output truncated before terminating nul copying 11 bytes from a string of the same length [-Wstringop-truncation] 294 | strncpy(&header_info->AlgorithmParameters[algorithm_paramsize],"CellMargin:",11); | ^ read_celfile_generic.c:315:3: warning: ‘__builtin_strncpy’ output truncated before terminating nul copying 12 bytes from a string of the same length [-Wstringop-truncation] 315 | strncpy(&header_info->AlgorithmParameters[algorithm_paramsize],"OutlierHigh:",12); | ^ read_celfile_generic.c:336:3: warning: ‘__builtin_strncpy’ output truncated before terminating nul copying 11 bytes from a string of the same length [-Wstringop-truncation] 336 | strncpy(&header_info->AlgorithmParameters[algorithm_paramsize],"OutlierLow:",11); | ^ read_celfile_generic.c:357:3: warning: ‘__builtin_strncpy’ output truncated before terminating nul copying 11 bytes from a string of the same length [-Wstringop-truncation] 357 | strncpy(&header_info->AlgorithmParameters[algorithm_paramsize],"AlgVersion:",11); | ^ read_celfile_generic.c:378:3: warning: ‘__builtin_strncpy’ output truncated before terminating nul copying 14 bytes from a string of the same length [-Wstringop-truncation] 378 | strncpy(&header_info->AlgorithmParameters[algorithm_paramsize],"FixedCellSize:",14); | ^ read_celfile_generic.c:399:3: warning: ‘__builtin_strncpy’ output truncated before terminating nul copying 17 bytes from a string of the same length [-Wstringop-truncation] 399 | strncpy(&header_info->AlgorithmParameters[algorithm_paramsize],"FullFeatureWidth:",17); | ^ read_celfile_generic.c:420:3: warning: ‘__builtin_strncpy’ output truncated before terminating nul copying 18 bytes from a string of the same length [-Wstringop-truncation] 420 | strncpy(&header_info->AlgorithmParameters[algorithm_paramsize],"FullFeatureHeight:",18); | ^ read_celfile_generic.c:441:3: warning: ‘__builtin_strncpy’ output truncated before terminating nul copying 26 bytes from a string of the same length [-Wstringop-truncation] 441 | strncpy(&header_info->AlgorithmParameters[algorithm_paramsize],"IgnoreOutliersInShiftRows:",26); | ^ read_celfile_generic.c:464:3: warning: ‘__builtin_strncpy’ output truncated before terminating nul copying 18 bytes from a string of the same length [-Wstringop-truncation] 464 | strncpy(&header_info->AlgorithmParameters[algorithm_paramsize],"FeatureExtraction:",18); | ^ read_celfile_generic.c:488:3: warning: ‘__builtin_strncpy’ output truncated before terminating nul copying 20 bytes from a string of the same length [-Wstringop-truncation] 488 | strncpy(&header_info->AlgorithmParameters[algorithm_paramsize],"PoolWidthExtenstion:",20); | ^ read_celfile_generic.c:510:3: warning: ‘__builtin_strncpy’ output truncated before terminating nul copying 20 bytes from a string of the same length [-Wstringop-truncation] 510 | strncpy(&header_info->AlgorithmParameters[algorithm_paramsize],"PoolHeightExtension:",20); | ^ read_celfile_generic.c:532:3: warning: ‘__builtin_strncpy’ output truncated before terminating nul copying 12 bytes from a string of the same length [-Wstringop-truncation] 532 | strncpy(&header_info->AlgorithmParameters[algorithm_paramsize],"UseSubgrids:",12); | ^ read_celfile_generic.c:553:3: warning: ‘__builtin_strncpy’ output truncated before terminating nul copying 16 bytes from a string of the same length [-Wstringop-truncation] 553 | strncpy(&header_info->AlgorithmParameters[algorithm_paramsize],"RandomizePixels:",16); | ^ read_celfile_generic.c:575:3: warning: ‘__builtin_strncpy’ output truncated before terminating nul copying 11 bytes from a string of the same length [-Wstringop-truncation] 575 | strncpy(&header_info->AlgorithmParameters[algorithm_paramsize],"ErrorBasis:",11); | ^ read_celfile_generic.c:597:3: warning: ‘__builtin_strncpy’ output truncated before terminating nul copying 8 bytes from a string of the same length [-Wstringop-truncation] 597 | strncpy(&header_info->AlgorithmParameters[algorithm_paramsize],"StdMult:",8); | ^ read_celfile_generic.c: In function ‘gzgeneric_get_detailed_header_info’: read_celfile_generic.c:1270:3: warning: ‘__builtin_strncpy’ output truncated before terminating nul copying 11 bytes from a string of the same length [-Wstringop-truncation] 1270 | strncpy(header_info->AlgorithmParameters,"Percentile:",11); | ^ read_celfile_generic.c:1292:3: warning: ‘__builtin_strncpy’ output truncated before terminating nul copying 11 bytes from a string of the same length [-Wstringop-truncation] 1292 | strncpy(&header_info->AlgorithmParameters[algorithm_paramsize],"CellMargin:",11); | ^ read_celfile_generic.c:1313:3: warning: ‘__builtin_strncpy’ output truncated before terminating nul copying 12 bytes from a string of the same length [-Wstringop-truncation] 1313 | strncpy(&header_info->AlgorithmParameters[algorithm_paramsize],"OutlierHigh:",12); | ^ read_celfile_generic.c:1334:3: warning: ‘__builtin_strncpy’ output truncated before terminating nul copying 11 bytes from a string of the same length [-Wstringop-truncation] 1334 | strncpy(&header_info->AlgorithmParameters[algorithm_paramsize],"OutlierLow:",11); | ^ read_celfile_generic.c:1355:3: warning: ‘__builtin_strncpy’ output truncated before terminating nul copying 11 bytes from a string of the same length [-Wstringop-truncation] 1355 | strncpy(&header_info->AlgorithmParameters[algorithm_paramsize],"AlgVersion:",11); | ^ read_celfile_generic.c:1376:3: warning: ‘__builtin_strncpy’ output truncated before terminating nul copying 14 bytes from a string of the same length [-Wstringop-truncation] 1376 | strncpy(&header_info->AlgorithmParameters[algorithm_paramsize],"FixedCellSize:",14); | ^ read_celfile_generic.c:1397:3: warning: ‘__builtin_strncpy’ output truncated before terminating nul copying 17 bytes from a string of the same length [-Wstringop-truncation] 1397 | strncpy(&header_info->AlgorithmParameters[algorithm_paramsize],"FullFeatureWidth:",17); | ^ read_celfile_generic.c:1418:3: warning: ‘__builtin_strncpy’ output truncated before terminating nul copying 18 bytes from a string of the same length [-Wstringop-truncation] 1418 | strncpy(&header_info->AlgorithmParameters[algorithm_paramsize],"FullFeatureHeight:",18); | ^ read_celfile_generic.c:1439:3: warning: ‘__builtin_strncpy’ output truncated before terminating nul copying 26 bytes from a string of the same length [-Wstringop-truncation] 1439 | strncpy(&header_info->AlgorithmParameters[algorithm_paramsize],"IgnoreOutliersInShiftRows:",26); | ^ read_celfile_generic.c:1462:3: warning: ‘__builtin_strncpy’ output truncated before terminating nul copying 18 bytes from a string of the same length [-Wstringop-truncation] 1462 | strncpy(&header_info->AlgorithmParameters[algorithm_paramsize],"FeatureExtraction:",18); | ^ read_celfile_generic.c:1486:3: warning: ‘__builtin_strncpy’ output truncated before terminating nul copying 20 bytes from a string of the same length [-Wstringop-truncation] 1486 | strncpy(&header_info->AlgorithmParameters[algorithm_paramsize],"PoolWidthExtenstion:",20); | ^ read_celfile_generic.c:1508:3: warning: ‘__builtin_strncpy’ output truncated before terminating nul copying 20 bytes from a string of the same length [-Wstringop-truncation] 1508 | strncpy(&header_info->AlgorithmParameters[algorithm_paramsize],"PoolHeightExtension:",20); | ^ read_celfile_generic.c:1530:3: warning: ‘__builtin_strncpy’ output truncated before terminating nul copying 12 bytes from a string of the same length [-Wstringop-truncation] 1530 | strncpy(&header_info->AlgorithmParameters[algorithm_paramsize],"UseSubgrids:",12); | ^ read_celfile_generic.c:1551:3: warning: ‘__builtin_strncpy’ output truncated before terminating nul copying 16 bytes from a string of the same length [-Wstringop-truncation] 1551 | strncpy(&header_info->AlgorithmParameters[algorithm_paramsize],"RandomizePixels:",16); | ^ read_celfile_generic.c:1573:3: warning: ‘__builtin_strncpy’ output truncated before terminating nul copying 11 bytes from a string of the same length [-Wstringop-truncation] 1573 | strncpy(&header_info->AlgorithmParameters[algorithm_paramsize],"ErrorBasis:",11); | ^ read_celfile_generic.c:1595:3: warning: ‘__builtin_strncpy’ output truncated before terminating nul copying 8 bytes from a string of the same length [-Wstringop-truncation] 1595 | strncpy(&header_info->AlgorithmParameters[algorithm_paramsize],"StdMult:",8); | ^ gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_ZLIB=1 -DHAVE_LIBPTHREAD=1 -DUSE_PTHREADS=1 -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c read_clf.c -o read_clf.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_ZLIB=1 -DHAVE_LIBPTHREAD=1 -DUSE_PTHREADS=1 -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c read_generic.c -o read_generic.o read_generic.c: In function ‘print_decode_nvt_triplet’: read_generic.c:1293:37: warning: format ‘%f’ expects argument of type ‘double’, but argument 2 has type ‘int’ [-Wformat=] 1293 | Rprintf("Its a float value is %f\n",temp32); | ~^ ~~~~~~ | | | | | int | double | %d gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_ZLIB=1 -DHAVE_LIBPTHREAD=1 -DUSE_PTHREADS=1 -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c read_multichannel_celfile_generic.c -o read_multichannel_celfile_generic.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_ZLIB=1 -DHAVE_LIBPTHREAD=1 -DUSE_PTHREADS=1 -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c read_pgf.c -o read_pgf.o read_pgf.c:363:12: warning: ‘token_ends_with’ defined but not used [-Wunused-function] 363 | static int token_ends_with(char *token, char *ends_in){ | ^~~~~~~~~~~~~~~ gcc-14 -std=gnu23 -shared -L/home/hornik/tmp/R-d-gcc-14/lib -Wl,-O1 -o affyio.so fread_functions.o init_package.o read_abatch.o read_bpmap.o read_cdf_xda.o read_cdffile2.o read_celfile_generic.o read_clf.o read_generic.o read_multichannel_celfile_generic.o read_pgf.o -lpthread -lz -L/home/hornik/tmp/R-d-gcc-14/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpYdK7Vq/R.INSTALL313486da5af4a/affyio/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-affyio/00new/affyio/libs ** R ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (affyio) begin installing package ‘HiCocietyExample’ * installing *source* package ‘R.filesets’ ... ** this is package ‘R.filesets’ version ‘2.15.1’ ** package ‘R.filesets’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (R.filesets) begin installing package ‘coop’ * installing *source* package ‘tagcloud’ ... ** this is package ‘tagcloud’ version ‘0.6’ ** package ‘tagcloud’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C++ compiler: ‘g++-14 (Debian 14.2.0-19) 14.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/Rtmp3tKwkn/R.INSTALL31349b55459d08/tagcloud/src' g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c RcppExports.cpp -o RcppExports.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c overlap.cpp -o overlap.o g++-14 -std=gnu++17 -shared -L/home/hornik/tmp/R-d-gcc-14/lib -Wl,-O1 -o tagcloud.so RcppExports.o overlap.o -L/home/hornik/tmp/R-d-gcc-14/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/Rtmp3tKwkn/R.INSTALL31349b55459d08/tagcloud/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-tagcloud/00new/tagcloud/libs ** R ** data ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (tagcloud) begin installing package ‘NNS’ * installing *source* package ‘aroma.light’ ... ** this is package ‘aroma.light’ version ‘3.38.0’ ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (aroma.light) begin installing package ‘openai’ * installing *source* package ‘HiCocietyExample’ ... ** this is package ‘HiCocietyExample’ version ‘1.0.0’ ** package ‘HiCocietyExample’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (HiCocietyExample) begin installing package ‘doMPI’ * installing *source* package ‘TFisher’ ... ** this is package ‘TFisher’ version ‘0.2.0’ ** package ‘TFisher’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (TFisher) begin installing package ‘synchronicity’ * installing *source* package ‘polylabelr’ ... ** this is package ‘polylabelr’ version ‘0.3.0’ ** package ‘polylabelr’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C++ compiler: ‘g++-14 (Debian 14.2.0-19) 14.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpTtih8i/R.INSTALL3141cc60d627d2/polylabelr/src' g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I../inst/include/ -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c RcppExports.cpp -o RcppExports.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I../inst/include/ -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c poi.cpp -o poi.o g++-14 -std=gnu++17 -shared -L/home/hornik/tmp/R-d-gcc-14/lib -Wl,-O1 -o polylabelr.so RcppExports.o poi.o -L/home/hornik/tmp/R-d-gcc-14/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpTtih8i/R.INSTALL3141cc60d627d2/polylabelr/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-polylabelr/00new/polylabelr/libs ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (polylabelr) begin installing package ‘Rook’ * installing *source* package ‘DirichletMultinomial’ ... ** this is package ‘DirichletMultinomial’ version ‘1.50.0’ ** using staged installation ** libs using C compiler: ‘gcc-14 (Debian 14.2.0-19) 14.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpU4e5OE/R.INSTALL31406b549537d3/DirichletMultinomial/src' gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 `gsl-config --cflags` -DR_DIRICHLETMULTINOMIAL -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c R_init_DirichletMultinomial.c -o R_init_DirichletMultinomial.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 `gsl-config --cflags` -DR_DIRICHLETMULTINOMIAL -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c dirichlet_fit.c -o dirichlet_fit.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 `gsl-config --cflags` -DR_DIRICHLETMULTINOMIAL -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c dirichlet_fit_main.c -o dirichlet_fit_main.o dirichlet_fit_main.c: In function ‘hessian’: dirichlet_fit_main.c:391:34: warning: ‘*’ in boolean context, suggest ‘&&’ instead [-Wint-in-bool-context] 391 | adCJK0[j] += adPi[i] * n ? gsl_sf_psi(adAlpha[j] + n) : dPsiAlpha; | ~~~~~~~~^~~ dirichlet_fit_main.c:393:33: warning: ‘*’ in boolean context, suggest ‘&&’ instead [-Wint-in-bool-context] 393 | adCJK[j] += adPi[i] * n ? gsl_sf_psi_1(adAlpha[j] + n): dPsi1Alpha; | ~~~~~~~~^~~ gcc-14 -std=gnu23 -shared -L/home/hornik/tmp/R-d-gcc-14/lib -Wl,-O1 -o DirichletMultinomial.so R_init_DirichletMultinomial.o dirichlet_fit.o dirichlet_fit_main.o -L/usr/lib/x86_64-linux-gnu -lgsl -lgslcblas -lm -L/home/hornik/tmp/R-d-gcc-14/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpU4e5OE/R.INSTALL31406b549537d3/DirichletMultinomial/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-DirichletMultinomial/00new/DirichletMultinomial/libs ** R ** data ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (DirichletMultinomial) begin installing package ‘base64’ * installing *source* package ‘VAM’ ... ** this is package ‘VAM’ version ‘1.1.0’ ** package ‘VAM’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (VAM) begin installing package ‘RobustRankAggreg’ * installing *source* package ‘AnnotationFilter’ ... ** this is package ‘AnnotationFilter’ version ‘1.32.0’ ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (AnnotationFilter) begin installing package ‘GSA’ * installing *source* package ‘base64’ ... ** this is package ‘base64’ version ‘2.0.2’ ** package ‘base64’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (base64) begin installing package ‘CePa’ * installing *source* package ‘ggside’ ... ** this is package ‘ggside’ version ‘0.3.1’ ** package ‘ggside’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (ggside) begin installing package ‘ggvenn’ * installing *source* package ‘RobustRankAggreg’ ... ** this is package ‘RobustRankAggreg’ version ‘1.2.1’ ** package ‘RobustRankAggreg’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** data ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (RobustRankAggreg) begin installing package ‘hgu133plus2.db’ * installing *source* package ‘AGHmatrix’ ... ** this is package ‘AGHmatrix’ version ‘2.1.4’ ** package ‘AGHmatrix’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** data ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (AGHmatrix) begin installing package ‘distill’ * installing *source* package ‘GSA’ ... ** this is package ‘GSA’ version ‘1.03.3’ ** package ‘GSA’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (GSA) begin installing package ‘org.Rn.eg.db’ * installing *source* package ‘doMPI’ ... ** this is package ‘doMPI’ version ‘0.2.2’ ** package ‘doMPI’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** demo ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (doMPI) begin installing package ‘CoordinateCleaner’ * installing *source* package ‘openai’ ... ** this is package ‘openai’ version ‘0.4.1’ ** package ‘openai’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (openai) begin installing package ‘emld’ * installing *source* package ‘coop’ ... ** this is package ‘coop’ version ‘0.6-3’ ** package ‘coop’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C compiler: ‘gcc-14 (Debian 14.2.0-19) 14.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/Rtmpwr0S8F/R.INSTALL3152b958d9a02c/coop/src' gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c R_checks.c -o R_checks.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c R_naomit.c -o R_naomit.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c R_wrapper.c -o R_wrapper.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c coop_native.c -o coop_native.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c dense.c -o dense.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c dense_inplace.c -o dense_inplace.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c dense_pairwise.c -o dense_pairwise.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c scale.c -o scale.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c sparse.c -o sparse.o gcc-14 -std=gnu23 -shared -L/home/hornik/tmp/R-d-gcc-14/lib -Wl,-O1 -o coop.so R_checks.o R_naomit.o R_wrapper.o coop_native.o dense.o dense_inplace.o dense_pairwise.o scale.o sparse.o -llapack -L/home/hornik/tmp/R-d-gcc-14/lib -lRblas -lgfortran -lm -lquadmath -fopenmp -L/home/hornik/tmp/R-d-gcc-14/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/Rtmpwr0S8F/R.INSTALL3152b958d9a02c/coop/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-coop/00new/coop/libs ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (coop) begin installing package ‘rgnparser’ * installing *source* package ‘Rook’ ... ** this is package ‘Rook’ version ‘1.2’ ** package ‘Rook’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C compiler: ‘gcc-14 (Debian 14.2.0-19) 14.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpyreTwK/R.INSTALL3153a03034c1c/Rook/src' gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c rook.c -o rook.o gcc-14 -std=gnu23 -shared -L/home/hornik/tmp/R-d-gcc-14/lib -Wl,-O1 -o Rook.so rook.o -L/home/hornik/tmp/R-d-gcc-14/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpyreTwK/R.INSTALL3153a03034c1c/Rook/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-Rook/00new/Rook/libs ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (Rook) begin installing package ‘gprofiler2’ * installing *source* package ‘mutoss’ ... ** this is package ‘mutoss’ version ‘0.1-13’ ** package ‘mutoss’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** data *** moving datasets to lazyload DB ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (mutoss) begin installing package ‘noisyr’ * installing *source* package ‘rgnparser’ ... ** this is package ‘rgnparser’ version ‘0.3.0’ ** package ‘rgnparser’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (rgnparser) begin installing package ‘GENIE3’ * installing *source* package ‘laGP’ ... ** this is package ‘laGP’ version ‘1.5-9’ ** package ‘laGP’ successfully unpacked and MD5 sums checked ** using staged installation ** libs make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpAdzrsw/R.INSTALL3146dc621f0df/laGP/src' /home/hornik/tmp/R-d-gcc-14/bin/R CMD SHLIB -o laGP.so *.c using C compiler: ‘gcc-14 (Debian 14.2.0-19) 14.2.0’ make[2]: Entering directory '/home/hornik/tmp/scratch/RtmpAdzrsw/R.INSTALL3146dc621f0df/laGP/src' gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -DRPRINT -fopenmp -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c covar.c -o covar.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -DRPRINT -fopenmp -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c covar_sep.c -o covar_sep.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -DRPRINT -fopenmp -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c davies.c -o davies.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -DRPRINT -fopenmp -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c gamma.c -o gamma.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -DRPRINT -fopenmp -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c gp.c -o gp.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -DRPRINT -fopenmp -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c gp_sep.c -o gp_sep.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -DRPRINT -fopenmp -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c ieci.c -o ieci.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -DRPRINT -fopenmp -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c init.c -o init.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -DRPRINT -fopenmp -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c laGP.c -o laGP.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -DRPRINT -fopenmp -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c laGP_sep.c -o laGP_sep.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -DRPRINT -fopenmp -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c linalg.c -o linalg.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -DRPRINT -fopenmp -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c matrix.c -o matrix.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -DRPRINT -fopenmp -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c order.c -o order.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -DRPRINT -fopenmp -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c rbetter.c -o rbetter.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -DRPRINT -fopenmp -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c rhelp.c -o rhelp.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -DRPRINT -fopenmp -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c util.c -o util.o gcc-14 -std=gnu23 -shared -L/home/hornik/tmp/R-d-gcc-14/lib -Wl,-O1 -o laGP.so covar.o covar_sep.o davies.o gamma.o gp.o gp_sep.o ieci.o init.o laGP.o laGP_sep.o linalg.o matrix.o order.o rbetter.o rhelp.o util.o -llapack -L/home/hornik/tmp/R-d-gcc-14/lib -lRblas -lgfortran -lm -lquadmath -fopenmp -L/home/hornik/tmp/R-d-gcc-14/lib -lR make[2]: Leaving directory '/home/hornik/tmp/scratch/RtmpAdzrsw/R.INSTALL3146dc621f0df/laGP/src' make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpAdzrsw/R.INSTALL3146dc621f0df/laGP/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-laGP/00new/laGP/libs ** R ** demo ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (laGP) begin installing package ‘shinyLP’ * installing *source* package ‘ggvenn’ ... ** this is package ‘ggvenn’ version ‘0.1.10’ ** package ‘ggvenn’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (ggvenn) begin installing package ‘ggVennDiagram’ * installing *source* package ‘emld’ ... ** this is package ‘emld’ version ‘0.5.1’ ** package ‘emld’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (emld) begin installing package ‘Gmedian’ * installing *source* package ‘CePa’ ... ** this is package ‘CePa’ version ‘0.8.1’ ** package ‘CePa’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** data ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (CePa) begin installing package ‘leiden’ * installing *source* package ‘noisyr’ ... ** this is package ‘noisyr’ version ‘1.0.0’ ** package ‘noisyr’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (noisyr) begin installing package ‘qualpalr’ * installing *source* package ‘strawr’ ... ** this is package ‘strawr’ version ‘0.0.92’ ** package ‘strawr’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C++ compiler: ‘g++-14 (Debian 14.2.0-19) 14.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpXpcDAm/R.INSTALL314b5c48ae35a0/strawr/src' g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c RcppExports.cpp -o RcppExports.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c straw.cpp -o straw.o g++-14 -std=gnu++17 -shared -L/home/hornik/tmp/R-d-gcc-14/lib -Wl,-O1 -o strawr.so RcppExports.o straw.o -lcurl -lz -L/home/hornik/tmp/R-d-gcc-14/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpXpcDAm/R.INSTALL314b5c48ae35a0/strawr/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-strawr/00new/strawr/libs ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (strawr) begin installing package ‘vioplot’ * installing *source* package ‘distill’ ... ** this is package ‘distill’ version ‘1.6’ ** package ‘distill’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (distill) begin installing package ‘SharedObject’ * installing *source* package ‘shinyLP’ ... ** this is package ‘shinyLP’ version ‘1.1.3’ ** package ‘shinyLP’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (shinyLP) begin installing package ‘InteractionSet’ * installing *source* package ‘AnnotationForge’ ... ** this is package ‘AnnotationForge’ version ‘1.50.0’ ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (AnnotationForge) begin installing package ‘rslurm’ * installing *source* package ‘GENIE3’ ... ** this is package ‘GENIE3’ version ‘1.30.0’ ** using staged installation ** libs using C compiler: ‘gcc-14 (Debian 14.2.0-19) 14.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpTMaPAy/R.INSTALL3159ae33a02955/GENIE3/src' gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c GENIE3.c -o GENIE3.o GENIE3.c: In function ‘find_the_best_threshold_multiregr’: GENIE3.c:1370:27: warning: ‘best_info’ may be used uninitialized [-Wmaybe-uninitialized] 1370 | current_threshold_info=best_info; | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ GENIE3.c:1328:31: note: ‘best_info’ was declared here 1328 | SCORE_TYPE best_score=-1.0, best_info, current_score, w; | ^~~~~~~~~ GENIE3.c:1368:24: warning: ‘best_threshold’ may be used uninitialized [-Wmaybe-uninitialized] 1368 | current_threshold.f=best_threshold; | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ GENIE3.c:1329:9: note: ‘best_threshold’ was declared here 1329 | float best_threshold; | ^~~~~~~~~~~~~~ GENIE3.c: In function ‘build_one_tree_ensemble’: GENIE3.c:1052:7: warning: ‘fp’ may be used uninitialized [-Wmaybe-uninitialized] 1052 | write_one_tree(current_tree, fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ GENIE3.c:987:9: note: ‘fp’ was declared here 987 | FILE *fp; | ^~ GENIE3.c: In function ‘find_the_best_threshold_symb_multiregr’: GENIE3.c:1466:27: warning: ‘best_info’ may be used uninitialized [-Wmaybe-uninitialized] 1466 | current_threshold_info=best_info; | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ GENIE3.c:1412:31: note: ‘best_info’ was declared here 1412 | SCORE_TYPE best_score=-1.0, best_info, current_score; | ^~~~~~~~~ GENIE3.c: In function ‘compute_ltrees_variable_importance_multiregr_separate’: GENIE3.c:1753:6: warning: ‘flag_continue’ may be used uninitialized [-Wmaybe-uninitialized] 1753 | if (flag_continue == 1) { | ^ GENIE3.c:1725:7: note: ‘flag_continue’ was declared here 1725 | int flag_continue; | ^~~~~~~~~~~~~ gcc-14 -std=gnu23 -shared -L/home/hornik/tmp/R-d-gcc-14/lib -Wl,-O1 -o GENIE3.so GENIE3.o -L/home/hornik/tmp/R-d-gcc-14/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpTMaPAy/R.INSTALL3159ae33a02955/GENIE3/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-GENIE3/00new/GENIE3/libs ** R ** inst ** byte-compile and prepare package for lazy loading in method for ‘GENIE3’ with signature ‘"SummarizedExperiment"’: no definition for class “SummarizedExperiment” in method for ‘GENIE3’ with signature ‘"ExpressionSet"’: no definition for class “ExpressionSet” ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (GENIE3) begin installing package ‘BSgenome.Hsapiens.UCSC.hg19’ * installing *source* package ‘gprofiler2’ ... ** this is package ‘gprofiler2’ version ‘0.2.3’ ** package ‘gprofiler2’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (gprofiler2) begin installing package ‘smoothie’ * installing *source* package ‘rslurm’ ... ** this is package ‘rslurm’ version ‘0.6.2’ ** package ‘rslurm’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (rslurm) begin installing package ‘miniCRAN’ * installing *source* package ‘vioplot’ ... ** this is package ‘vioplot’ version ‘0.5.1’ ** package ‘vioplot’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (vioplot) begin installing package ‘foghorn’ * installing *source* package ‘synchronicity’ ... ** this is package ‘synchronicity’ version ‘1.3.10’ ** package ‘synchronicity’ successfully unpacked and MD5 sums checked ** using staged installation checking for Sun Studio compiler... no checking for OS... Linux ** libs using C++ compiler: ‘g++-14 (Debian 14.2.0-19) 14.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/Rtmp3nDFmJ/R.INSTALL31538c59f360f3/synchronicity/src' g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I../inst -DLINUX -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c RcppExports.cpp -o RcppExports.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I../inst -DLINUX -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c synchronicity.cpp -o synchronicity.o In file included from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/smart_ptr/shared_ptr.hpp:17, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/shared_ptr.hpp:17, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/date_time/local_time/local_date_time.hpp:15, from synchronicity.cpp:4: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/smart_ptr/detail/shared_count.hpp:326:33: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 326 | explicit shared_count( std::auto_ptr & r ): pi_( new sp_counted_impl_p( r.get() ) ) | ^~~~~~~~ In file included from /usr/include/c++/14/memory:78, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/move/algorithm.hpp:32, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/move/move.hpp:32, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/interprocess/anonymous_shared_memory.hpp:25, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/interprocess/detail/managed_open_or_create_impl.hpp:31, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/interprocess/sync/named_upgradable_mutex.hpp:27, from synchronicity.cpp:3: /usr/include/c++/14/bits/unique_ptr.h:59:28: note: declared here 59 | template class auto_ptr; | ^~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/smart_ptr/shared_ptr.hpp:354:31: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 354 | explicit shared_ptr( std::auto_ptr & r ): px(r.get()), pn() | ^~~~~~~~ /usr/include/c++/14/bits/unique_ptr.h:59:28: note: declared here 59 | template class auto_ptr; | ^~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/smart_ptr/shared_ptr.hpp:365:22: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 365 | shared_ptr( std::auto_ptr && r ): px(r.get()), pn() | ^~~~~~~~ /usr/include/c++/14/bits/unique_ptr.h:59:28: note: declared here 59 | template class auto_ptr; | ^~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/smart_ptr/shared_ptr.hpp:423:34: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 423 | shared_ptr & operator=( std::auto_ptr & r ) | ^~~~~~~~ /usr/include/c++/14/bits/unique_ptr.h:59:28: note: declared here 59 | template class auto_ptr; | ^~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/smart_ptr/shared_ptr.hpp:430:34: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 430 | shared_ptr & operator=( std::auto_ptr && r ) | ^~~~~~~~ /usr/include/c++/14/bits/unique_ptr.h:59:28: note: declared here 59 | template class auto_ptr; | ^~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/smart_ptr/shared_ptr.hpp: In member function ‘boost::shared_ptr& boost::shared_ptr::operator=(std::auto_ptr<_Up>&&)’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/smart_ptr/shared_ptr.hpp:432:38: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 432 | this_type( static_cast< std::auto_ptr && >( r ) ).swap( *this ); | ^~~~~~~~ /usr/include/c++/14/bits/unique_ptr.h:59:28: note: declared here 59 | template class auto_ptr; | ^~~~~~~~ In file included from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/aux_/na_assert.hpp:23, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/arg.hpp:25, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/placeholders.hpp:24, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/iterator/iterator_categories.hpp:16, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/iterator/iterator_facade.hpp:13, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/range/iterator_range_core.hpp:27, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/algorithm/string/replace.hpp:16, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/date_time/date_facet.hpp:17, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/date_time/gregorian/gregorian_io.hpp:16, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/date_time/gregorian/gregorian.hpp:31, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/date_time/posix_time/time_formatters.hpp:12, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/date_time/posix_time/posix_time.hpp:24, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/date_time/local_time/local_date_time.hpp:18: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/assert.hpp: At global scope: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/assert.hpp:194:21: warning: unnecessary parentheses in declaration of ‘assert_arg’ [-Wparentheses] 194 | failed ************ (Pred::************ | ^~~~~~~~~~~~~~~~~~~ 195 | assert_arg( void (*)(Pred), typename assert_arg_pred::type ) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 196 | ); | ~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/assert.hpp:194:21: note: remove parentheses 194 | failed ************ (Pred::************ | ^~~~~~~~~~~~~~~~~~~ | - 195 | assert_arg( void (*)(Pred), typename assert_arg_pred::type ) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 196 | ); | ~ | - /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/assert.hpp:199:21: warning: unnecessary parentheses in declaration of ‘assert_not_arg’ [-Wparentheses] 199 | failed ************ (boost::mpl::not_::************ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 200 | assert_not_arg( void (*)(Pred), typename assert_arg_pred_not::type ) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 201 | ); | ~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/assert.hpp:199:21: note: remove parentheses 199 | failed ************ (boost::mpl::not_::************ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ | - 200 | assert_not_arg( void (*)(Pred), typename assert_arg_pred_not::type ) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 201 | ); | ~ | - g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I../inst -DLINUX -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c util.cpp -o util.o g++-14 -std=gnu++17 -shared -L/home/hornik/tmp/R-d-gcc-14/lib -Wl,-O1 -o synchronicity.so RcppExports.o synchronicity.o util.o -lrt -L/home/hornik/tmp/R-d-gcc-14/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/Rtmp3nDFmJ/R.INSTALL31538c59f360f3/synchronicity/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-synchronicity/00new/synchronicity/libs ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (synchronicity) begin installing package ‘gmailr’ * installing *source* package ‘PCMBase’ ... ** this is package ‘PCMBase’ version ‘1.2.14’ ** package ‘PCMBase’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** data *** moving datasets to lazyload DB ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (PCMBase) begin installing package ‘rhub’ * installing *source* package ‘smoothie’ ... ** this is package ‘smoothie’ version ‘1.0-4’ ** package ‘smoothie’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (smoothie) begin installing package ‘dslabs’ * installing *source* package ‘ggVennDiagram’ ... ** this is package ‘ggVennDiagram’ version ‘1.5.2’ ** package ‘ggVennDiagram’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (ggVennDiagram) begin installing package ‘HistData’ * installing *source* package ‘leiden’ ... ** this is package ‘leiden’ version ‘0.4.3.1’ ** package ‘leiden’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (leiden) begin installing package ‘titanic’ * installing *source* package ‘miniCRAN’ ... ** this is package ‘miniCRAN’ version ‘0.3.1’ ** package ‘miniCRAN’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** data *** moving datasets to lazyload DB ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (miniCRAN) begin installing package ‘ssize’ * installing *source* package ‘org.Dr.eg.db’ ... ** this is package ‘org.Dr.eg.db’ version ‘3.21.0’ ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (org.Dr.eg.db) begin installing package ‘GEOmetadb’ * installing *source* package ‘dslabs’ ... ** this is package ‘dslabs’ version ‘0.8.0’ ** package ‘dslabs’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** data *** moving datasets to lazyload DB ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (dslabs) begin installing package ‘KEGGgraph’ * installing *source* package ‘HistData’ ... ** this is package ‘HistData’ version ‘0.9-3’ ** package ‘HistData’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** data *** moving datasets to lazyload DB ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (HistData) begin installing package ‘Category’ * installing *source* package ‘foghorn’ ... ** this is package ‘foghorn’ version ‘1.6.0’ ** package ‘foghorn’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (foghorn) begin installing package ‘netdiffuseR’ * installing *source* package ‘titanic’ ... ** this is package ‘titanic’ version ‘0.1.0’ ** package ‘titanic’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** data *** moving datasets to lazyload DB ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (titanic) begin installing package ‘RSiena’ * installing *source* package ‘gmailr’ ... ** this is package ‘gmailr’ version ‘2.0.0’ ** package ‘gmailr’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (gmailr) begin installing package ‘lsei’ * installing *source* package ‘ssize’ ... ** this is package ‘ssize’ version ‘1.82.0’ ** using staged installation ** R ** data ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (ssize) begin installing package ‘caroline’ * installing *source* package ‘hgu133plus2.db’ ... ** this is package ‘hgu133plus2.db’ version ‘3.13.0’ ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (hgu133plus2.db) begin installing package ‘phylotate’ * installing *source* package ‘GEOmetadb’ ... ** this is package ‘GEOmetadb’ version ‘1.70.0’ ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (GEOmetadb) begin installing package ‘ANCOMBC’ * installing *source* package ‘phylotate’ ... ** this is package ‘phylotate’ version ‘1.3’ ** package ‘phylotate’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** data ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (phylotate) begin installing package ‘ComplexUpset’ * installing *source* package ‘caroline’ ... ** this is package ‘caroline’ version ‘0.9.9’ ** package ‘caroline’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (caroline) begin installing package ‘DECIPHER’ * installing *source* package ‘RcppML’ ... ** this is package ‘RcppML’ version ‘0.3.7’ ** package ‘RcppML’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C++ compiler: ‘g++-14 (Debian 14.2.0-19) 14.2.0’ using C++11 make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpuKIglG/R.INSTALL31348220b07e9a/RcppML/src' g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I../inst/include/ -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -DEIGEN_INITIALIZE_MATRICES_BY_ZERO -DEIGEN_NO_DEBUG -fpic -g -O2 -Wall -pedantic -mtune=native -c RcppExports.cpp -o RcppExports.o In file included from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/Core:205, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/Dense:1, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/RcppEigenForward.h:28, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/RcppEigen.h:25, from RcppExports.cpp:4: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/arch/SSE/PacketMath.h:46:40: warning: ignoring attributes on template argument ‘__m128i’ [-Wignored-attributes] 46 | typedef eigen_packet_wrapper<__m128i, 0> Packet4i; | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/arch/SSE/PacketMath.h:47:40: warning: ignoring attributes on template argument ‘__m128i’ [-Wignored-attributes] 47 | typedef eigen_packet_wrapper<__m128i, 1> Packet16b; | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/arch/SSE/PacketMath.h:49:39: warning: ignoring attributes on template argument ‘__m128’ [-Wignored-attributes] 49 | template<> struct is_arithmetic<__m128> { enum { value = true }; }; | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/arch/SSE/PacketMath.h:50:40: warning: ignoring attributes on template argument ‘__m128i’ [-Wignored-attributes] 50 | template<> struct is_arithmetic<__m128i> { enum { value = true }; }; | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/arch/SSE/PacketMath.h:51:40: warning: ignoring attributes on template argument ‘__m128d’ [-Wignored-attributes] 51 | template<> struct is_arithmetic<__m128d> { enum { value = true }; }; | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/arch/SSE/PacketMath.h:222:43: warning: ignoring attributes on template argument ‘Eigen::internal::Packet4f’ {aka ‘__m128’} [-Wignored-attributes] 222 | template<> struct unpacket_traits { | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/arch/SSE/PacketMath.h:228:43: warning: ignoring attributes on template argument ‘Eigen::internal::Packet2d’ {aka ‘__m128d’} [-Wignored-attributes] 228 | template<> struct unpacket_traits { | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/arch/SSE/PacketMath.h:1124:34: warning: ignoring attributes on template argument ‘Eigen::internal::Packet4f’ {aka ‘__m128’} [-Wignored-attributes] 1124 | ptranspose(PacketBlock& kernel) { | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/arch/SSE/PacketMath.h:1129:34: warning: ignoring attributes on template argument ‘Eigen::internal::Packet2d’ {aka ‘__m128d’} [-Wignored-attributes] 1129 | ptranspose(PacketBlock& kernel) { | ^ In file included from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/Core:174: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/arch/Default/ConjHelper.h:16:60: warning: ignoring attributes on template argument ‘Eigen::internal::Packet4f’ {aka ‘__m128’} [-Wignored-attributes] 16 | struct conj_helper { \ | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/arch/SSE/Complex.h:173:1: note: in expansion of macro ‘EIGEN_MAKE_CONJ_HELPER_CPLX_REAL’ 173 | EIGEN_MAKE_CONJ_HELPER_CPLX_REAL(Packet2cf,Packet4f) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/arch/Default/ConjHelper.h:29:60: warning: ignoring attributes on template argument ‘Eigen::internal::Packet4f’ {aka ‘__m128’} [-Wignored-attributes] 29 | struct conj_helper { \ | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/arch/SSE/Complex.h:173:1: note: in expansion of macro ‘EIGEN_MAKE_CONJ_HELPER_CPLX_REAL’ 173 | EIGEN_MAKE_CONJ_HELPER_CPLX_REAL(Packet2cf,Packet4f) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/arch/Default/ConjHelper.h:16:60: warning: ignoring attributes on template argument ‘Eigen::internal::Packet2d’ {aka ‘__m128d’} [-Wignored-attributes] 16 | struct conj_helper { \ | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/arch/SSE/Complex.h:298:1: note: in expansion of macro ‘EIGEN_MAKE_CONJ_HELPER_CPLX_REAL’ 298 | EIGEN_MAKE_CONJ_HELPER_CPLX_REAL(Packet1cd,Packet2d) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/arch/Default/ConjHelper.h:29:60: warning: ignoring attributes on template argument ‘Eigen::internal::Packet2d’ {aka ‘__m128d’} [-Wignored-attributes] 29 | struct conj_helper { \ | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/arch/SSE/Complex.h:298:1: note: in expansion of macro ‘EIGEN_MAKE_CONJ_HELPER_CPLX_REAL’ 298 | EIGEN_MAKE_CONJ_HELPER_CPLX_REAL(Packet1cd,Packet2d) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/Core:165: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/util/XprHelper.h: In instantiation of ‘struct Eigen::internal::find_best_packet’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Matrix.h:22:57: required from ‘struct Eigen::internal::traits >’ 22 | typedef typename find_best_packet<_Scalar,size>::type PacketScalar; | ^~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Geometry/Quaternion.h:266:49: required from ‘struct Eigen::internal::traits >’ 266 | Alignment = internal::traits::Alignment, | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Geometry/arch/Geometry_SIMD.h:24:46: required from here 24 | ResAlignment = traits >::Alignment | ^~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:190:44: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128’} [-Wignored-attributes] 190 | bool Stop = Size==Dynamic || (Size%unpacket_traits::size)==0 || is_same::half>::value> | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:190:83: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128’} [-Wignored-attributes] 190 | bool Stop = Size==Dynamic || (Size%unpacket_traits::size)==0 || is_same::half>::value> | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:190:83: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:190:83: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(4) float>::half’ {aka ‘__m128’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:208:88: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128’} [-Wignored-attributes] 208 | typedef typename find_best_packet_helper::type>::type type; | ^~~~ In file included from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/Core:271: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:302:7: required from ‘class Eigen::DenseCoeffsBase, 1>’ 302 | class DenseCoeffsBase : public DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:555:7: required from ‘class Eigen::DenseCoeffsBase, 3>’ 555 | class DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:98:7: required from ‘class Eigen::PlainObjectBase >’ 98 | class PlainObjectBase : public internal::dense_xpr_base::type | ^~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Matrix.h:178:7: required from ‘class Eigen::Matrix’ 178 | class Matrix | ^~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Geometry/Quaternion.h:46:50: required from ‘class Eigen::QuaternionBase >’ 46 | typedef typename Coefficients::CoeffReturnType CoeffReturnType; | ^~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Geometry/Quaternion.h:273:7: required from ‘class Eigen::Quaternion’ 273 | class Quaternion : public QuaternionBase > | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Geometry/arch/Geometry_SIMD.h:27:3: required from here 27 | { | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/util/XprHelper.h: In instantiation of ‘struct Eigen::internal::find_best_packet’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Matrix.h:22:57: required from ‘struct Eigen::internal::traits >’ 22 | typedef typename find_best_packet<_Scalar,size>::type PacketScalar; | ^~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Geometry/Quaternion.h:266:49: required from ‘struct Eigen::internal::traits >’ 266 | Alignment = internal::traits::Alignment, | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Geometry/arch/Geometry_SIMD.h:98:47: required from here 98 | ResAlignment = traits >::Alignment | ^~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:190:44: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 190 | bool Stop = Size==Dynamic || (Size%unpacket_traits::size)==0 || is_same::half>::value> | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:190:83: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 190 | bool Stop = Size==Dynamic || (Size%unpacket_traits::size)==0 || is_same::half>::value> | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:190:83: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:190:83: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:208:88: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 208 | typedef typename find_best_packet_helper::type>::type type; | ^~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:302:7: required from ‘class Eigen::DenseCoeffsBase, 1>’ 302 | class DenseCoeffsBase : public DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:555:7: required from ‘class Eigen::DenseCoeffsBase, 3>’ 555 | class DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:98:7: required from ‘class Eigen::PlainObjectBase >’ 98 | class PlainObjectBase : public internal::dense_xpr_base::type | ^~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Matrix.h:178:7: required from ‘class Eigen::Matrix’ 178 | class Matrix | ^~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Geometry/Quaternion.h:46:50: required from ‘class Eigen::QuaternionBase >’ 46 | typedef typename Coefficients::CoeffReturnType CoeffReturnType; | ^~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Geometry/Quaternion.h:273:7: required from ‘class Eigen::Quaternion’ 273 | class Quaternion : public QuaternionBase > | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Geometry/arch/Geometry_SIMD.h:102:3: required from here 102 | { | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ In file included from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/SparseCore:37, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/Sparse:26, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/RcppEigenForward.h:29: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/SparseCore/SparseMatrixBase.h: In instantiation of ‘class Eigen::SparseMatrixBase >’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/SparseCore/SparseCompressedBase.h:36:7: required from ‘class Eigen::SparseCompressedBase >’ 36 | class SparseCompressedBase | ^~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/SparseCore/SparseMatrix.h:96:7: required from ‘class Eigen::SparseMatrix’ 96 | class SparseMatrix | ^~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/unsupported/Eigen/src/IterativeSolvers/ConstrainedConjGrad.h:61:25: required from here 61 | typedef Triplet T; | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/SparseCore/SparseMatrixBase.h:47:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 47 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/util/XprHelper.h: In instantiation of ‘struct Eigen::internal::find_best_packet’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Matrix.h:22:57: required from ‘struct Eigen::internal::traits >’ 22 | typedef typename find_best_packet<_Scalar,size>::type PacketScalar; | ^~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:98:7: required from ‘class Eigen::PlainObjectBase >’ 98 | class PlainObjectBase : public internal::dense_xpr_base::type | ^~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Matrix.h:178:7: required from ‘class Eigen::Matrix’ 178 | class Matrix | ^~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include/Rcpp/InputParameter.h:64:11: required from ‘class Rcpp::ConstInputParameter >’ 64 | T obj ; | ^~~ RcppExports.cpp:21:73: required from here 21 | Rcpp::traits::input_parameter< const Eigen::MatrixXd >::type w(wSEXP); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:190:44: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 190 | bool Stop = Size==Dynamic || (Size%unpacket_traits::size)==0 || is_same::half>::value> | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:190:83: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 190 | bool Stop = Size==Dynamic || (Size%unpacket_traits::size)==0 || is_same::half>::value> | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:190:83: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:190:83: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:208:88: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 208 | typedef typename find_best_packet_helper::type>::type type; | ^~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:302:7: required from ‘class Eigen::DenseCoeffsBase, 1>’ 302 | class DenseCoeffsBase : public DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:555:7: required from ‘class Eigen::DenseCoeffsBase, 3>’ 555 | class DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:98:7: required from ‘class Eigen::PlainObjectBase >’ 98 | class PlainObjectBase : public internal::dense_xpr_base::type | ^~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Matrix.h:178:7: required from ‘class Eigen::Matrix’ 178 | class Matrix | ^~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include/Rcpp/InputParameter.h:64:11: required from ‘class Rcpp::ConstInputParameter >’ 64 | T obj ; | ^~~ RcppExports.cpp:21:73: required from here 21 | Rcpp::traits::input_parameter< const Eigen::MatrixXd >::type w(wSEXP); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:302:7: required from ‘class Eigen::DenseCoeffsBase, 1>’ 302 | class DenseCoeffsBase : public DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:555:7: required from ‘class Eigen::DenseCoeffsBase, 3>’ 555 | class DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:98:7: required from ‘class Eigen::PlainObjectBase >’ 98 | class PlainObjectBase : public internal::dense_xpr_base::type | ^~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Matrix.h:178:7: required from ‘class Eigen::Matrix’ 178 | class Matrix | ^~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include/Rcpp/InputParameter.h:51:11: required from ‘class Rcpp::ReferenceInputParameter >’ 51 | T obj ; | ^~~ RcppExports.cpp:86:68: required from here 86 | Rcpp::traits::input_parameter< Eigen::VectorXd& >::type d(dSEXP); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I../inst/include/ -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -DEIGEN_INITIALIZE_MATRICES_BY_ZERO -DEIGEN_NO_DEBUG -fpic -g -O2 -Wall -pedantic -mtune=native -c RcppFunctions.cpp -o RcppFunctions.o In file included from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/Core:205, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/Dense:1, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/RcppEigenForward.h:28, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/RcppEigen.h:25, from ../inst/include/RcppMLCommon.hpp:36, from ../inst/include/RcppML.hpp:11, from RcppFunctions.cpp:8: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/arch/SSE/PacketMath.h:46:40: warning: ignoring attributes on template argument ‘__m128i’ [-Wignored-attributes] 46 | typedef eigen_packet_wrapper<__m128i, 0> Packet4i; | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/arch/SSE/PacketMath.h:47:40: warning: ignoring attributes on template argument ‘__m128i’ [-Wignored-attributes] 47 | typedef eigen_packet_wrapper<__m128i, 1> Packet16b; | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/arch/SSE/PacketMath.h:49:39: warning: ignoring attributes on template argument ‘__m128’ [-Wignored-attributes] 49 | template<> struct is_arithmetic<__m128> { enum { value = true }; }; | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/arch/SSE/PacketMath.h:50:40: warning: ignoring attributes on template argument ‘__m128i’ [-Wignored-attributes] 50 | template<> struct is_arithmetic<__m128i> { enum { value = true }; }; | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/arch/SSE/PacketMath.h:51:40: warning: ignoring attributes on template argument ‘__m128d’ [-Wignored-attributes] 51 | template<> struct is_arithmetic<__m128d> { enum { value = true }; }; | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/arch/SSE/PacketMath.h:222:43: warning: ignoring attributes on template argument ‘Eigen::internal::Packet4f’ {aka ‘__m128’} [-Wignored-attributes] 222 | template<> struct unpacket_traits { | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/arch/SSE/PacketMath.h:228:43: warning: ignoring attributes on template argument ‘Eigen::internal::Packet2d’ {aka ‘__m128d’} [-Wignored-attributes] 228 | template<> struct unpacket_traits { | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/arch/SSE/PacketMath.h:1124:34: warning: ignoring attributes on template argument ‘Eigen::internal::Packet4f’ {aka ‘__m128’} [-Wignored-attributes] 1124 | ptranspose(PacketBlock& kernel) { | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/arch/SSE/PacketMath.h:1129:34: warning: ignoring attributes on template argument ‘Eigen::internal::Packet2d’ {aka ‘__m128d’} [-Wignored-attributes] 1129 | ptranspose(PacketBlock& kernel) { | ^ In file included from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/Core:174: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/arch/Default/ConjHelper.h:16:60: warning: ignoring attributes on template argument ‘Eigen::internal::Packet4f’ {aka ‘__m128’} [-Wignored-attributes] 16 | struct conj_helper { \ | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/arch/SSE/Complex.h:173:1: note: in expansion of macro ‘EIGEN_MAKE_CONJ_HELPER_CPLX_REAL’ 173 | EIGEN_MAKE_CONJ_HELPER_CPLX_REAL(Packet2cf,Packet4f) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/arch/Default/ConjHelper.h:29:60: warning: ignoring attributes on template argument ‘Eigen::internal::Packet4f’ {aka ‘__m128’} [-Wignored-attributes] 29 | struct conj_helper { \ | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/arch/SSE/Complex.h:173:1: note: in expansion of macro ‘EIGEN_MAKE_CONJ_HELPER_CPLX_REAL’ 173 | EIGEN_MAKE_CONJ_HELPER_CPLX_REAL(Packet2cf,Packet4f) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/arch/Default/ConjHelper.h:16:60: warning: ignoring attributes on template argument ‘Eigen::internal::Packet2d’ {aka ‘__m128d’} [-Wignored-attributes] 16 | struct conj_helper { \ | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/arch/SSE/Complex.h:298:1: note: in expansion of macro ‘EIGEN_MAKE_CONJ_HELPER_CPLX_REAL’ 298 | EIGEN_MAKE_CONJ_HELPER_CPLX_REAL(Packet1cd,Packet2d) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/arch/Default/ConjHelper.h:29:60: warning: ignoring attributes on template argument ‘Eigen::internal::Packet2d’ {aka ‘__m128d’} [-Wignored-attributes] 29 | struct conj_helper { \ | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/arch/SSE/Complex.h:298:1: note: in expansion of macro ‘EIGEN_MAKE_CONJ_HELPER_CPLX_REAL’ 298 | EIGEN_MAKE_CONJ_HELPER_CPLX_REAL(Packet1cd,Packet2d) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/Core:165: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/util/XprHelper.h: In instantiation of ‘struct Eigen::internal::find_best_packet’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Matrix.h:22:57: required from ‘struct Eigen::internal::traits >’ 22 | typedef typename find_best_packet<_Scalar,size>::type PacketScalar; | ^~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Geometry/Quaternion.h:266:49: required from ‘struct Eigen::internal::traits >’ 266 | Alignment = internal::traits::Alignment, | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Geometry/arch/Geometry_SIMD.h:24:46: required from here 24 | ResAlignment = traits >::Alignment | ^~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:190:44: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128’} [-Wignored-attributes] 190 | bool Stop = Size==Dynamic || (Size%unpacket_traits::size)==0 || is_same::half>::value> | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:190:83: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128’} [-Wignored-attributes] 190 | bool Stop = Size==Dynamic || (Size%unpacket_traits::size)==0 || is_same::half>::value> | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:190:83: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:190:83: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(4) float>::half’ {aka ‘__m128’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:208:88: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128’} [-Wignored-attributes] 208 | typedef typename find_best_packet_helper::type>::type type; | ^~~~ In file included from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/Core:271: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:302:7: required from ‘class Eigen::DenseCoeffsBase, 1>’ 302 | class DenseCoeffsBase : public DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:555:7: required from ‘class Eigen::DenseCoeffsBase, 3>’ 555 | class DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:98:7: required from ‘class Eigen::PlainObjectBase >’ 98 | class PlainObjectBase : public internal::dense_xpr_base::type | ^~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Matrix.h:178:7: required from ‘class Eigen::Matrix’ 178 | class Matrix | ^~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Geometry/Quaternion.h:46:50: required from ‘class Eigen::QuaternionBase >’ 46 | typedef typename Coefficients::CoeffReturnType CoeffReturnType; | ^~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Geometry/Quaternion.h:273:7: required from ‘class Eigen::Quaternion’ 273 | class Quaternion : public QuaternionBase > | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Geometry/arch/Geometry_SIMD.h:27:3: required from here 27 | { | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/util/XprHelper.h: In instantiation of ‘struct Eigen::internal::find_best_packet’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Matrix.h:22:57: required from ‘struct Eigen::internal::traits >’ 22 | typedef typename find_best_packet<_Scalar,size>::type PacketScalar; | ^~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Geometry/Quaternion.h:266:49: required from ‘struct Eigen::internal::traits >’ 266 | Alignment = internal::traits::Alignment, | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Geometry/arch/Geometry_SIMD.h:98:47: required from here 98 | ResAlignment = traits >::Alignment | ^~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:190:44: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 190 | bool Stop = Size==Dynamic || (Size%unpacket_traits::size)==0 || is_same::half>::value> | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:190:83: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 190 | bool Stop = Size==Dynamic || (Size%unpacket_traits::size)==0 || is_same::half>::value> | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:190:83: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:190:83: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:208:88: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 208 | typedef typename find_best_packet_helper::type>::type type; | ^~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:302:7: required from ‘class Eigen::DenseCoeffsBase, 1>’ 302 | class DenseCoeffsBase : public DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:555:7: required from ‘class Eigen::DenseCoeffsBase, 3>’ 555 | class DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:98:7: required from ‘class Eigen::PlainObjectBase >’ 98 | class PlainObjectBase : public internal::dense_xpr_base::type | ^~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Matrix.h:178:7: required from ‘class Eigen::Matrix’ 178 | class Matrix | ^~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Geometry/Quaternion.h:46:50: required from ‘class Eigen::QuaternionBase >’ 46 | typedef typename Coefficients::CoeffReturnType CoeffReturnType; | ^~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Geometry/Quaternion.h:273:7: required from ‘class Eigen::Quaternion’ 273 | class Quaternion : public QuaternionBase > | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Geometry/arch/Geometry_SIMD.h:102:3: required from here 102 | { | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ In file included from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/SparseCore:37, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/Sparse:26, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/RcppEigenForward.h:29: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/SparseCore/SparseMatrixBase.h: In instantiation of ‘class Eigen::SparseMatrixBase >’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/SparseCore/SparseCompressedBase.h:36:7: required from ‘class Eigen::SparseCompressedBase >’ 36 | class SparseCompressedBase | ^~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/SparseCore/SparseMatrix.h:96:7: required from ‘class Eigen::SparseMatrix’ 96 | class SparseMatrix | ^~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/unsupported/Eigen/src/IterativeSolvers/ConstrainedConjGrad.h:61:25: required from here 61 | typedef Triplet T; | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/SparseCore/SparseMatrixBase.h:47:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 47 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/util/XprHelper.h: In instantiation of ‘struct Eigen::internal::find_best_packet’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Matrix.h:22:57: required from ‘struct Eigen::internal::traits >’ 22 | typedef typename find_best_packet<_Scalar,size>::type PacketScalar; | ^~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:98:7: required from ‘class Eigen::PlainObjectBase >’ 98 | class PlainObjectBase : public internal::dense_xpr_base::type | ^~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Matrix.h:178:7: required from ‘class Eigen::Matrix’ 178 | class Matrix | ^~~~~~ ../inst/include/RcppML/bits.hpp:48:84: required from here 48 | Eigen::MatrixXd submat(const Eigen::MatrixXd& x, const Eigen::VectorXi& col_indices){ | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:190:44: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 190 | bool Stop = Size==Dynamic || (Size%unpacket_traits::size)==0 || is_same::half>::value> | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:190:83: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 190 | bool Stop = Size==Dynamic || (Size%unpacket_traits::size)==0 || is_same::half>::value> | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:190:83: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:190:83: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:208:88: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 208 | typedef typename find_best_packet_helper::type>::type type; | ^~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:302:7: required from ‘class Eigen::DenseCoeffsBase, 1>’ 302 | class DenseCoeffsBase : public DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:555:7: required from ‘class Eigen::DenseCoeffsBase, 3>’ 555 | class DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:98:7: required from ‘class Eigen::PlainObjectBase >’ 98 | class PlainObjectBase : public internal::dense_xpr_base::type | ^~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Matrix.h:178:7: required from ‘class Eigen::Matrix’ 178 | class Matrix | ^~~~~~ ../inst/include/RcppML/bits.hpp:48:84: required from here 48 | Eigen::MatrixXd submat(const Eigen::MatrixXd& x, const Eigen::VectorXi& col_indices){ | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, -1, 1, true>, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:302:7: required from ‘class Eigen::DenseCoeffsBase, -1, 1, true>, 1>’ 302 | class DenseCoeffsBase : public DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:555:7: required from ‘class Eigen::DenseCoeffsBase, -1, 1, true>, 3>’ 555 | class DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, -1, 1, true> >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, -1, 1, true> >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MapBase.h:37:34: required from ‘class Eigen::MapBase, -1, 1, true>, 0>’ 37 | template class MapBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MapBase.h:223:34: required from ‘class Eigen::MapBase, -1, 1, true>, 1>’ 223 | template class MapBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Block.h:329:7: required from ‘class Eigen::internal::BlockImpl_dense, -1, 1, true, true>’ 329 | class BlockImpl_dense | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Block.h:154:7: required from ‘class Eigen::BlockImpl, -1, 1, true, Eigen::Dense>’ 154 | class BlockImpl | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Block.h:103:81: required from ‘class Eigen::Block, -1, 1, true>’ 103 | template class Block | ^~~~~ ../inst/include/RcppML/bits.hpp:51:11: required from here 51 | x_.col(i) = x.col(col_indices(i)); | ~~~~~~^~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, -1, 1, true>, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:481:7: required from ‘class Eigen::DenseCoeffsBase, -1, 1, true>, 2>’ 481 | class DenseCoeffsBase : public DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, -1, 1, true> >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, -1, 1, true> >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MapBase.h:37:34: required from ‘class Eigen::MapBase, -1, 1, true>, 0>’ 37 | template class MapBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Block.h:329:7: required from ‘class Eigen::internal::BlockImpl_dense, -1, 1, true, true>’ 329 | class BlockImpl_dense | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Block.h:154:7: required from ‘class Eigen::BlockImpl, -1, 1, true, Eigen::Dense>’ 154 | class BlockImpl | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Block.h:103:81: required from ‘class Eigen::Block, -1, 1, true>’ 103 | template class Block | ^~~~~ ../inst/include/RcppML/bits.hpp:51:22: required from here 51 | x_.col(i) = x.col(col_indices(i)); | ~~~~~^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:302:7: required from ‘class Eigen::DenseCoeffsBase, 1>’ 302 | class DenseCoeffsBase : public DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:555:7: required from ‘class Eigen::DenseCoeffsBase, 3>’ 555 | class DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:98:7: required from ‘class Eigen::PlainObjectBase >’ 98 | class PlainObjectBase : public internal::dense_xpr_base::type | ^~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Matrix.h:178:7: required from ‘class Eigen::Matrix’ 178 | class Matrix | ^~~~~~ ../inst/include/RcppML/bits.hpp:55:107: required from here 55 | inline Eigen::VectorXd subvec(const Eigen::MatrixXd& b, const Eigen::VectorXi& ind, const unsigned int col) { | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, 1, -1, false>, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:302:7: required from ‘class Eigen::DenseCoeffsBase, 1, -1, false>, 1>’ 302 | class DenseCoeffsBase : public DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:555:7: required from ‘class Eigen::DenseCoeffsBase, 1, -1, false>, 3>’ 555 | class DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, 1, -1, false> >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, 1, -1, false> >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MapBase.h:37:34: required from ‘class Eigen::MapBase, 1, -1, false>, 0>’ 37 | template class MapBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MapBase.h:223:34: required from ‘class Eigen::MapBase, 1, -1, false>, 1>’ 223 | template class MapBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Block.h:329:7: required from ‘class Eigen::internal::BlockImpl_dense, 1, -1, false, true>’ 329 | class BlockImpl_dense | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Block.h:154:7: required from ‘class Eigen::BlockImpl, 1, -1, false, Eigen::Dense>’ 154 | class BlockImpl | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Block.h:103:81: required from ‘class Eigen::Block, 1, -1, false>’ 103 | template class Block | ^~~~~ ../inst/include/RcppML/bits.hpp:103:20: required from here 103 | x_reordered.row(i) = x.row(ind[i]); | ~~~~~~~~~~~~~~~^~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, 1, -1, false>, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:481:7: required from ‘class Eigen::DenseCoeffsBase, 1, -1, false>, 2>’ 481 | class DenseCoeffsBase : public DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, 1, -1, false> >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, 1, -1, false> >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MapBase.h:37:34: required from ‘class Eigen::MapBase, 1, -1, false>, 0>’ 37 | template class MapBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Block.h:329:7: required from ‘class Eigen::internal::BlockImpl_dense, 1, -1, false, true>’ 329 | class BlockImpl_dense | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Block.h:154:7: required from ‘class Eigen::BlockImpl, 1, -1, false, Eigen::Dense>’ 154 | class BlockImpl | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Block.h:103:81: required from ‘class Eigen::Block, 1, -1, false>’ 103 | template class Block | ^~~~~ ../inst/include/RcppML/bits.hpp:103:31: required from here 103 | x_reordered.row(i) = x.row(ind[i]); | ~~~~~^~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, const Eigen::Matrix >, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, const Eigen::Matrix > >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, const Eigen::Matrix > >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CwiseNullaryOp.h:60:7: required from ‘class Eigen::CwiseNullaryOp, const Eigen::Matrix >’ 60 | class CwiseNullaryOp : public internal::dense_xpr_base< CwiseNullaryOp >::type, internal::no_assignment_operator | ^~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CwiseBinaryOp.h:38:28: required from ‘struct Eigen::internal::traits, const Eigen::Block, -1, 1, true>, const Eigen::CwiseNullaryOp, const Eigen::Matrix > > >’ 38 | >::type Scalar; | ^~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CwiseBinaryOp.h:148:7: required from ‘class Eigen::CwiseBinaryOpImpl, const Eigen::Block, -1, 1, true>, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, Eigen::Dense>’ 148 | class CwiseBinaryOpImpl | ^~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CwiseBinaryOp.h:77:7: required from ‘class Eigen::CwiseBinaryOp, const Eigen::Block, -1, 1, true>, const Eigen::CwiseNullaryOp, const Eigen::Matrix > >’ 77 | class CwiseBinaryOp : | ^~~~~~~~~~~~~ ../inst/include/RcppML/project.hpp:24:39: required from here 24 | b -= a.col(i) * -h(i, sample); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, const Eigen::Block, -1, 1, true>, const Eigen::CwiseNullaryOp, const Eigen::Matrix > >, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, const Eigen::Block, -1, 1, true>, const Eigen::CwiseNullaryOp, const Eigen::Matrix > > >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, const Eigen::Block, -1, 1, true>, const Eigen::CwiseNullaryOp, const Eigen::Matrix > > >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CwiseBinaryOp.h:148:7: required from ‘class Eigen::CwiseBinaryOpImpl, const Eigen::Block, -1, 1, true>, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, Eigen::Dense>’ 148 | class CwiseBinaryOpImpl | ^~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CwiseBinaryOp.h:77:7: required from ‘class Eigen::CwiseBinaryOp, const Eigen::Block, -1, 1, true>, const Eigen::CwiseNullaryOp, const Eigen::Matrix > >’ 77 | class CwiseBinaryOp : | ^~~~~~~~~~~~~ ../inst/include/RcppML/project.hpp:24:39: required from here 24 | b -= a.col(i) * -h(i, sample); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:302:7: required from ‘class Eigen::DenseCoeffsBase, 1>’ 302 | class DenseCoeffsBase : public DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:555:7: required from ‘class Eigen::DenseCoeffsBase, 3>’ 555 | class DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:98:7: required from ‘class Eigen::PlainObjectBase >’ 98 | class PlainObjectBase : public internal::dense_xpr_base::type | ^~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Matrix.h:178:7: required from ‘class Eigen::Matrix’ 178 | class Matrix | ^~~~~~ ../inst/include/RcppML/project.hpp:42:27: required from here 42 | const double a01b1 = a(0, 1) * b1; | ~^~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase >, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:481:7: required from ‘class Eigen::DenseCoeffsBase >, 2>’ 481 | class DenseCoeffsBase : public DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase > >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase > >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Transpose.h:118:37: required from ‘class Eigen::TransposeImpl, Eigen::Dense>’ 118 | template class TransposeImpl | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Transpose.h:52:37: required from ‘class Eigen::Transpose >’ 52 | template class Transpose | ^~~~~~~~~ ../inst/include/RcppML/project.hpp:106:40: required from here 106 | Eigen::Matrix2d a = w * w.transpose(); | ~~~~~~~~~~~^~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, Eigen::Transpose >, 0>, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, Eigen::Transpose >, 0> >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, Eigen::Transpose >, 0> >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Product.h:120:7: required from ‘class Eigen::internal::dense_product_base, Eigen::Transpose >, 0, 8>’ 120 | class dense_product_base | ^~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Product.h:152:7: required from ‘class Eigen::ProductImpl, Eigen::Transpose >, 0, Eigen::Dense>’ 152 | class ProductImpl | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Product.h:71:7: required from ‘class Eigen::Product, Eigen::Transpose >, 0>’ 71 | class Product : public ProductImpl<_Lhs,_Rhs,Option, | ^~~~~~~ ../inst/include/RcppML/project.hpp:106:41: required from here 106 | Eigen::Matrix2d a = w * w.transpose(); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, 0>, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:302:7: required from ‘class Eigen::DenseCoeffsBase, 0>, 1>’ 302 | class DenseCoeffsBase : public DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:555:7: required from ‘class Eigen::DenseCoeffsBase, 0>, 3>’ 555 | class DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, 0> >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, 0> >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Diagonal.h:63:53: required from ‘class Eigen::Diagonal, 0>’ 63 | template class Diagonal | ^~~~~~~~ ../inst/include/RcppML/project.hpp:107:15: required from here 107 | a.diagonal().array() += TINY_NUM; | ~~~~~~~~~~^~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/util/XprHelper.h: In instantiation of ‘struct Eigen::internal::find_best_packet’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:179:81: required from ‘class Eigen::DenseBase, 0> >’ 179 | typedef typename internal::find_best_packet::type PacketScalar; | ^~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, 0> >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Diagonal.h:63:53: required from ‘class Eigen::Diagonal, 0>’ 63 | template class Diagonal | ^~~~~~~~ ../inst/include/RcppML/project.hpp:107:15: required from here 107 | a.diagonal().array() += TINY_NUM; | ~~~~~~~~~~^~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:190:44: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 190 | bool Stop = Size==Dynamic || (Size%unpacket_traits::size)==0 || is_same::half>::value> | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:190:83: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 190 | bool Stop = Size==Dynamic || (Size%unpacket_traits::size)==0 || is_same::half>::value> | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:190:83: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:190:83: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:208:88: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 208 | typedef typename find_best_packet_helper::type>::type type; | ^~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, 0> >, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:302:7: required from ‘class Eigen::DenseCoeffsBase, 0> >, 1>’ 302 | class DenseCoeffsBase : public DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:555:7: required from ‘class Eigen::DenseCoeffsBase, 0> >, 3>’ 555 | class DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, 0> > >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/ArrayBase.h:39:34: required from ‘class Eigen::ArrayBase, 0> > >’ 39 | template class ArrayBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/ArrayWrapper.h:42:7: required from ‘class Eigen::ArrayWrapper, 0> >’ 42 | class ArrayWrapper : public ArrayBase > | ^~~~~~~~~~~~ ../inst/include/RcppML/project.hpp:107:23: required from here 107 | a.diagonal().array() += TINY_NUM; | ~~~~~~~~~~~~~~~~~~^~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, 0>, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:302:7: required from ‘class Eigen::DenseCoeffsBase, 0>, 1>’ 302 | class DenseCoeffsBase : public DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:555:7: required from ‘class Eigen::DenseCoeffsBase, 0>, 3>’ 555 | class DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, 0> >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, 0> >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Diagonal.h:63:53: required from ‘class Eigen::Diagonal, 0>’ 63 | template class Diagonal | ^~~~~~~~ ../inst/include/RcppML/project.hpp:122:17: required from here 122 | a.diagonal().array() += TINY_NUM; | ~~~~~~~~~~^~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, 0> >, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:302:7: required from ‘class Eigen::DenseCoeffsBase, 0> >, 1>’ 302 | class DenseCoeffsBase : public DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:555:7: required from ‘class Eigen::DenseCoeffsBase, 0> >, 3>’ 555 | class DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, 0> > >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/ArrayBase.h:39:34: required from ‘class Eigen::ArrayBase, 0> > >’ 39 | template class ArrayBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/ArrayWrapper.h:42:7: required from ‘class Eigen::ArrayWrapper, 0> >’ 42 | class ArrayWrapper : public ArrayBase > | ^~~~~~~~~~~~ ../inst/include/RcppML/project.hpp:122:25: required from here 122 | a.diagonal().array() += TINY_NUM; | ~~~~~~~~~~~~~~~~~~^~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, Eigen::Matrix >, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, Eigen::Matrix > >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, Eigen::Matrix > >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CwiseNullaryOp.h:60:7: required from ‘class Eigen::CwiseNullaryOp, Eigen::Matrix >’ 60 | class CwiseNullaryOp : public internal::dense_xpr_base< CwiseNullaryOp >::type, internal::no_assignment_operator | ^~~~~~~~~~~~~~ ../inst/include/RcppML/project.hpp:128:50: required from here 128 | Eigen::VectorXd b = Eigen::VectorXd::Zero(h.rows()); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Block, -1, 1, true> >, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Block, -1, 1, true> > >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Block, -1, 1, true> > >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CwiseBinaryOp.h:148:7: required from ‘class Eigen::CwiseBinaryOpImpl, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Block, -1, 1, true>, Eigen::Dense>’ 148 | class CwiseBinaryOpImpl | ^~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CwiseBinaryOp.h:77:7: required from ‘class Eigen::CwiseBinaryOp, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Block, -1, 1, true> >’ 77 | class CwiseBinaryOp : | ^~~~~~~~~~~~~ ../inst/include/RcppML/project.hpp:130:43: required from here 130 | b += it.value() * w.col(it.row()); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase >, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:302:7: required from ‘class Eigen::DenseCoeffsBase >, 1>’ 302 | class DenseCoeffsBase : public DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:555:7: required from ‘class Eigen::DenseCoeffsBase >, 3>’ 555 | class DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase > >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/ArrayBase.h:39:34: required from ‘class Eigen::ArrayBase > >’ 39 | template class ArrayBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/ArrayWrapper.h:42:7: required from ‘class Eigen::ArrayWrapper >’ 42 | class ArrayWrapper : public ArrayBase > | ^~~~~~~~~~~~ ../inst/include/RcppML/project.hpp:131:29: required from here 131 | if (L1 != 0) b.array() -= L1; | ~~~~~~~^~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, 1>, Eigen::Matrix >, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, 1>, Eigen::Matrix > >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, 1>, Eigen::Matrix > >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Solve.h:86:7: required from ‘class Eigen::SolveImpl, 1>, Eigen::Matrix, Eigen::Dense>’ 86 | class SolveImpl | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Solve.h:62:7: required from ‘class Eigen::Solve, 1>, Eigen::Matrix >’ 62 | class Solve : public SolveImpl::StorageKind> | ^~~~~ ../inst/include/RcppML/project.hpp:133:31: required from here 133 | h.col(i) = a_llt.solve(b); | ~~~~~~~~~~~^~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, -1, 1, true> >, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:302:7: required from ‘class Eigen::DenseCoeffsBase, -1, 1, true> >, 1>’ 302 | class DenseCoeffsBase : public DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:555:7: required from ‘class Eigen::DenseCoeffsBase, -1, 1, true> >, 3>’ 555 | class DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, -1, 1, true> > >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/ArrayBase.h:39:34: required from ‘class Eigen::ArrayBase, -1, 1, true> > >’ 39 | template class ArrayBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/ArrayWrapper.h:42:7: required from ‘class Eigen::ArrayWrapper, -1, 1, true> >’ 42 | class ArrayWrapper : public ArrayBase > | ^~~~~~~~~~~~ ../inst/include/RcppML/project.hpp:134:38: required from here 134 | if (nonneg && (h.col(i).array() < 0).any()) { | ~~~~~~~~~~~~~~^~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, Eigen::Array >, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, Eigen::Array > >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/ArrayBase.h:39:34: required from ‘class Eigen::ArrayBase, Eigen::Array > >’ 39 | template class ArrayBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CwiseNullaryOp.h:60:7: required from ‘class Eigen::CwiseNullaryOp, Eigen::Array >’ 60 | class CwiseNullaryOp : public internal::dense_xpr_base< CwiseNullaryOp >::type, internal::no_assignment_operator | ^~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CwiseBinaryOp.h:38:28: required from ‘struct Eigen::internal::traits, const Eigen::ArrayWrapper, -1, 1, true> >, const Eigen::CwiseNullaryOp, Eigen::Array > > >’ 38 | >::type Scalar; | ^~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CwiseBinaryOp.h:148:7: required from ‘class Eigen::CwiseBinaryOpImpl, const Eigen::ArrayWrapper, -1, 1, true> >, const Eigen::CwiseNullaryOp, Eigen::Array >, Eigen::Dense>’ 148 | class CwiseBinaryOpImpl | ^~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CwiseBinaryOp.h:77:7: required from ‘class Eigen::CwiseBinaryOp, const Eigen::ArrayWrapper, -1, 1, true> >, const Eigen::CwiseNullaryOp, Eigen::Array > >’ 77 | class CwiseBinaryOp : | ^~~~~~~~~~~~~ ../inst/include/RcppML/project.hpp:134:43: required from here 134 | if (nonneg && (h.col(i).array() < 0).any()) { | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, Eigen::Block, -1, 1, true>, 0>, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, Eigen::Block, -1, 1, true>, 0> >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, Eigen::Block, -1, 1, true>, 0> >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Product.h:120:7: required from ‘class Eigen::internal::dense_product_base, Eigen::Block, -1, 1, true>, 0, 7>’ 120 | class dense_product_base | ^~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Product.h:152:7: required from ‘class Eigen::ProductImpl, Eigen::Block, -1, 1, true>, 0, Eigen::Dense>’ 152 | class ProductImpl | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Product.h:71:7: required from ‘class Eigen::Product, Eigen::Block, -1, 1, true>, 0>’ 71 | class Product : public ProductImpl<_Lhs,_Rhs,Option, | ^~~~~~~ ../inst/include/RcppML/project.hpp:136:27: required from here 136 | b -= a * h.col(i); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase >, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:302:7: required from ‘class Eigen::DenseCoeffsBase >, 1>’ 302 | class DenseCoeffsBase : public DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:555:7: required from ‘class Eigen::DenseCoeffsBase >, 3>’ 555 | class DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase > >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase > >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Transpose.h:118:37: required from ‘class Eigen::TransposeImpl, Eigen::Dense>’ 118 | template class TransposeImpl | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Transpose.h:52:37: required from ‘class Eigen::Transpose >’ 52 | template class Transpose | ^~~~~~~~~ ../inst/include/RcppML/project.hpp:149:46: required from here 149 | Eigen::MatrixXd a = w_ * w_.transpose(); | ~~~~~~~~~~~~^~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, Eigen::Transpose >, 0>, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, Eigen::Transpose >, 0> >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, Eigen::Transpose >, 0> >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Product.h:120:7: required from ‘class Eigen::internal::dense_product_base, Eigen::Transpose >, 0, 8>’ 120 | class dense_product_base | ^~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Product.h:152:7: required from ‘class Eigen::ProductImpl, Eigen::Transpose >, 0, Eigen::Dense>’ 152 | class ProductImpl | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Product.h:71:7: required from ‘class Eigen::Product, Eigen::Transpose >, 0>’ 71 | class Product : public ProductImpl<_Lhs,_Rhs,Option, | ^~~~~~~ ../inst/include/RcppML/project.hpp:149:47: required from here 149 | Eigen::MatrixXd a = w_ * w_.transpose(); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, Eigen::Block, -1, 1, true>, 0>, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, Eigen::Block, -1, 1, true>, 0> >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, Eigen::Block, -1, 1, true>, 0> >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Product.h:120:7: required from ‘class Eigen::internal::dense_product_base, Eigen::Block, -1, 1, true>, 0, 7>’ 120 | class dense_product_base | ^~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Product.h:152:7: required from ‘class Eigen::ProductImpl, Eigen::Block, -1, 1, true>, 0, Eigen::Dense>’ 152 | class ProductImpl | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Product.h:71:7: required from ‘class Eigen::Product, Eigen::Block, -1, 1, true>, 0>’ 71 | class Product : public ProductImpl<_Lhs,_Rhs,Option, | ^~~~~~~ ../inst/include/RcppML/project.hpp:198:23: required from here 198 | b += w * A.col(i); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase >, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:302:7: required from ‘class Eigen::DenseCoeffsBase >, 1>’ 302 | class DenseCoeffsBase : public DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:555:7: required from ‘class Eigen::DenseCoeffsBase >, 3>’ 555 | class DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase > >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/ArrayBase.h:39:34: required from ‘class Eigen::ArrayBase > >’ 39 | template class ArrayBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/ArrayWrapper.h:42:7: required from ‘class Eigen::ArrayWrapper >’ 42 | class ArrayWrapper : public ArrayBase > | ^~~~~~~~~~~~ ../inst/include/RcppML/project.hpp:247:25: required from here 247 | if (L1 != 0) w.array() -= L1; | ~~~~~~~^~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, const Eigen::ArrayWrapper > >, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, const Eigen::ArrayWrapper > > >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/ArrayBase.h:39:34: required from ‘class Eigen::ArrayBase, const Eigen::ArrayWrapper > > >’ 39 | template class ArrayBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CwiseUnaryOp.h:94:7: required from ‘class Eigen::CwiseUnaryOpImpl, const Eigen::ArrayWrapper >, Eigen::Dense>’ 94 | class CwiseUnaryOpImpl | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CwiseUnaryOp.h:55:7: required from ‘class Eigen::CwiseUnaryOp, const Eigen::ArrayWrapper > >’ 55 | class CwiseUnaryOp : public CwiseUnaryOpImpl::StorageKind>, internal::no_assignment_operator | ^~~~~~~~~~~~ ../inst/include/RcppML/nmf.hpp:101:41: required from here 101 | sq_loss += wh_i.array().square().sum(); | ~~~~~~~~~~~~~~~~~~~^~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, Eigen::internal::member_sum, 1>, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, Eigen::internal::member_sum, 1> >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, Eigen::internal::member_sum, 1> >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/VectorwiseOp.h:56:7: required from ‘class Eigen::PartialReduxExpr, Eigen::internal::member_sum, 1>’ 56 | class PartialReduxExpr : public internal::dense_xpr_base< PartialReduxExpr >::type, | ^~~~~~~~~~~~~~~~ ../inst/include/RcppML/nmf.hpp:154:26: required from here 154 | d = w.rowwise().sum(); | ~~~~~~~~~~~~~~~^~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, 1>, Eigen::Block, -1, 1, true> >, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, 1>, Eigen::Block, -1, 1, true> > >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, 1>, Eigen::Block, -1, 1, true> > >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Solve.h:86:7: required from ‘class Eigen::SolveImpl, 1>, Eigen::Block, -1, 1, true>, Eigen::Dense>’ 86 | class SolveImpl | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Solve.h:62:7: required from ‘class Eigen::Solve, 1>, Eigen::Block, -1, 1, true> >’ 62 | class Solve : public SolveImpl::StorageKind> | ^~~~~ RcppFunctions.cpp:259:31: required from here 259 | x.col(col) = a_llt.solve(b.col(col)); | ~~~~~~~~~~~^~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, Eigen::Matrix, Eigen::Matrix >, Eigen::Matrix >, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, Eigen::Matrix, Eigen::Matrix >, Eigen::Matrix > >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, Eigen::Matrix, Eigen::Matrix >, Eigen::Matrix > >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CwiseNullaryOp.h:60:7: required from ‘class Eigen::CwiseNullaryOp, Eigen::Matrix, Eigen::Matrix >, Eigen::Matrix >’ 60 | class CwiseNullaryOp : public internal::dense_xpr_base< CwiseNullaryOp >::type, internal::no_assignment_operator | ^~~~~~~~~~~~~~ RcppFunctions.cpp:264:38: required from here 264 | Eigen::MatrixXd asub = submat(a, gtz_ind, gtz_ind); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, const Eigen::Block, -1, 1, true>, const Eigen::CwiseNullaryOp, const Eigen::Matrix > >, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, const Eigen::Block, -1, 1, true>, const Eigen::CwiseNullaryOp, const Eigen::Matrix > > >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, const Eigen::Block, -1, 1, true>, const Eigen::CwiseNullaryOp, const Eigen::Matrix > > >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CwiseBinaryOp.h:148:7: required from ‘class Eigen::CwiseBinaryOpImpl, const Eigen::Block, -1, 1, true>, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, Eigen::Dense>’ 148 | class CwiseBinaryOpImpl | ^~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CwiseBinaryOp.h:77:7: required from ‘class Eigen::CwiseBinaryOp, const Eigen::Block, -1, 1, true>, const Eigen::CwiseNullaryOp, const Eigen::Matrix > >’ 77 | class CwiseBinaryOp : | ^~~~~~~~~~~~~ RcppFunctions.cpp:281:49: required from here 281 | b.col(col) -= a.col(i) * -x(i, col); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:302:7: required from ‘class Eigen::DenseCoeffsBase, 1>’ 302 | class DenseCoeffsBase : public DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:555:7: required from ‘class Eigen::DenseCoeffsBase, 3>’ 555 | class DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/ArrayBase.h:39:34: required from ‘class Eigen::ArrayBase >’ 39 | template class ArrayBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:98:7: required from ‘class Eigen::PlainObjectBase >’ 98 | class PlainObjectBase : public internal::dense_xpr_base::type | ^~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Array.h:45:7: required from ‘class Eigen::Array’ 45 | class Array | ^~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/SelfCwiseBinaryOp.h:27:67: required from ‘Derived& Eigen::ArrayBase::operator+=(const Scalar&) [with Derived = Eigen::ArrayWrapper, 0> >; Scalar = double]’ 27 | internal::call_assignment(this->derived(), PlainObject::Constant(rows(),cols(),other), internal::add_assign_op()); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ ../inst/include/RcppML/project.hpp:107:29: required from here 21 | #define TINY_NUM 1e-15 // epsilon for numerical stability | ^~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, Eigen::Array >, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, Eigen::Array > >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/ArrayBase.h:39:34: required from ‘class Eigen::ArrayBase, Eigen::Array > >’ 39 | template class ArrayBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CwiseNullaryOp.h:60:7: required from ‘class Eigen::CwiseNullaryOp, Eigen::Array >’ 60 | class CwiseNullaryOp : public internal::dense_xpr_base< CwiseNullaryOp >::type, internal::no_assignment_operator | ^~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/SelfCwiseBinaryOp.h:27:67: required from ‘Derived& Eigen::ArrayBase::operator+=(const Scalar&) [with Derived = Eigen::ArrayWrapper, 0> >; Scalar = double]’ 27 | internal::call_assignment(this->derived(), PlainObject::Constant(rows(),cols(),other), internal::add_assign_op()); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ ../inst/include/RcppML/project.hpp:107:29: required from here 21 | #define TINY_NUM 1e-15 // epsilon for numerical stability | ^~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:302:7: required from ‘class Eigen::DenseCoeffsBase, 1>’ 302 | class DenseCoeffsBase : public DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:555:7: required from ‘class Eigen::DenseCoeffsBase, 3>’ 555 | class DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/ArrayBase.h:39:34: required from ‘class Eigen::ArrayBase >’ 39 | template class ArrayBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:98:7: required from ‘class Eigen::PlainObjectBase >’ 98 | class PlainObjectBase : public internal::dense_xpr_base::type | ^~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Array.h:45:7: required from ‘class Eigen::Array’ 45 | class Array | ^~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/SelfCwiseBinaryOp.h:27:67: required from ‘Derived& Eigen::ArrayBase::operator+=(const Scalar&) [with Derived = Eigen::ArrayWrapper, 0> >; Scalar = double]’ 27 | internal::call_assignment(this->derived(), PlainObject::Constant(rows(),cols(),other), internal::add_assign_op()); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ ../inst/include/RcppML/project.hpp:122:31: required from here 21 | #define TINY_NUM 1e-15 // epsilon for numerical stability | ^~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ In file included from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/Core:277: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h: In instantiation of ‘struct Eigen::internal::evaluator, -1, 1, true> >’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:1384:41: required from ‘struct Eigen::internal::evaluator_wrapper_base, -1, 1, true> > >’ 1384 | CoeffReadCost = evaluator::CoeffReadCost, | ^~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:1464:8: required from ‘struct Eigen::internal::unary_evaluator, -1, 1, true> >, Eigen::internal::IndexBased, double>’ 1464 | struct unary_evaluator > | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:90:8: required from ‘struct Eigen::internal::evaluator, -1, 1, true> > >’ 90 | struct evaluator : public unary_evaluator | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:100:8: required from ‘struct Eigen::internal::evaluator, -1, 1, true> > >’ 100 | struct evaluator | ^~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:739:41: required from ‘struct Eigen::internal::binary_evaluator, const Eigen::ArrayWrapper, -1, 1, true> >, const Eigen::CwiseNullaryOp, Eigen::Array > >, Eigen::internal::IndexBased, Eigen::internal::IndexBased, double, double>’ 739 | CoeffReadCost = int(evaluator::CoeffReadCost) + int(evaluator::CoeffReadCost) + int(functor_traits::Cost), | ^~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:722:8: required from ‘struct Eigen::internal::evaluator, const Eigen::ArrayWrapper, -1, 1, true> >, const Eigen::CwiseNullaryOp, Eigen::Array > > >’ 722 | struct evaluator > | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/BooleanRedux.h:108:50: required from ‘bool Eigen::DenseBase::any() const [with Derived = Eigen::CwiseBinaryOp, const Eigen::ArrayWrapper, -1, 1, true> >, const Eigen::CwiseNullaryOp, Eigen::Array > >]’ 108 | && SizeAtCompileTime * (int(Evaluator::CoeffReadCost) + int(NumTraits::AddCost)) <= EIGEN_UNROLLING_LIMIT | ^~~~~~~~~~~~~ ../inst/include/RcppML/project.hpp:134:49: required from here 134 | if (nonneg && (h.col(i).array() < 0).any()) { | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:1071:54: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 1071 | PacketAlignment = unpacket_traits::alignment, | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:302:7: required from ‘class Eigen::DenseCoeffsBase, 1>’ 302 | class DenseCoeffsBase : public DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:555:7: required from ‘class Eigen::DenseCoeffsBase, 3>’ 555 | class DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/ArrayBase.h:39:34: required from ‘class Eigen::ArrayBase >’ 39 | template class ArrayBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:98:7: required from ‘class Eigen::PlainObjectBase >’ 98 | class PlainObjectBase : public internal::dense_xpr_base::type | ^~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Array.h:45:7: required from ‘class Eigen::Array’ 45 | class Array | ^~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/SelfCwiseBinaryOp.h:34:67: required from ‘Derived& Eigen::ArrayBase::operator-=(const Scalar&) [with Derived = Eigen::ArrayWrapper >; Scalar = double]’ 34 | internal::call_assignment(this->derived(), PlainObject::Constant(rows(),cols(),other), internal::sub_assign_op()); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ ../inst/include/RcppML/project.hpp:247:31: required from here 247 | if (L1 != 0) w.array() -= L1; | ^~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, Eigen::Array >, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, Eigen::Array > >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/ArrayBase.h:39:34: required from ‘class Eigen::ArrayBase, Eigen::Array > >’ 39 | template class ArrayBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CwiseNullaryOp.h:60:7: required from ‘class Eigen::CwiseNullaryOp, Eigen::Array >’ 60 | class CwiseNullaryOp : public internal::dense_xpr_base< CwiseNullaryOp >::type, internal::no_assignment_operator | ^~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/SelfCwiseBinaryOp.h:34:67: required from ‘Derived& Eigen::ArrayBase::operator-=(const Scalar&) [with Derived = Eigen::ArrayWrapper >; Scalar = double]’ 34 | internal::call_assignment(this->derived(), PlainObject::Constant(rows(),cols(),other), internal::sub_assign_op()); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ ../inst/include/RcppML/project.hpp:247:31: required from here 247 | if (L1 != 0) w.array() -= L1; | ^~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, Eigen::Matrix >, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, Eigen::Matrix > >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, Eigen::Matrix > >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CwiseNullaryOp.h:60:7: required from ‘class Eigen::CwiseNullaryOp, Eigen::Matrix >’ 60 | class CwiseNullaryOp : public internal::dense_xpr_base< CwiseNullaryOp >::type, internal::no_assignment_operator | ^~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CwiseNullaryOp.h:347:30: required from ‘Derived& Eigen::DenseBase::setConstant(const Scalar&) [with Derived = Eigen::Matrix; Scalar = double]’ 347 | return derived() = Constant(rows(), cols(), val); | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CwiseNullaryOp.h:548:10: required from ‘Derived& Eigen::DenseBase::setZero() [with Derived = Eigen::Matrix]’ 548 | return setConstant(Scalar(0)); | ^~~~~~~~~~~ ../inst/include/RcppML/project.hpp:97:14: required from here 97 | h.setZero(); | ~~~~~~~~~^~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, -1, 1, true>, -1, 1, false>, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:302:7: required from ‘class Eigen::DenseCoeffsBase, -1, 1, true>, -1, 1, false>, 1>’ 302 | class DenseCoeffsBase : public DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:555:7: required from ‘class Eigen::DenseCoeffsBase, -1, 1, true>, -1, 1, false>, 3>’ 555 | class DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, -1, 1, true>, -1, 1, false> >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, -1, 1, true>, -1, 1, false> >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MapBase.h:37:34: required from ‘class Eigen::MapBase, -1, 1, true>, -1, 1, false>, 0>’ 37 | template class MapBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MapBase.h:223:34: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Block.h:103:81: required from ‘class Eigen::Block, -1, 1, true>, -1, 1, false>’ 103 | template class Block | ^~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/VectorBlock.h:56:47: required from ‘class Eigen::VectorBlock, -1, 1, true>, -1>’ 56 | template class VectorBlock | ^~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:448:43: required from ‘Eigen::LLT<_MatrixType, _UpLo>& Eigen::LLT::compute(const Eigen::EigenBase&) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix; int _UpLo = 1]’ 448 | abs_col_sum = m_matrix.col(col).tail(size - col).template lpNorm<1>() + m_matrix.row(col).head(col).template lpNorm<1>(); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:109:14: required from ‘Eigen::LLT::LLT(const Eigen::EigenBase&) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix; int _UpLo = 1]’ 109 | compute(matrix.derived()); | ~~~~~~~^~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:542:10: required from ‘const Eigen::LLT::PlainObject> Eigen::MatrixBase::llt() const [with Derived = Eigen::Matrix; typename Eigen::DenseBase::PlainObject = Eigen::Matrix]’ 542 | return LLT(derived()); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../inst/include/RcppML/project.hpp:123:51: required from here 123 | Eigen::LLT a_llt = a.llt(); | ~~~~~^~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, 1, -1, false>, 1, -1, false>, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:302:7: required from ‘class Eigen::DenseCoeffsBase, 1, -1, false>, 1, -1, false>, 1>’ 302 | class DenseCoeffsBase : public DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:555:7: required from ‘class Eigen::DenseCoeffsBase, 1, -1, false>, 1, -1, false>, 3>’ 555 | class DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, 1, -1, false>, 1, -1, false> >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, 1, -1, false>, 1, -1, false> >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MapBase.h:37:34: required from ‘class Eigen::MapBase, 1, -1, false>, 1, -1, false>, 0>’ 37 | template class MapBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MapBase.h:223:34: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Block.h:103:81: required from ‘class Eigen::Block, 1, -1, false>, 1, -1, false>’ 103 | template class Block | ^~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/VectorBlock.h:56:47: required from ‘class Eigen::VectorBlock, 1, -1, false>, -1>’ 56 | template class VectorBlock | ^~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:448:101: required from ‘Eigen::LLT<_MatrixType, _UpLo>& Eigen::LLT::compute(const Eigen::EigenBase&) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix; int _UpLo = 1]’ 448 | abs_col_sum = m_matrix.col(col).tail(size - col).template lpNorm<1>() + m_matrix.row(col).head(col).template lpNorm<1>(); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:109:14: required from ‘Eigen::LLT::LLT(const Eigen::EigenBase&) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix; int _UpLo = 1]’ 109 | compute(matrix.derived()); | ~~~~~~~^~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:542:10: required from ‘const Eigen::LLT::PlainObject> Eigen::MatrixBase::llt() const [with Derived = Eigen::Matrix; typename Eigen::DenseBase::PlainObject = Eigen::Matrix]’ 542 | return LLT(derived()); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../inst/include/RcppML/project.hpp:123:51: required from here 123 | Eigen::LLT a_llt = a.llt(); | ~~~~~^~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘Eigen::Index Eigen::internal::first_default_aligned(const Eigen::DenseBase&) [with Derived = Eigen::CwiseUnaryOp, const Eigen::ArrayWrapper > >; Eigen::Index = long int]’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Redux.h:243:63: required from ‘static Eigen::internal::redux_impl::Scalar Eigen::internal::redux_impl::run(const Evaluator&, const Func&, const XprType&) [with XprType = Eigen::CwiseUnaryOp, const Eigen::ArrayWrapper > >; Func = Eigen::internal::scalar_sum_op; Evaluator = Eigen::internal::redux_evaluator, const Eigen::ArrayWrapper > > >; Scalar = double]’ 243 | const Index alignedStart = internal::first_default_aligned(xpr); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Redux.h:418:56: required from ‘typename Eigen::internal::traits::Scalar Eigen::DenseBase::redux(const Func&) const [with BinaryOp = Eigen::internal::scalar_sum_op; Derived = Eigen::CwiseUnaryOp, const Eigen::ArrayWrapper > >; typename Eigen::internal::traits::Scalar = double]’ 418 | return internal::redux_impl::run(thisEval, func, derived()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Redux.h:463:25: required from ‘typename Eigen::internal::traits::Scalar Eigen::DenseBase::sum() const [with Derived = Eigen::CwiseUnaryOp, const Eigen::ArrayWrapper > >; typename Eigen::internal::traits::Scalar = double]’ 463 | return derived().redux(Eigen::internal::scalar_sum_op()); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../inst/include/RcppML/nmf.hpp:101:47: required from here 101 | sq_loss += wh_i.array().square().sum(); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:654:74: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 654 | return internal::first_aligned::alignment),Derived>(m); | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘Eigen::Index Eigen::internal::first_default_aligned(const Eigen::DenseBase&) [with Derived = Eigen::Matrix; Eigen::Index = long int]’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Redux.h:243:63: required from ‘static Eigen::internal::redux_impl::Scalar Eigen::internal::redux_impl::run(const Evaluator&, const Func&, const XprType&) [with XprType = Eigen::Matrix; Func = Eigen::internal::scalar_sum_op; Evaluator = Eigen::internal::redux_evaluator >; Scalar = double]’ 243 | const Index alignedStart = internal::first_default_aligned(xpr); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Redux.h:418:56: required from ‘typename Eigen::internal::traits::Scalar Eigen::DenseBase::redux(const Func&) const [with BinaryOp = Eigen::internal::scalar_sum_op; Derived = Eigen::Matrix; typename Eigen::internal::traits::Scalar = double]’ 418 | return internal::redux_impl::run(thisEval, func, derived()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Redux.h:463:25: required from ‘typename Eigen::internal::traits::Scalar Eigen::DenseBase::sum() const [with Derived = Eigen::Matrix; typename Eigen::internal::traits::Scalar = double]’ 463 | return derived().redux(Eigen::internal::scalar_sum_op()); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../inst/include/RcppML/nmf.hpp:134:24: required from here 134 | return losses.sum() / (h.cols() * w.cols()); | ~~~~~~~~~~^~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:654:74: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 654 | return internal::first_aligned::alignment),Derived>(m); | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, const Eigen::Block, -1, 1, true>, -1, 1, false> >, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, const Eigen::Block, -1, 1, true>, -1, 1, false> > >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, const Eigen::Block, -1, 1, true>, -1, 1, false> > >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CwiseUnaryOp.h:94:7: required from ‘class Eigen::CwiseUnaryOpImpl, const Eigen::Block, -1, 1, true>, -1, 1, false>, Eigen::Dense>’ 94 | class CwiseUnaryOpImpl | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CwiseUnaryOp.h:55:7: required from ‘class Eigen::CwiseUnaryOp, const Eigen::Block, -1, 1, true>, -1, 1, false> >’ 55 | class CwiseUnaryOp : public CwiseUnaryOpImpl::StorageKind>, internal::no_assignment_operator | ^~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Dot.h:221:22: required from ‘static typename Eigen::NumTraits::Scalar>::Real Eigen::internal::lpNorm_selector::run(const Eigen::MatrixBase&) [with Derived = Eigen::Block, -1, 1, true>, -1, 1, false>; typename Eigen::NumTraits::Scalar>::Real = double; typename Eigen::internal::traits::Scalar = double]’ 221 | return m.cwiseAbs().sum(); | ~~~~~~~~~~^~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Dot.h:269:52: required from ‘typename Eigen::NumTraits::Scalar>::Real Eigen::MatrixBase::lpNorm() const [with int p = 1; Derived = Eigen::Block, -1, 1, true>, -1, 1, false>; typename Eigen::NumTraits::Scalar>::Real = double; typename Eigen::internal::traits::Scalar = double]’ 269 | return internal::lpNorm_selector::run(*this); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:448:74: required from ‘Eigen::LLT<_MatrixType, _UpLo>& Eigen::LLT::compute(const Eigen::EigenBase&) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix; int _UpLo = 1]’ 448 | abs_col_sum = m_matrix.col(col).tail(size - col).template lpNorm<1>() + m_matrix.row(col).head(col).template lpNorm<1>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:109:14: required from ‘Eigen::LLT::LLT(const Eigen::EigenBase&) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix; int _UpLo = 1]’ 109 | compute(matrix.derived()); | ~~~~~~~^~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:542:10: required from ‘const Eigen::LLT::PlainObject> Eigen::MatrixBase::llt() const [with Derived = Eigen::Matrix; typename Eigen::DenseBase::PlainObject = Eigen::Matrix]’ 542 | return LLT(derived()); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../inst/include/RcppML/project.hpp:123:51: required from here 123 | Eigen::LLT a_llt = a.llt(); | ~~~~~^~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, const Eigen::Block, 1, -1, false>, 1, -1, false> >, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, const Eigen::Block, 1, -1, false>, 1, -1, false> > >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, const Eigen::Block, 1, -1, false>, 1, -1, false> > >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CwiseUnaryOp.h:94:7: required from ‘class Eigen::CwiseUnaryOpImpl, const Eigen::Block, 1, -1, false>, 1, -1, false>, Eigen::Dense>’ 94 | class CwiseUnaryOpImpl | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CwiseUnaryOp.h:55:7: required from ‘class Eigen::CwiseUnaryOp, const Eigen::Block, 1, -1, false>, 1, -1, false> >’ 55 | class CwiseUnaryOp : public CwiseUnaryOpImpl::StorageKind>, internal::no_assignment_operator | ^~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Dot.h:221:22: required from ‘static typename Eigen::NumTraits::Scalar>::Real Eigen::internal::lpNorm_selector::run(const Eigen::MatrixBase&) [with Derived = Eigen::Block, 1, -1, false>, 1, -1, false>; typename Eigen::NumTraits::Scalar>::Real = double; typename Eigen::internal::traits::Scalar = double]’ 221 | return m.cwiseAbs().sum(); | ~~~~~~~~~~^~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Dot.h:269:52: required from ‘typename Eigen::NumTraits::Scalar>::Real Eigen::MatrixBase::lpNorm() const [with int p = 1; Derived = Eigen::Block, 1, -1, false>, 1, -1, false>; typename Eigen::NumTraits::Scalar>::Real = double; typename Eigen::internal::traits::Scalar = double]’ 269 | return internal::lpNorm_selector::run(*this); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:448:125: required from ‘Eigen::LLT<_MatrixType, _UpLo>& Eigen::LLT::compute(const Eigen::EigenBase&) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix; int _UpLo = 1]’ 448 | abs_col_sum = m_matrix.col(col).tail(size - col).template lpNorm<1>() + m_matrix.row(col).head(col).template lpNorm<1>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:109:14: required from ‘Eigen::LLT::LLT(const Eigen::EigenBase&) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix; int _UpLo = 1]’ 109 | compute(matrix.derived()); | ~~~~~~~^~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:542:10: required from ‘const Eigen::LLT::PlainObject> Eigen::MatrixBase::llt() const [with Derived = Eigen::Matrix; typename Eigen::DenseBase::PlainObject = Eigen::Matrix]’ 542 | return LLT(derived()); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../inst/include/RcppML/project.hpp:123:51: required from here 123 | Eigen::LLT a_llt = a.llt(); | ~~~~~^~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, -1, -1, false>, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:302:7: required from ‘class Eigen::DenseCoeffsBase, -1, -1, false>, 1>’ 302 | class DenseCoeffsBase : public DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:555:7: required from ‘class Eigen::DenseCoeffsBase, -1, -1, false>, 3>’ 555 | class DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, -1, -1, false> >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, -1, -1, false> >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MapBase.h:37:34: required from ‘class Eigen::MapBase, -1, -1, false>, 0>’ 37 | template class MapBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MapBase.h:223:34: [ skipping 4 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:358:41: required from ‘static Eigen::Index Eigen::internal::llt_inplace::blocked(MatrixType&) [with MatrixType = Eigen::Matrix; Scalar = double; Eigen::Index = long int]’ 358 | Block A11(m,k, k, bs,bs); | ^~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:408:68: required from ‘static bool Eigen::internal::LLT_Traits::inplace_decomposition(MatrixType&) [with MatrixType = Eigen::Matrix]’ 408 | { return llt_inplace::blocked(m)==-1; } | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:456:42: required from ‘Eigen::LLT<_MatrixType, _UpLo>& Eigen::LLT::compute(const Eigen::EigenBase&) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix; int _UpLo = 1]’ 456 | bool ok = Traits::inplace_decomposition(m_matrix); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:109:14: required from ‘Eigen::LLT::LLT(const Eigen::EigenBase&) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix; int _UpLo = 1]’ 109 | compute(matrix.derived()); | ~~~~~~~^~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:542:10: required from ‘const Eigen::LLT::PlainObject> Eigen::MatrixBase::llt() const [with Derived = Eigen::Matrix; typename Eigen::DenseBase::PlainObject = Eigen::Matrix]’ 542 | return LLT(derived()); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../inst/include/RcppML/project.hpp:123:51: required from here 123 | Eigen::LLT a_llt = a.llt(); | ~~~~~^~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, -1, -1, false> >, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:481:7: required from ‘class Eigen::DenseCoeffsBase, -1, -1, false> >, 2>’ 481 | class DenseCoeffsBase : public DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, -1, -1, false> > >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, -1, -1, false> > >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Transpose.h:118:37: required from ‘class Eigen::TransposeImpl, -1, -1, false>, Eigen::Dense>’ 118 | template class TransposeImpl | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Transpose.h:52:37: required from ‘class Eigen::Transpose, -1, -1, false> >’ 52 | template class Transpose | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:364:27: required from ‘static Eigen::Index Eigen::internal::llt_inplace::blocked(MatrixType&) [with MatrixType = Eigen::Matrix; Scalar = double; Eigen::Index = long int]’ 364 | if(rs>0) A11.adjoint().template triangularView().template solveInPlace(A21); | ~~~~~~~~~~~^~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:408:68: required from ‘static bool Eigen::internal::LLT_Traits::inplace_decomposition(MatrixType&) [with MatrixType = Eigen::Matrix]’ 408 | { return llt_inplace::blocked(m)==-1; } | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:456:42: required from ‘Eigen::LLT<_MatrixType, _UpLo>& Eigen::LLT::compute(const Eigen::EigenBase&) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix; int _UpLo = 1]’ 456 | bool ok = Traits::inplace_decomposition(m_matrix); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:109:14: required from ‘Eigen::LLT::LLT(const Eigen::EigenBase&) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix; int _UpLo = 1]’ 109 | compute(matrix.derived()); | ~~~~~~~^~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:542:10: required from ‘const Eigen::LLT::PlainObject> Eigen::MatrixBase::llt() const [with Derived = Eigen::Matrix; typename Eigen::DenseBase::PlainObject = Eigen::Matrix]’ 542 | return LLT(derived()); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../inst/include/RcppML/project.hpp:123:51: required from here 123 | Eigen::LLT a_llt = a.llt(); | ~~~~~^~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h: In instantiation of ‘struct Eigen::internal::evaluator, -1, 1, true> >’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:100:8: required from ‘struct Eigen::internal::evaluator, -1, 1, true> >’ 100 | struct evaluator | ^~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:739:78: required from ‘struct Eigen::internal::binary_evaluator, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Block, -1, 1, true> >, Eigen::internal::IndexBased, Eigen::internal::IndexBased, double, double>’ 739 | CoeffReadCost = int(evaluator::CoeffReadCost) + int(evaluator::CoeffReadCost) + int(functor_traits::Cost), | ^~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:722:8: required from ‘struct Eigen::internal::evaluator, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Block, -1, 1, true> > >’ 722 | struct evaluator > | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:774:20: required from ‘void Eigen::internal::call_dense_assignment_loop(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen::Matrix; SrcXprType = Eigen::CwiseBinaryOp, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Block, -1, 1, true> >; Functor = add_assign_op]’ 774 | SrcEvaluatorType srcEvaluator(src); | ^~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:954:31: required from ‘static void Eigen::internal::Assignment::run(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen::Matrix; SrcXprType = Eigen::CwiseBinaryOp, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Block, -1, 1, true> >; Functor = Eigen::internal::add_assign_op; Weak = void]’ 954 | call_dense_assignment_loop(dst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:890:49: required from ‘void Eigen::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen::Matrix; Src = Eigen::CwiseBinaryOp, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Block, -1, 1, true> >; Func = add_assign_op]’ 890 | Assignment::run(actualDst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:858:27: required from ‘void Eigen::internal::call_assignment(Dst&, const Src&, const Func&, typename enable_if<(! evaluator_assume_aliasing::value), void*>::type) [with Dst = Eigen::Matrix; Src = Eigen::CwiseBinaryOp, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Block, -1, 1, true> >; Func = add_assign_op; typename enable_if<(! evaluator_assume_aliasing::value), void*>::type = void*; typename evaluator_traits::Shape = Eigen::DenseShape]’ 858 | call_assignment_no_alias(dst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CwiseBinaryOp.h:177:18: required from ‘Derived& Eigen::MatrixBase::operator+=(const Eigen::MatrixBase&) [with OtherDerived = Eigen::CwiseBinaryOp, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Block, -1, 1, true> >; Derived = Eigen::Matrix]’ 177 | call_assignment(derived(), other.derived(), internal::add_assign_op()); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../inst/include/RcppML/project.hpp:130:43: required from here 130 | b += it.value() * w.col(it.row()); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:1071:54: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 1071 | PacketAlignment = unpacket_traits::alignment, | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h: In instantiation of ‘struct Eigen::internal::evaluator, 1, -1, false> >’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:774:20: required from ‘void Eigen::internal::call_dense_assignment_loop(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen::Block, 1, -1, false>; SrcXprType = Eigen::Block, 1, -1, false>; Functor = swap_assign_op]’ 774 | SrcEvaluatorType srcEvaluator(src); | ^~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:954:31: required from ‘static void Eigen::internal::Assignment::run(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen::Block, 1, -1, false>; SrcXprType = Eigen::Block, 1, -1, false>; Functor = Eigen::internal::swap_assign_op; Weak = void]’ 954 | call_dense_assignment_loop(dst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:890:49: required from ‘void Eigen::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen::Block, 1, -1, false>; Src = Eigen::Block, 1, -1, false>; Func = swap_assign_op]’ 890 | Assignment::run(actualDst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:858:27: required from ‘void Eigen::internal::call_assignment(Dst&, const Src&, const Func&, typename enable_if<(! evaluator_assume_aliasing::value), void*>::type) [with Dst = Eigen::Block, 1, -1, false>; Src = Eigen::Block, 1, -1, false>; Func = swap_assign_op; typename enable_if<(! evaluator_assume_aliasing::value), void*>::type = void*; typename evaluator_traits::Shape = Eigen::DenseShape]’ 858 | call_assignment_no_alias(dst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:424:22: required from ‘void Eigen::DenseBase::swap(const Eigen::DenseBase&) [with OtherDerived = Eigen::Block, 1, -1, false>; Derived = Eigen::Block, 1, -1, false>]’ 424 | call_assignment(derived(), other.const_cast_derived(), internal::swap_assign_op()); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../inst/include/RcppML/nmf.hpp:139:22: required from here 139 | w.row(1).swap(w.row(0)); | ~~~~~~~~~~~~~^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:1071:54: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 1071 | PacketAlignment = unpacket_traits::alignment, | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h: In instantiation of ‘struct Eigen::internal::evaluator, 1, -1, false> >’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:774:20: required from ‘void Eigen::internal::call_dense_assignment_loop(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen::Block, 1, -1, false>; SrcXprType = Eigen::Block, 1, -1, false>; Functor = assign_op]’ 774 | SrcEvaluatorType srcEvaluator(src); | ^~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:954:31: required from ‘static void Eigen::internal::Assignment::run(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen::Block, 1, -1, false>; SrcXprType = Eigen::Block, 1, -1, false>; Functor = Eigen::internal::assign_op; Weak = void]’ 954 | call_dense_assignment_loop(dst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:890:49: required from ‘void Eigen::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen::Block, 1, -1, false>; Src = Eigen::Block, 1, -1, false>; Func = assign_op]’ 890 | Assignment::run(actualDst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:858:27: required from ‘void Eigen::internal::call_assignment(Dst&, const Src&, const Func&, typename enable_if<(! evaluator_assume_aliasing::value), void*>::type) [with Dst = Eigen::Block, 1, -1, false>; Src = Eigen::Block, 1, -1, false>; Func = assign_op; typename enable_if<(! evaluator_assume_aliasing::value), void*>::type = void*; typename evaluator_traits::Shape = Eigen::DenseShape]’ 858 | call_assignment_no_alias(dst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:836:18: required from ‘void Eigen::internal::call_assignment(Dst&, const Src&) [with Dst = Eigen::Block, 1, -1, false>; Src = Eigen::Block, 1, -1, false>]’ 836 | call_assignment(dst, src, internal::assign_op()); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Assign.h:66:28: required from ‘Derived& Eigen::MatrixBase::operator=(const Eigen::DenseBase&) [with OtherDerived = Eigen::Block, 1, -1, false>; Derived = Eigen::Block, 1, -1, false>]’ 66 | internal::call_assignment(derived(), other.derived()); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../inst/include/RcppML/bits.hpp:103:38: required from here 103 | x_reordered.row(i) = x.row(ind[i]); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:1071:54: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 1071 | PacketAlignment = unpacket_traits::alignment, | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, -1, 1, false>, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:302:7: required from ‘class Eigen::DenseCoeffsBase, -1, 1, false>, 1>’ 302 | class DenseCoeffsBase : public DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:555:7: required from ‘class Eigen::DenseCoeffsBase, -1, 1, false>, 3>’ 555 | class DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, -1, 1, false> >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, -1, 1, false> >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MapBase.h:37:34: required from ‘class Eigen::MapBase, -1, 1, false>, 0>’ 37 | template class MapBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MapBase.h:223:34: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:344:23: required from ‘static Eigen::Index Eigen::internal::llt_inplace::blocked(MatrixType&) [with MatrixType = Eigen::Matrix; Scalar = double; Eigen::Index = long int]’ 344 | return unblocked(m); | ~~~~~~~~~^~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:408:68: required from ‘static bool Eigen::internal::LLT_Traits::inplace_decomposition(MatrixType&) [with MatrixType = Eigen::Matrix]’ 408 | { return llt_inplace::blocked(m)==-1; } | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:456:42: required from ‘Eigen::LLT<_MatrixType, _UpLo>& Eigen::LLT::compute(const Eigen::EigenBase&) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix; int _UpLo = 1]’ 456 | bool ok = Traits::inplace_decomposition(m_matrix); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:109:14: required from ‘Eigen::LLT::LLT(const Eigen::EigenBase&) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix; int _UpLo = 1]’ 109 | compute(matrix.derived()); | ~~~~~~~^~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:542:10: required from ‘const Eigen::LLT::PlainObject> Eigen::MatrixBase::llt() const [with Derived = Eigen::Matrix; typename Eigen::DenseBase::PlainObject = Eigen::Matrix]’ 542 | return LLT(derived()); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../inst/include/RcppML/project.hpp:123:51: required from here 123 | Eigen::LLT a_llt = a.llt(); | ~~~~~^~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, 1, -1, false> >, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:481:7: required from ‘class Eigen::DenseCoeffsBase, 1, -1, false> >, 2>’ 481 | class DenseCoeffsBase : public DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, 1, -1, false> > >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, 1, -1, false> > >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Transpose.h:118:37: required from ‘class Eigen::TransposeImpl, 1, -1, false>, Eigen::Dense>’ 118 | template class TransposeImpl | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Transpose.h:52:37: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:344:23: required from ‘static Eigen::Index Eigen::internal::llt_inplace::blocked(MatrixType&) [with MatrixType = Eigen::Matrix; Scalar = double; Eigen::Index = long int]’ 344 | return unblocked(m); | ~~~~~~~~~^~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:408:68: required from ‘static bool Eigen::internal::LLT_Traits::inplace_decomposition(MatrixType&) [with MatrixType = Eigen::Matrix]’ 408 | { return llt_inplace::blocked(m)==-1; } | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:456:42: required from ‘Eigen::LLT<_MatrixType, _UpLo>& Eigen::LLT::compute(const Eigen::EigenBase&) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix; int _UpLo = 1]’ 456 | bool ok = Traits::inplace_decomposition(m_matrix); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:109:14: required from ‘Eigen::LLT::LLT(const Eigen::EigenBase&) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix; int _UpLo = 1]’ 109 | compute(matrix.derived()); | ~~~~~~~^~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:542:10: required from ‘const Eigen::LLT::PlainObject> Eigen::MatrixBase::llt() const [with Derived = Eigen::Matrix; typename Eigen::DenseBase::PlainObject = Eigen::Matrix]’ 542 | return LLT(derived()); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../inst/include/RcppML/project.hpp:123:51: required from here 123 | Eigen::LLT a_llt = a.llt(); | ~~~~~^~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, -1, -1, false>, Eigen::Transpose, 1, -1, false> >, 0>, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, -1, -1, false>, Eigen::Transpose, 1, -1, false> >, 0> >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, -1, -1, false>, Eigen::Transpose, 1, -1, false> >, 0> >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Product.h:120:7: required from ‘class Eigen::internal::dense_product_base, -1, -1, false>, Eigen::Transpose, 1, -1, false> >, 0, 7>’ 120 | class dense_product_base | ^~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Product.h:152:7: required from ‘class Eigen::ProductImpl, -1, -1, false>, Eigen::Transpose, 1, -1, false> >, 0, Eigen::Dense>’ 152 | class ProductImpl | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Product.h:71:7: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:344:23: required from ‘static Eigen::Index Eigen::internal::llt_inplace::blocked(MatrixType&) [with MatrixType = Eigen::Matrix; Scalar = double; Eigen::Index = long int]’ 344 | return unblocked(m); | ~~~~~~~~~^~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:408:68: required from ‘static bool Eigen::internal::LLT_Traits::inplace_decomposition(MatrixType&) [with MatrixType = Eigen::Matrix]’ 408 | { return llt_inplace::blocked(m)==-1; } | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:456:42: required from ‘Eigen::LLT<_MatrixType, _UpLo>& Eigen::LLT::compute(const Eigen::EigenBase&) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix; int _UpLo = 1]’ 456 | bool ok = Traits::inplace_decomposition(m_matrix); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:109:14: required from ‘Eigen::LLT::LLT(const Eigen::EigenBase&) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix; int _UpLo = 1]’ 109 | compute(matrix.derived()); | ~~~~~~~^~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:542:10: required from ‘const Eigen::LLT::PlainObject> Eigen::MatrixBase::llt() const [with Derived = Eigen::Matrix; typename Eigen::DenseBase::PlainObject = Eigen::Matrix]’ 542 | return LLT(derived()); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../inst/include/RcppML/project.hpp:123:51: required from here 123 | Eigen::LLT a_llt = a.llt(); | ~~~~~^~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, -1, -1, false>, -1, 1, false>, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:302:7: required from ‘class Eigen::DenseCoeffsBase, -1, -1, false>, -1, 1, false>, 1>’ 302 | class DenseCoeffsBase : public DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:555:7: required from ‘class Eigen::DenseCoeffsBase, -1, -1, false>, -1, 1, false>, 3>’ 555 | class DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, -1, -1, false>, -1, 1, false> >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, -1, -1, false>, -1, 1, false> >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MapBase.h:37:34: required from ‘class Eigen::MapBase, -1, -1, false>, -1, 1, false>, 0>’ 37 | template class MapBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MapBase.h:223:34: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:363:24: required from ‘static Eigen::Index Eigen::internal::llt_inplace::blocked(MatrixType&) [with MatrixType = Eigen::Matrix; Scalar = double; Eigen::Index = long int]’ 363 | if((ret=unblocked(A11))>=0) return k+ret; | ~~~~~~~~~^~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:408:68: required from ‘static bool Eigen::internal::LLT_Traits::inplace_decomposition(MatrixType&) [with MatrixType = Eigen::Matrix]’ 408 | { return llt_inplace::blocked(m)==-1; } | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:456:42: required from ‘Eigen::LLT<_MatrixType, _UpLo>& Eigen::LLT::compute(const Eigen::EigenBase&) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix; int _UpLo = 1]’ 456 | bool ok = Traits::inplace_decomposition(m_matrix); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:109:14: required from ‘Eigen::LLT::LLT(const Eigen::EigenBase&) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix; int _UpLo = 1]’ 109 | compute(matrix.derived()); | ~~~~~~~^~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:542:10: required from ‘const Eigen::LLT::PlainObject> Eigen::MatrixBase::llt() const [with Derived = Eigen::Matrix; typename Eigen::DenseBase::PlainObject = Eigen::Matrix]’ 542 | return LLT(derived()); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../inst/include/RcppML/project.hpp:123:51: required from here 123 | Eigen::LLT a_llt = a.llt(); | ~~~~~^~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, -1, -1, false>, 1, -1, false>, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:302:7: required from ‘class Eigen::DenseCoeffsBase, -1, -1, false>, 1, -1, false>, 1>’ 302 | class DenseCoeffsBase : public DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:555:7: required from ‘class Eigen::DenseCoeffsBase, -1, -1, false>, 1, -1, false>, 3>’ 555 | class DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, -1, -1, false>, 1, -1, false> >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, -1, -1, false>, 1, -1, false> >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MapBase.h:37:34: required from ‘class Eigen::MapBase, -1, -1, false>, 1, -1, false>, 0>’ 37 | template class MapBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MapBase.h:223:34: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:363:24: required from ‘static Eigen::Index Eigen::internal::llt_inplace::blocked(MatrixType&) [with MatrixType = Eigen::Matrix; Scalar = double; Eigen::Index = long int]’ 363 | if((ret=unblocked(A11))>=0) return k+ret; | ~~~~~~~~~^~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:408:68: required from ‘static bool Eigen::internal::LLT_Traits::inplace_decomposition(MatrixType&) [with MatrixType = Eigen::Matrix]’ 408 | { return llt_inplace::blocked(m)==-1; } | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:456:42: required from ‘Eigen::LLT<_MatrixType, _UpLo>& Eigen::LLT::compute(const Eigen::EigenBase&) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix; int _UpLo = 1]’ 456 | bool ok = Traits::inplace_decomposition(m_matrix); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:109:14: required from ‘Eigen::LLT::LLT(const Eigen::EigenBase&) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix; int _UpLo = 1]’ 109 | compute(matrix.derived()); | ~~~~~~~^~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:542:10: required from ‘const Eigen::LLT::PlainObject> Eigen::MatrixBase::llt() const [with Derived = Eigen::Matrix; typename Eigen::DenseBase::PlainObject = Eigen::Matrix]’ 542 | return LLT(derived()); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../inst/include/RcppML/project.hpp:123:51: required from here 123 | Eigen::LLT a_llt = a.llt(); | ~~~~~^~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, -1, -1, false>, -1, -1, false>, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:302:7: required from ‘class Eigen::DenseCoeffsBase, -1, -1, false>, -1, -1, false>, 1>’ 302 | class DenseCoeffsBase : public DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:555:7: required from ‘class Eigen::DenseCoeffsBase, -1, -1, false>, -1, -1, false>, 3>’ 555 | class DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, -1, -1, false>, -1, -1, false> >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, -1, -1, false>, -1, -1, false> >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MapBase.h:37:34: required from ‘class Eigen::MapBase, -1, -1, false>, -1, -1, false>, 0>’ 37 | template class MapBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MapBase.h:223:34: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:363:24: required from ‘static Eigen::Index Eigen::internal::llt_inplace::blocked(MatrixType&) [with MatrixType = Eigen::Matrix; Scalar = double; Eigen::Index = long int]’ 363 | if((ret=unblocked(A11))>=0) return k+ret; | ~~~~~~~~~^~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:408:68: required from ‘static bool Eigen::internal::LLT_Traits::inplace_decomposition(MatrixType&) [with MatrixType = Eigen::Matrix]’ 408 | { return llt_inplace::blocked(m)==-1; } | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:456:42: required from ‘Eigen::LLT<_MatrixType, _UpLo>& Eigen::LLT::compute(const Eigen::EigenBase&) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix; int _UpLo = 1]’ 456 | bool ok = Traits::inplace_decomposition(m_matrix); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:109:14: required from ‘Eigen::LLT::LLT(const Eigen::EigenBase&) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix; int _UpLo = 1]’ 109 | compute(matrix.derived()); | ~~~~~~~^~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:542:10: required from ‘const Eigen::LLT::PlainObject> Eigen::MatrixBase::llt() const [with Derived = Eigen::Matrix; typename Eigen::DenseBase::PlainObject = Eigen::Matrix]’ 542 | return LLT(derived()); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../inst/include/RcppML/project.hpp:123:51: required from here 123 | Eigen::LLT a_llt = a.llt(); | ~~~~~^~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, -1, -1, false>, 1, -1, false> >, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:481:7: required from ‘class Eigen::DenseCoeffsBase, -1, -1, false>, 1, -1, false> >, 2>’ 481 | class DenseCoeffsBase : public DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, -1, -1, false>, 1, -1, false> > >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, -1, -1, false>, 1, -1, false> > >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Transpose.h:118:37: required from ‘class Eigen::TransposeImpl, -1, -1, false>, 1, -1, false>, Eigen::Dense>’ 118 | template class TransposeImpl | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Transpose.h:52:37: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:363:24: required from ‘static Eigen::Index Eigen::internal::llt_inplace::blocked(MatrixType&) [with MatrixType = Eigen::Matrix; Scalar = double; Eigen::Index = long int]’ 363 | if((ret=unblocked(A11))>=0) return k+ret; | ~~~~~~~~~^~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:408:68: required from ‘static bool Eigen::internal::LLT_Traits::inplace_decomposition(MatrixType&) [with MatrixType = Eigen::Matrix]’ 408 | { return llt_inplace::blocked(m)==-1; } | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:456:42: required from ‘Eigen::LLT<_MatrixType, _UpLo>& Eigen::LLT::compute(const Eigen::EigenBase&) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix; int _UpLo = 1]’ 456 | bool ok = Traits::inplace_decomposition(m_matrix); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:109:14: required from ‘Eigen::LLT::LLT(const Eigen::EigenBase&) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix; int _UpLo = 1]’ 109 | compute(matrix.derived()); | ~~~~~~~^~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:542:10: required from ‘const Eigen::LLT::PlainObject> Eigen::MatrixBase::llt() const [with Derived = Eigen::Matrix; typename Eigen::DenseBase::PlainObject = Eigen::Matrix]’ 542 | return LLT(derived()); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../inst/include/RcppML/project.hpp:123:51: required from here 123 | Eigen::LLT a_llt = a.llt(); | ~~~~~^~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, -1, -1, false>, -1, -1, false>, Eigen::Transpose, -1, -1, false>, 1, -1, false> >, 0>, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, -1, -1, false>, -1, -1, false>, Eigen::Transpose, -1, -1, false>, 1, -1, false> >, 0> >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, -1, -1, false>, -1, -1, false>, Eigen::Transpose, -1, -1, false>, 1, -1, false> >, 0> >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Product.h:120:7: required from ‘class Eigen::internal::dense_product_base, -1, -1, false>, -1, -1, false>, Eigen::Transpose, -1, -1, false>, 1, -1, false> >, 0, 7>’ 120 | class dense_product_base | ^~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Product.h:152:7: required from ‘class Eigen::ProductImpl, -1, -1, false>, -1, -1, false>, Eigen::Transpose, -1, -1, false>, 1, -1, false> >, 0, Eigen::Dense>’ 152 | class ProductImpl | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Product.h:71:7: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:363:24: required from ‘static Eigen::Index Eigen::internal::llt_inplace::blocked(MatrixType&) [with MatrixType = Eigen::Matrix; Scalar = double; Eigen::Index = long int]’ 363 | if((ret=unblocked(A11))>=0) return k+ret; | ~~~~~~~~~^~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:408:68: required from ‘static bool Eigen::internal::LLT_Traits::inplace_decomposition(MatrixType&) [with MatrixType = Eigen::Matrix]’ 408 | { return llt_inplace::blocked(m)==-1; } | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:456:42: required from ‘Eigen::LLT<_MatrixType, _UpLo>& Eigen::LLT::compute(const Eigen::EigenBase&) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix; int _UpLo = 1]’ 456 | bool ok = Traits::inplace_decomposition(m_matrix); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:109:14: required from ‘Eigen::LLT::LLT(const Eigen::EigenBase&) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix; int _UpLo = 1]’ 109 | compute(matrix.derived()); | ~~~~~~~^~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:542:10: required from ‘const Eigen::LLT::PlainObject> Eigen::MatrixBase::llt() const [with Derived = Eigen::Matrix; typename Eigen::DenseBase::PlainObject = Eigen::Matrix]’ 542 | return LLT(derived()); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../inst/include/RcppML/project.hpp:123:51: required from here 123 | Eigen::LLT a_llt = a.llt(); | ~~~~~^~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, 2, 1, true>, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:302:7: required from ‘class Eigen::DenseCoeffsBase, 2, 1, true>, 1>’ 302 | class DenseCoeffsBase : public DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:555:7: required from ‘class Eigen::DenseCoeffsBase, 2, 1, true>, 3>’ 555 | class DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, 2, 1, true> >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, 2, 1, true> >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MapBase.h:37:34: required from ‘class Eigen::MapBase, 2, 1, true>, 0>’ 37 | template class MapBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MapBase.h:223:34: [ skipping 6 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:148:43: required from ‘static void Eigen::internal::Assignment, Eigen::internal::assign_op, Eigen::internal::Dense2Dense, typename Eigen::internal::enable_if<((Options == Eigen::DefaultProduct) || (Options == Eigen::AliasFreeProduct))>::type>::run(DstXprType&, const SrcXprType&, const Eigen::internal::assign_op&) [with DstXprType = Eigen::Matrix; Lhs = Eigen::Matrix; Rhs = Eigen::Transpose >; int Options = 0; Scalar = double; SrcXprType = Eigen::Product, Eigen::Transpose >, 0>]’ 148 | generic_product_impl::evalTo(dst, src.lhs(), src.rhs()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:890:49: required from ‘void Eigen::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen::Matrix; Src = Eigen::Product, Eigen::Transpose >, 0>; Func = assign_op]’ 890 | Assignment::run(actualDst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:797:41: required from ‘Derived& Eigen::PlainObjectBase::_set_noalias(const Eigen::DenseBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; Derived = Eigen::Matrix]’ 797 | internal::call_assignment_no_alias(this->derived(), other.derived(), internal::assign_op()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:594:19: required from ‘Eigen::PlainObjectBase::PlainObjectBase(const Eigen::DenseBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; Derived = Eigen::Matrix]’ 594 | _set_noalias(other); | ~~~~~~~~~~~~^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Matrix.h:423:29: required from ‘Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::Matrix(const Eigen::EigenBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; _Scalar = double; int _Rows = 2; int _Cols = 2; int _Options = 0; int _MaxRows = 2; int _MaxCols = 2]’ 423 | : Base(other.derived()) | ^ ../inst/include/RcppML/project.hpp:106:41: required from here 106 | Eigen::Matrix2d a = w * w.transpose(); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, const Eigen::Block >, -1, 1, false>, 0>, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, const Eigen::Block >, -1, 1, false>, 0> >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, const Eigen::Block >, -1, 1, false>, 0> >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Product.h:120:7: required from ‘class Eigen::internal::dense_product_base, const Eigen::Block >, -1, 1, false>, 0, 7>’ 120 | class dense_product_base | ^~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Product.h:152:7: required from ‘class Eigen::ProductImpl, const Eigen::Block >, -1, 1, false>, 0, Eigen::Dense>’ 152 | class ProductImpl | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Product.h:71:7: required from ‘class Eigen::Product, const Eigen::Block >, -1, 1, false>, 0>’ 71 | class Product : public ProductImpl<_Lhs,_Rhs,Option, | ^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:345:45: [ skipping 4 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:148:43: required from ‘static void Eigen::internal::Assignment, Eigen::internal::assign_op, Eigen::internal::Dense2Dense, typename Eigen::internal::enable_if<((Options == Eigen::DefaultProduct) || (Options == Eigen::AliasFreeProduct))>::type>::run(DstXprType&, const SrcXprType&, const Eigen::internal::assign_op&) [with DstXprType = Eigen::Matrix; Lhs = Eigen::Matrix; Rhs = Eigen::Transpose >; int Options = 0; Scalar = double; SrcXprType = Eigen::Product, Eigen::Transpose >, 0>]’ 148 | generic_product_impl::evalTo(dst, src.lhs(), src.rhs()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:890:49: required from ‘void Eigen::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen::Matrix; Src = Eigen::Product, Eigen::Transpose >, 0>; Func = assign_op]’ 890 | Assignment::run(actualDst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:797:41: required from ‘Derived& Eigen::PlainObjectBase::_set_noalias(const Eigen::DenseBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; Derived = Eigen::Matrix]’ 797 | internal::call_assignment_no_alias(this->derived(), other.derived(), internal::assign_op()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:594:19: required from ‘Eigen::PlainObjectBase::PlainObjectBase(const Eigen::DenseBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; Derived = Eigen::Matrix]’ 594 | _set_noalias(other); | ~~~~~~~~~~~~^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Matrix.h:423:29: required from ‘Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::Matrix(const Eigen::EigenBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; _Scalar = double; int _Rows = 2; int _Cols = 2; int _Options = 0; int _MaxRows = 2; int _MaxCols = 2]’ 423 | : Base(other.derived()) | ^ ../inst/include/RcppML/project.hpp:106:41: required from here 106 | Eigen::Matrix2d a = w * w.transpose(); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase >, -1, 1, false>, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:481:7: required from ‘class Eigen::DenseCoeffsBase >, -1, 1, false>, 2>’ 481 | class DenseCoeffsBase : public DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase >, -1, 1, false> >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase >, -1, 1, false> >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MapBase.h:37:34: required from ‘class Eigen::MapBase >, -1, 1, false>, 0>’ 37 | template class MapBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Block.h:329:7: required from ‘class Eigen::internal::BlockImpl_dense >, -1, 1, false, true>’ 329 | class BlockImpl_dense | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Block.h:154:7: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:148:43: required from ‘static void Eigen::internal::Assignment, Eigen::internal::assign_op, Eigen::internal::Dense2Dense, typename Eigen::internal::enable_if<((Options == Eigen::DefaultProduct) || (Options == Eigen::AliasFreeProduct))>::type>::run(DstXprType&, const SrcXprType&, const Eigen::internal::assign_op&) [with DstXprType = Eigen::Matrix; Lhs = Eigen::Matrix; Rhs = Eigen::Transpose >; int Options = 0; Scalar = double; SrcXprType = Eigen::Product, Eigen::Transpose >, 0>]’ 148 | generic_product_impl::evalTo(dst, src.lhs(), src.rhs()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:890:49: required from ‘void Eigen::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen::Matrix; Src = Eigen::Product, Eigen::Transpose >, 0>; Func = assign_op]’ 890 | Assignment::run(actualDst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:797:41: required from ‘Derived& Eigen::PlainObjectBase::_set_noalias(const Eigen::DenseBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; Derived = Eigen::Matrix]’ 797 | internal::call_assignment_no_alias(this->derived(), other.derived(), internal::assign_op()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:594:19: required from ‘Eigen::PlainObjectBase::PlainObjectBase(const Eigen::DenseBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; Derived = Eigen::Matrix]’ 594 | _set_noalias(other); | ~~~~~~~~~~~~^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Matrix.h:423:29: required from ‘Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::Matrix(const Eigen::EigenBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; _Scalar = double; int _Rows = 2; int _Cols = 2; int _Options = 0; int _MaxRows = 2; int _MaxCols = 2]’ 423 | : Base(other.derived()) | ^ ../inst/include/RcppML/project.hpp:106:41: required from here 106 | Eigen::Matrix2d a = w * w.transpose(); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h: In instantiation of ‘struct Eigen::internal::evaluator >, -1, 1, false> >’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:100:8: required from ‘struct Eigen::internal::evaluator >, -1, 1, false> >’ 100 | struct evaluator | ^~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:372:102: required from ‘struct Eigen::internal::plain_object_eval >, -1, 1, false>, Eigen::Dense>’ 372 | typedef typename plain_matrix_type_dense::XprKind, evaluator::Flags>::type type; | ^~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:370:45: required from ‘struct Eigen::internal::generic_product_impl, const Eigen::Block >, -1, 1, false>, Eigen::DenseShape, Eigen::DenseShape, 7>’ 370 | typedef typename nested_eval::type RhsNested; | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixMatrix.h:479:24: required from ‘static void Eigen::internal::generic_product_impl::scaleAndAddTo(Dest&, const Lhs&, const Rhs&, const Scalar&) [with Dest = Eigen::Matrix; Lhs = Eigen::Matrix; Rhs = Eigen::Transpose >; Scalar = double]’ 478 | return internal::generic_product_impl | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 479 | ::scaleAndAddTo(dst_vec, a_lhs, a_rhs.col(0), alpha); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixMatrix.h:445:20: required from ‘static void Eigen::internal::generic_product_impl::evalTo(Dst&, const Lhs&, const Rhs&) [with Dst = Eigen::Matrix; Lhs = Eigen::Matrix; Rhs = Eigen::Transpose >]’ 445 | scaleAndAddTo(dst, lhs, rhs, Scalar(1)); | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:148:43: required from ‘static void Eigen::internal::Assignment, Eigen::internal::assign_op, Eigen::internal::Dense2Dense, typename Eigen::internal::enable_if<((Options == Eigen::DefaultProduct) || (Options == Eigen::AliasFreeProduct))>::type>::run(DstXprType&, const SrcXprType&, const Eigen::internal::assign_op&) [with DstXprType = Eigen::Matrix; Lhs = Eigen::Matrix; Rhs = Eigen::Transpose >; int Options = 0; Scalar = double; SrcXprType = Eigen::Product, Eigen::Transpose >, 0>]’ 148 | generic_product_impl::evalTo(dst, src.lhs(), src.rhs()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:890:49: required from ‘void Eigen::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen::Matrix; Src = Eigen::Product, Eigen::Transpose >, 0>; Func = assign_op]’ 890 | Assignment::run(actualDst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:797:41: required from ‘Derived& Eigen::PlainObjectBase::_set_noalias(const Eigen::DenseBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; Derived = Eigen::Matrix]’ 797 | internal::call_assignment_no_alias(this->derived(), other.derived(), internal::assign_op()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:594:19: required from ‘Eigen::PlainObjectBase::PlainObjectBase(const Eigen::DenseBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; Derived = Eigen::Matrix]’ 594 | _set_noalias(other); | ~~~~~~~~~~~~^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Matrix.h:423:29: required from ‘Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::Matrix(const Eigen::EigenBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; _Scalar = double; int _Rows = 2; int _Cols = 2; int _Options = 0; int _MaxRows = 2; int _MaxCols = 2]’ 423 | : Base(other.derived()) | ^ ../inst/include/RcppML/project.hpp:106:41: required from here 106 | Eigen::Matrix2d a = w * w.transpose(); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:1071:54: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 1071 | PacketAlignment = unpacket_traits::alignment, | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, 1, 2, false>, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:302:7: required from ‘class Eigen::DenseCoeffsBase, 1, 2, false>, 1>’ 302 | class DenseCoeffsBase : public DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:555:7: required from ‘class Eigen::DenseCoeffsBase, 1, 2, false>, 3>’ 555 | class DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, 1, 2, false> >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, 1, 2, false> >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MapBase.h:37:34: required from ‘class Eigen::MapBase, 1, 2, false>, 0>’ 37 | template class MapBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MapBase.h:223:34: [ skipping 6 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:148:43: required from ‘static void Eigen::internal::Assignment, Eigen::internal::assign_op, Eigen::internal::Dense2Dense, typename Eigen::internal::enable_if<((Options == Eigen::DefaultProduct) || (Options == Eigen::AliasFreeProduct))>::type>::run(DstXprType&, const SrcXprType&, const Eigen::internal::assign_op&) [with DstXprType = Eigen::Matrix; Lhs = Eigen::Matrix; Rhs = Eigen::Transpose >; int Options = 0; Scalar = double; SrcXprType = Eigen::Product, Eigen::Transpose >, 0>]’ 148 | generic_product_impl::evalTo(dst, src.lhs(), src.rhs()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:890:49: required from ‘void Eigen::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen::Matrix; Src = Eigen::Product, Eigen::Transpose >, 0>; Func = assign_op]’ 890 | Assignment::run(actualDst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:797:41: required from ‘Derived& Eigen::PlainObjectBase::_set_noalias(const Eigen::DenseBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; Derived = Eigen::Matrix]’ 797 | internal::call_assignment_no_alias(this->derived(), other.derived(), internal::assign_op()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:594:19: required from ‘Eigen::PlainObjectBase::PlainObjectBase(const Eigen::DenseBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; Derived = Eigen::Matrix]’ 594 | _set_noalias(other); | ~~~~~~~~~~~~^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Matrix.h:423:29: required from ‘Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::Matrix(const Eigen::EigenBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; _Scalar = double; int _Rows = 2; int _Cols = 2; int _Options = 0; int _MaxRows = 2; int _MaxCols = 2]’ 423 | : Base(other.derived()) | ^ ../inst/include/RcppML/project.hpp:106:41: required from here 106 | Eigen::Matrix2d a = w * w.transpose(); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, 1, -1, false>, Eigen::Transpose >, 0>, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, 1, -1, false>, Eigen::Transpose >, 0> >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, 1, -1, false>, Eigen::Transpose >, 0> >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Product.h:120:7: required from ‘class Eigen::internal::dense_product_base, 1, -1, false>, Eigen::Transpose >, 0, 7>’ 120 | class dense_product_base | ^~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Product.h:152:7: required from ‘class Eigen::ProductImpl, 1, -1, false>, Eigen::Transpose >, 0, Eigen::Dense>’ 152 | class ProductImpl | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Product.h:71:7: required from ‘class Eigen::Product, 1, -1, false>, Eigen::Transpose >, 0>’ 71 | class Product : public ProductImpl<_Lhs,_Rhs,Option, | ^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:345:45: [ skipping 4 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:148:43: required from ‘static void Eigen::internal::Assignment, Eigen::internal::assign_op, Eigen::internal::Dense2Dense, typename Eigen::internal::enable_if<((Options == Eigen::DefaultProduct) || (Options == Eigen::AliasFreeProduct))>::type>::run(DstXprType&, const SrcXprType&, const Eigen::internal::assign_op&) [with DstXprType = Eigen::Matrix; Lhs = Eigen::Matrix; Rhs = Eigen::Transpose >; int Options = 0; Scalar = double; SrcXprType = Eigen::Product, Eigen::Transpose >, 0>]’ 148 | generic_product_impl::evalTo(dst, src.lhs(), src.rhs()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:890:49: required from ‘void Eigen::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen::Matrix; Src = Eigen::Product, Eigen::Transpose >, 0>; Func = assign_op]’ 890 | Assignment::run(actualDst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:797:41: required from ‘Derived& Eigen::PlainObjectBase::_set_noalias(const Eigen::DenseBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; Derived = Eigen::Matrix]’ 797 | internal::call_assignment_no_alias(this->derived(), other.derived(), internal::assign_op()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:594:19: required from ‘Eigen::PlainObjectBase::PlainObjectBase(const Eigen::DenseBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; Derived = Eigen::Matrix]’ 594 | _set_noalias(other); | ~~~~~~~~~~~~^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Matrix.h:423:29: required from ‘Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::Matrix(const Eigen::EigenBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; _Scalar = double; int _Rows = 2; int _Cols = 2; int _Options = 0; int _MaxRows = 2; int _MaxCols = 2]’ 423 | : Base(other.derived()) | ^ ../inst/include/RcppML/project.hpp:106:41: required from here 106 | Eigen::Matrix2d a = w * w.transpose(); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h: In instantiation of ‘struct Eigen::internal::evaluator, -1, 1, true>, -1, 1, false> >’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:100:8: required from ‘struct Eigen::internal::evaluator, -1, 1, true>, -1, 1, false> >’ 100 | struct evaluator | ^~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:564:45: required from ‘struct Eigen::internal::unary_evaluator, const Eigen::Block, -1, 1, true>, -1, 1, false> >, Eigen::internal::IndexBased, double>’ 564 | CoeffReadCost = int(evaluator::CoeffReadCost) + int(functor_traits::Cost), | ^~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:90:8: required from ‘struct Eigen::internal::evaluator, const Eigen::Block, -1, 1, true>, -1, 1, false> > >’ 90 | struct evaluator : public unary_evaluator | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Redux.h:357:7: required from ‘class Eigen::internal::redux_evaluator, const Eigen::Block, -1, 1, true>, -1, 1, false> > >’ 357 | class redux_evaluator : public internal::evaluator<_XprType> | ^~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Redux.h:414:17: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Dot.h:221:28: required from ‘static typename Eigen::NumTraits::Scalar>::Real Eigen::internal::lpNorm_selector::run(const Eigen::MatrixBase&) [with Derived = Eigen::Block, -1, 1, true>, -1, 1, false>; typename Eigen::NumTraits::Scalar>::Real = double; typename Eigen::internal::traits::Scalar = double]’ 221 | return m.cwiseAbs().sum(); | ~~~~~~~~~~~~~~~~^~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Dot.h:269:52: required from ‘typename Eigen::NumTraits::Scalar>::Real Eigen::MatrixBase::lpNorm() const [with int p = 1; Derived = Eigen::Block, -1, 1, true>, -1, 1, false>; typename Eigen::NumTraits::Scalar>::Real = double; typename Eigen::internal::traits::Scalar = double]’ 269 | return internal::lpNorm_selector::run(*this); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:448:74: required from ‘Eigen::LLT<_MatrixType, _UpLo>& Eigen::LLT::compute(const Eigen::EigenBase&) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix; int _UpLo = 1]’ 448 | abs_col_sum = m_matrix.col(col).tail(size - col).template lpNorm<1>() + m_matrix.row(col).head(col).template lpNorm<1>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:109:14: required from ‘Eigen::LLT::LLT(const Eigen::EigenBase&) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix; int _UpLo = 1]’ 109 | compute(matrix.derived()); | ~~~~~~~^~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:542:10: required from ‘const Eigen::LLT::PlainObject> Eigen::MatrixBase::llt() const [with Derived = Eigen::Matrix; typename Eigen::DenseBase::PlainObject = Eigen::Matrix]’ 542 | return LLT(derived()); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../inst/include/RcppML/project.hpp:123:51: required from here 123 | Eigen::LLT a_llt = a.llt(); | ~~~~~^~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:1071:54: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 1071 | PacketAlignment = unpacket_traits::alignment, | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h: In instantiation of ‘struct Eigen::internal::evaluator, 1, -1, false>, 1, -1, false> >’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:100:8: required from ‘struct Eigen::internal::evaluator, 1, -1, false>, 1, -1, false> >’ 100 | struct evaluator | ^~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:564:45: required from ‘struct Eigen::internal::unary_evaluator, const Eigen::Block, 1, -1, false>, 1, -1, false> >, Eigen::internal::IndexBased, double>’ 564 | CoeffReadCost = int(evaluator::CoeffReadCost) + int(functor_traits::Cost), | ^~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:90:8: required from ‘struct Eigen::internal::evaluator, const Eigen::Block, 1, -1, false>, 1, -1, false> > >’ 90 | struct evaluator : public unary_evaluator | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Redux.h:357:7: required from ‘class Eigen::internal::redux_evaluator, const Eigen::Block, 1, -1, false>, 1, -1, false> > >’ 357 | class redux_evaluator : public internal::evaluator<_XprType> | ^~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Redux.h:414:17: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Dot.h:221:28: required from ‘static typename Eigen::NumTraits::Scalar>::Real Eigen::internal::lpNorm_selector::run(const Eigen::MatrixBase&) [with Derived = Eigen::Block, 1, -1, false>, 1, -1, false>; typename Eigen::NumTraits::Scalar>::Real = double; typename Eigen::internal::traits::Scalar = double]’ 221 | return m.cwiseAbs().sum(); | ~~~~~~~~~~~~~~~~^~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Dot.h:269:52: required from ‘typename Eigen::NumTraits::Scalar>::Real Eigen::MatrixBase::lpNorm() const [with int p = 1; Derived = Eigen::Block, 1, -1, false>, 1, -1, false>; typename Eigen::NumTraits::Scalar>::Real = double; typename Eigen::internal::traits::Scalar = double]’ 269 | return internal::lpNorm_selector::run(*this); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:448:125: required from ‘Eigen::LLT<_MatrixType, _UpLo>& Eigen::LLT::compute(const Eigen::EigenBase&) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix; int _UpLo = 1]’ 448 | abs_col_sum = m_matrix.col(col).tail(size - col).template lpNorm<1>() + m_matrix.row(col).head(col).template lpNorm<1>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:109:14: required from ‘Eigen::LLT::LLT(const Eigen::EigenBase&) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix; int _UpLo = 1]’ 109 | compute(matrix.derived()); | ~~~~~~~^~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:542:10: required from ‘const Eigen::LLT::PlainObject> Eigen::MatrixBase::llt() const [with Derived = Eigen::Matrix; typename Eigen::DenseBase::PlainObject = Eigen::Matrix]’ 542 | return LLT(derived()); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../inst/include/RcppML/project.hpp:123:51: required from here 123 | Eigen::LLT a_llt = a.llt(); | ~~~~~^~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:1071:54: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 1071 | PacketAlignment = unpacket_traits::alignment, | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, const Eigen::Block, 1, -1, false> >, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, const Eigen::Block, 1, -1, false> > >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, const Eigen::Block, 1, -1, false> > >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CwiseUnaryOp.h:94:7: required from ‘class Eigen::CwiseUnaryOpImpl, const Eigen::Block, 1, -1, false>, Eigen::Dense>’ 94 | class CwiseUnaryOpImpl | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CwiseUnaryOp.h:55:7: required from ‘class Eigen::CwiseUnaryOp, const Eigen::Block, 1, -1, false> >’ 55 | class CwiseUnaryOp : public CwiseUnaryOpImpl::StorageKind>, internal::no_assignment_operator | ^~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Dot.h:98:40: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:344:23: required from ‘static Eigen::Index Eigen::internal::llt_inplace::blocked(MatrixType&) [with MatrixType = Eigen::Matrix; Scalar = double; Eigen::Index = long int]’ 344 | return unblocked(m); | ~~~~~~~~~^~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:408:68: required from ‘static bool Eigen::internal::LLT_Traits::inplace_decomposition(MatrixType&) [with MatrixType = Eigen::Matrix]’ 408 | { return llt_inplace::blocked(m)==-1; } | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:456:42: required from ‘Eigen::LLT<_MatrixType, _UpLo>& Eigen::LLT::compute(const Eigen::EigenBase&) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix; int _UpLo = 1]’ 456 | bool ok = Traits::inplace_decomposition(m_matrix); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:109:14: required from ‘Eigen::LLT::LLT(const Eigen::EigenBase&) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix; int _UpLo = 1]’ 109 | compute(matrix.derived()); | ~~~~~~~^~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:542:10: required from ‘const Eigen::LLT::PlainObject> Eigen::MatrixBase::llt() const [with Derived = Eigen::Matrix; typename Eigen::DenseBase::PlainObject = Eigen::Matrix]’ 542 | return LLT(derived()); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../inst/include/RcppML/project.hpp:123:51: required from here 123 | Eigen::LLT a_llt = a.llt(); | ~~~~~^~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, const Eigen::Block, -1, -1, false>, 1, -1, false> >, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, const Eigen::Block, -1, -1, false>, 1, -1, false> > >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, const Eigen::Block, -1, -1, false>, 1, -1, false> > >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CwiseUnaryOp.h:94:7: required from ‘class Eigen::CwiseUnaryOpImpl, const Eigen::Block, -1, -1, false>, 1, -1, false>, Eigen::Dense>’ 94 | class CwiseUnaryOpImpl | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CwiseUnaryOp.h:55:7: required from ‘class Eigen::CwiseUnaryOp, const Eigen::Block, -1, -1, false>, 1, -1, false> >’ 55 | class CwiseUnaryOp : public CwiseUnaryOpImpl::StorageKind>, internal::no_assignment_operator | ^~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Dot.h:98:40: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:363:24: required from ‘static Eigen::Index Eigen::internal::llt_inplace::blocked(MatrixType&) [with MatrixType = Eigen::Matrix; Scalar = double; Eigen::Index = long int]’ 363 | if((ret=unblocked(A11))>=0) return k+ret; | ~~~~~~~~~^~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:408:68: required from ‘static bool Eigen::internal::LLT_Traits::inplace_decomposition(MatrixType&) [with MatrixType = Eigen::Matrix]’ 408 | { return llt_inplace::blocked(m)==-1; } | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:456:42: required from ‘Eigen::LLT<_MatrixType, _UpLo>& Eigen::LLT::compute(const Eigen::EigenBase&) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix; int _UpLo = 1]’ 456 | bool ok = Traits::inplace_decomposition(m_matrix); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:109:14: required from ‘Eigen::LLT::LLT(const Eigen::EigenBase&) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix; int _UpLo = 1]’ 109 | compute(matrix.derived()); | ~~~~~~~^~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:542:10: required from ‘const Eigen::LLT::PlainObject> Eigen::MatrixBase::llt() const [with Derived = Eigen::Matrix; typename Eigen::DenseBase::PlainObject = Eigen::Matrix]’ 542 | return LLT(derived()); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../inst/include/RcppML/project.hpp:123:51: required from here 123 | Eigen::LLT a_llt = a.llt(); | ~~~~~^~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, const Eigen::Block >, -1, 1, false>, 0>, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, const Eigen::Block >, -1, 1, false>, 0> >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, const Eigen::Block >, -1, 1, false>, 0> >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Product.h:120:7: required from ‘class Eigen::internal::dense_product_base, const Eigen::Block >, -1, 1, false>, 0, 7>’ 120 | class dense_product_base | ^~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Product.h:152:7: required from ‘class Eigen::ProductImpl, const Eigen::Block >, -1, 1, false>, 0, Eigen::Dense>’ 152 | class ProductImpl | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Product.h:71:7: required from ‘class Eigen::Product, const Eigen::Block >, -1, 1, false>, 0>’ 71 | class Product : public ProductImpl<_Lhs,_Rhs,Option, | ^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:345:45: [ skipping 4 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:148:43: required from ‘static void Eigen::internal::Assignment, Eigen::internal::assign_op, Eigen::internal::Dense2Dense, typename Eigen::internal::enable_if<((Options == Eigen::DefaultProduct) || (Options == Eigen::AliasFreeProduct))>::type>::run(DstXprType&, const SrcXprType&, const Eigen::internal::assign_op&) [with DstXprType = Eigen::Matrix; Lhs = Eigen::Matrix; Rhs = Eigen::Transpose >; int Options = 0; Scalar = double; SrcXprType = Eigen::Product, Eigen::Transpose >, 0>]’ 148 | generic_product_impl::evalTo(dst, src.lhs(), src.rhs()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:890:49: required from ‘void Eigen::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen::Matrix; Src = Eigen::Product, Eigen::Transpose >, 0>; Func = assign_op]’ 890 | Assignment::run(actualDst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:797:41: required from ‘Derived& Eigen::PlainObjectBase::_set_noalias(const Eigen::DenseBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; Derived = Eigen::Matrix]’ 797 | internal::call_assignment_no_alias(this->derived(), other.derived(), internal::assign_op()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:594:19: required from ‘Eigen::PlainObjectBase::PlainObjectBase(const Eigen::DenseBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; Derived = Eigen::Matrix]’ 594 | _set_noalias(other); | ~~~~~~~~~~~~^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Matrix.h:423:29: required from ‘Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::Matrix(const Eigen::EigenBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; _Scalar = double; int _Rows = -1; int _Cols = -1; int _Options = 0; int _MaxRows = -1; int _MaxCols = -1]’ 423 | : Base(other.derived()) | ^ ../inst/include/RcppML/project.hpp:149:47: required from here 149 | Eigen::MatrixXd a = w_ * w_.transpose(); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase >, -1, 1, false>, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:481:7: required from ‘class Eigen::DenseCoeffsBase >, -1, 1, false>, 2>’ 481 | class DenseCoeffsBase : public DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase >, -1, 1, false> >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase >, -1, 1, false> >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MapBase.h:37:34: required from ‘class Eigen::MapBase >, -1, 1, false>, 0>’ 37 | template class MapBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Block.h:329:7: required from ‘class Eigen::internal::BlockImpl_dense >, -1, 1, false, true>’ 329 | class BlockImpl_dense | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Block.h:154:7: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:148:43: required from ‘static void Eigen::internal::Assignment, Eigen::internal::assign_op, Eigen::internal::Dense2Dense, typename Eigen::internal::enable_if<((Options == Eigen::DefaultProduct) || (Options == Eigen::AliasFreeProduct))>::type>::run(DstXprType&, const SrcXprType&, const Eigen::internal::assign_op&) [with DstXprType = Eigen::Matrix; Lhs = Eigen::Matrix; Rhs = Eigen::Transpose >; int Options = 0; Scalar = double; SrcXprType = Eigen::Product, Eigen::Transpose >, 0>]’ 148 | generic_product_impl::evalTo(dst, src.lhs(), src.rhs()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:890:49: required from ‘void Eigen::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen::Matrix; Src = Eigen::Product, Eigen::Transpose >, 0>; Func = assign_op]’ 890 | Assignment::run(actualDst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:797:41: required from ‘Derived& Eigen::PlainObjectBase::_set_noalias(const Eigen::DenseBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; Derived = Eigen::Matrix]’ 797 | internal::call_assignment_no_alias(this->derived(), other.derived(), internal::assign_op()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:594:19: required from ‘Eigen::PlainObjectBase::PlainObjectBase(const Eigen::DenseBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; Derived = Eigen::Matrix]’ 594 | _set_noalias(other); | ~~~~~~~~~~~~^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Matrix.h:423:29: required from ‘Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::Matrix(const Eigen::EigenBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; _Scalar = double; int _Rows = -1; int _Cols = -1; int _Options = 0; int _MaxRows = -1; int _MaxCols = -1]’ 423 | : Base(other.derived()) | ^ ../inst/include/RcppML/project.hpp:149:47: required from here 149 | Eigen::MatrixXd a = w_ * w_.transpose(); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h: In instantiation of ‘struct Eigen::internal::evaluator >, -1, 1, false> >’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:100:8: required from ‘struct Eigen::internal::evaluator >, -1, 1, false> >’ 100 | struct evaluator | ^~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:372:102: required from ‘struct Eigen::internal::plain_object_eval >, -1, 1, false>, Eigen::Dense>’ 372 | typedef typename plain_matrix_type_dense::XprKind, evaluator::Flags>::type type; | ^~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:370:45: required from ‘struct Eigen::internal::generic_product_impl, const Eigen::Block >, -1, 1, false>, Eigen::DenseShape, Eigen::DenseShape, 7>’ 370 | typedef typename nested_eval::type RhsNested; | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixMatrix.h:479:24: required from ‘static void Eigen::internal::generic_product_impl::scaleAndAddTo(Dest&, const Lhs&, const Rhs&, const Scalar&) [with Dest = Eigen::Matrix; Lhs = Eigen::Matrix; Rhs = Eigen::Transpose >; Scalar = double]’ 478 | return internal::generic_product_impl | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 479 | ::scaleAndAddTo(dst_vec, a_lhs, a_rhs.col(0), alpha); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixMatrix.h:445:20: required from ‘static void Eigen::internal::generic_product_impl::evalTo(Dst&, const Lhs&, const Rhs&) [with Dst = Eigen::Matrix; Lhs = Eigen::Matrix; Rhs = Eigen::Transpose >]’ 445 | scaleAndAddTo(dst, lhs, rhs, Scalar(1)); | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:148:43: required from ‘static void Eigen::internal::Assignment, Eigen::internal::assign_op, Eigen::internal::Dense2Dense, typename Eigen::internal::enable_if<((Options == Eigen::DefaultProduct) || (Options == Eigen::AliasFreeProduct))>::type>::run(DstXprType&, const SrcXprType&, const Eigen::internal::assign_op&) [with DstXprType = Eigen::Matrix; Lhs = Eigen::Matrix; Rhs = Eigen::Transpose >; int Options = 0; Scalar = double; SrcXprType = Eigen::Product, Eigen::Transpose >, 0>]’ 148 | generic_product_impl::evalTo(dst, src.lhs(), src.rhs()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:890:49: required from ‘void Eigen::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen::Matrix; Src = Eigen::Product, Eigen::Transpose >, 0>; Func = assign_op]’ 890 | Assignment::run(actualDst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:797:41: required from ‘Derived& Eigen::PlainObjectBase::_set_noalias(const Eigen::DenseBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; Derived = Eigen::Matrix]’ 797 | internal::call_assignment_no_alias(this->derived(), other.derived(), internal::assign_op()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:594:19: required from ‘Eigen::PlainObjectBase::PlainObjectBase(const Eigen::DenseBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; Derived = Eigen::Matrix]’ 594 | _set_noalias(other); | ~~~~~~~~~~~~^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Matrix.h:423:29: required from ‘Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::Matrix(const Eigen::EigenBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; _Scalar = double; int _Rows = -1; int _Cols = -1; int _Options = 0; int _MaxRows = -1; int _MaxCols = -1]’ 423 | : Base(other.derived()) | ^ ../inst/include/RcppML/project.hpp:149:47: required from here 149 | Eigen::MatrixXd a = w_ * w_.transpose(); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:1071:54: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 1071 | PacketAlignment = unpacket_traits::alignment, | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, 1, -1, false>, Eigen::Transpose >, 0>, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, 1, -1, false>, Eigen::Transpose >, 0> >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, 1, -1, false>, Eigen::Transpose >, 0> >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Product.h:120:7: required from ‘class Eigen::internal::dense_product_base, 1, -1, false>, Eigen::Transpose >, 0, 7>’ 120 | class dense_product_base | ^~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Product.h:152:7: required from ‘class Eigen::ProductImpl, 1, -1, false>, Eigen::Transpose >, 0, Eigen::Dense>’ 152 | class ProductImpl | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Product.h:71:7: required from ‘class Eigen::Product, 1, -1, false>, Eigen::Transpose >, 0>’ 71 | class Product : public ProductImpl<_Lhs,_Rhs,Option, | ^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:345:45: [ skipping 4 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:148:43: required from ‘static void Eigen::internal::Assignment, Eigen::internal::assign_op, Eigen::internal::Dense2Dense, typename Eigen::internal::enable_if<((Options == Eigen::DefaultProduct) || (Options == Eigen::AliasFreeProduct))>::type>::run(DstXprType&, const SrcXprType&, const Eigen::internal::assign_op&) [with DstXprType = Eigen::Matrix; Lhs = Eigen::Matrix; Rhs = Eigen::Transpose >; int Options = 0; Scalar = double; SrcXprType = Eigen::Product, Eigen::Transpose >, 0>]’ 148 | generic_product_impl::evalTo(dst, src.lhs(), src.rhs()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:890:49: required from ‘void Eigen::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen::Matrix; Src = Eigen::Product, Eigen::Transpose >, 0>; Func = assign_op]’ 890 | Assignment::run(actualDst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:797:41: required from ‘Derived& Eigen::PlainObjectBase::_set_noalias(const Eigen::DenseBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; Derived = Eigen::Matrix]’ 797 | internal::call_assignment_no_alias(this->derived(), other.derived(), internal::assign_op()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:594:19: required from ‘Eigen::PlainObjectBase::PlainObjectBase(const Eigen::DenseBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; Derived = Eigen::Matrix]’ 594 | _set_noalias(other); | ~~~~~~~~~~~~^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Matrix.h:423:29: required from ‘Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::Matrix(const Eigen::EigenBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; _Scalar = double; int _Rows = -1; int _Cols = -1; int _Options = 0; int _MaxRows = -1; int _MaxCols = -1]’ 423 | : Base(other.derived()) | ^ ../inst/include/RcppML/project.hpp:149:47: required from here 149 | Eigen::MatrixXd a = w_ * w_.transpose(); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, Eigen::Transpose >, 1>, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, Eigen::Transpose >, 1> >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, Eigen::Transpose >, 1> >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Product.h:120:7: required from ‘class Eigen::internal::dense_product_base, Eigen::Transpose >, 1, 8>’ 120 | class dense_product_base | ^~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Product.h:152:7: required from ‘class Eigen::ProductImpl, Eigen::Transpose >, 1, Eigen::Dense>’ 152 | class ProductImpl | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Product.h:71:7: required from ‘class Eigen::Product, Eigen::Transpose >, 1>’ 71 | class Product : public ProductImpl<_Lhs,_Rhs,Option, | ^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:462:68: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:148:43: required from ‘static void Eigen::internal::Assignment, Eigen::internal::assign_op, Eigen::internal::Dense2Dense, typename Eigen::internal::enable_if<((Options == Eigen::DefaultProduct) || (Options == Eigen::AliasFreeProduct))>::type>::run(DstXprType&, const SrcXprType&, const Eigen::internal::assign_op&) [with DstXprType = Eigen::Matrix; Lhs = Eigen::Matrix; Rhs = Eigen::Transpose >; int Options = 0; Scalar = double; SrcXprType = Eigen::Product, Eigen::Transpose >, 0>]’ 148 | generic_product_impl::evalTo(dst, src.lhs(), src.rhs()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:890:49: required from ‘void Eigen::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen::Matrix; Src = Eigen::Product, Eigen::Transpose >, 0>; Func = assign_op]’ 890 | Assignment::run(actualDst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:797:41: required from ‘Derived& Eigen::PlainObjectBase::_set_noalias(const Eigen::DenseBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; Derived = Eigen::Matrix]’ 797 | internal::call_assignment_no_alias(this->derived(), other.derived(), internal::assign_op()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:594:19: required from ‘Eigen::PlainObjectBase::PlainObjectBase(const Eigen::DenseBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; Derived = Eigen::Matrix]’ 594 | _set_noalias(other); | ~~~~~~~~~~~~^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Matrix.h:423:29: required from ‘Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::Matrix(const Eigen::EigenBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; _Scalar = double; int _Rows = 2; int _Cols = 2; int _Options = 0; int _MaxRows = 2; int _MaxCols = 2]’ 423 | : Base(other.derived()) | ^ ../inst/include/RcppML/project.hpp:106:41: required from here 106 | Eigen::Matrix2d a = w * w.transpose(); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, Eigen::Matrix >, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, Eigen::Matrix > >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, Eigen::Matrix > >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CwiseNullaryOp.h:60:7: required from ‘class Eigen::CwiseNullaryOp, Eigen::Matrix >’ 60 | class CwiseNullaryOp : public internal::dense_xpr_base< CwiseNullaryOp >::type, internal::no_assignment_operator | ^~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CwiseNullaryOp.h:347:30: required from ‘Derived& Eigen::DenseBase::setConstant(const Scalar&) [with Derived = Eigen::Matrix; Scalar = double]’ 347 | return derived() = Constant(rows(), cols(), val); | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CwiseNullaryOp.h:548:10: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:148:43: required from ‘static void Eigen::internal::Assignment, Eigen::internal::assign_op, Eigen::internal::Dense2Dense, typename Eigen::internal::enable_if<((Options == Eigen::DefaultProduct) || (Options == Eigen::AliasFreeProduct))>::type>::run(DstXprType&, const SrcXprType&, const Eigen::internal::assign_op&) [with DstXprType = Eigen::Matrix; Lhs = Eigen::Matrix; Rhs = Eigen::Transpose >; int Options = 0; Scalar = double; SrcXprType = Eigen::Product, Eigen::Transpose >, 0>]’ 148 | generic_product_impl::evalTo(dst, src.lhs(), src.rhs()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:890:49: required from ‘void Eigen::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen::Matrix; Src = Eigen::Product, Eigen::Transpose >, 0>; Func = assign_op]’ 890 | Assignment::run(actualDst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:797:41: required from ‘Derived& Eigen::PlainObjectBase::_set_noalias(const Eigen::DenseBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; Derived = Eigen::Matrix]’ 797 | internal::call_assignment_no_alias(this->derived(), other.derived(), internal::assign_op()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:594:19: required from ‘Eigen::PlainObjectBase::PlainObjectBase(const Eigen::DenseBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; Derived = Eigen::Matrix]’ 594 | _set_noalias(other); | ~~~~~~~~~~~~^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Matrix.h:423:29: required from ‘Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::Matrix(const Eigen::EigenBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; _Scalar = double; int _Rows = 2; int _Cols = 2; int _Options = 0; int _MaxRows = 2; int _MaxCols = 2]’ 423 | : Base(other.derived()) | ^ ../inst/include/RcppML/project.hpp:106:41: required from here 106 | Eigen::Matrix2d a = w * w.transpose(); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase >, -1, 1, false>, -1, 1, true>, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:481:7: required from ‘class Eigen::DenseCoeffsBase >, -1, 1, false>, -1, 1, true>, 2>’ 481 | class DenseCoeffsBase : public DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase >, -1, 1, false>, -1, 1, true> >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase >, -1, 1, false>, -1, 1, true> >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MapBase.h:37:34: required from ‘class Eigen::MapBase >, -1, 1, false>, -1, 1, true>, 0>’ 37 | template class MapBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Block.h:329:7: required from ‘class Eigen::internal::BlockImpl_dense >, -1, 1, false>, -1, 1, true, true>’ 329 | class BlockImpl_dense | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Block.h:154:7: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:148:43: required from ‘static void Eigen::internal::Assignment, Eigen::internal::assign_op, Eigen::internal::Dense2Dense, typename Eigen::internal::enable_if<((Options == Eigen::DefaultProduct) || (Options == Eigen::AliasFreeProduct))>::type>::run(DstXprType&, const SrcXprType&, const Eigen::internal::assign_op&) [with DstXprType = Eigen::Matrix; Lhs = Eigen::Matrix; Rhs = Eigen::Transpose >; int Options = 0; Scalar = double; SrcXprType = Eigen::Product, Eigen::Transpose >, 0>]’ 148 | generic_product_impl::evalTo(dst, src.lhs(), src.rhs()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:890:49: required from ‘void Eigen::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen::Matrix; Src = Eigen::Product, Eigen::Transpose >, 0>; Func = assign_op]’ 890 | Assignment::run(actualDst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:797:41: required from ‘Derived& Eigen::PlainObjectBase::_set_noalias(const Eigen::DenseBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; Derived = Eigen::Matrix]’ 797 | internal::call_assignment_no_alias(this->derived(), other.derived(), internal::assign_op()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:594:19: required from ‘Eigen::PlainObjectBase::PlainObjectBase(const Eigen::DenseBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; Derived = Eigen::Matrix]’ 594 | _set_noalias(other); | ~~~~~~~~~~~~^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Matrix.h:423:29: required from ‘Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::Matrix(const Eigen::EigenBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; _Scalar = double; int _Rows = 2; int _Cols = 2; int _Options = 0; int _MaxRows = 2; int _MaxCols = 2]’ 423 | : Base(other.derived()) | ^ ../inst/include/RcppML/project.hpp:106:41: required from here 106 | Eigen::Matrix2d a = w * w.transpose(); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, 1, -1, false>, 1, -1, true>, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:481:7: required from ‘class Eigen::DenseCoeffsBase, 1, -1, false>, 1, -1, true>, 2>’ 481 | class DenseCoeffsBase : public DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, 1, -1, false>, 1, -1, true> >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, 1, -1, false>, 1, -1, true> >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MapBase.h:37:34: required from ‘class Eigen::MapBase, 1, -1, false>, 1, -1, true>, 0>’ 37 | template class MapBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Block.h:329:7: required from ‘class Eigen::internal::BlockImpl_dense, 1, -1, false>, 1, -1, true, true>’ 329 | class BlockImpl_dense | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Block.h:154:7: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:148:43: required from ‘static void Eigen::internal::Assignment, Eigen::internal::assign_op, Eigen::internal::Dense2Dense, typename Eigen::internal::enable_if<((Options == Eigen::DefaultProduct) || (Options == Eigen::AliasFreeProduct))>::type>::run(DstXprType&, const SrcXprType&, const Eigen::internal::assign_op&) [with DstXprType = Eigen::Matrix; Lhs = Eigen::Matrix; Rhs = Eigen::Transpose >; int Options = 0; Scalar = double; SrcXprType = Eigen::Product, Eigen::Transpose >, 0>]’ 148 | generic_product_impl::evalTo(dst, src.lhs(), src.rhs()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:890:49: required from ‘void Eigen::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen::Matrix; Src = Eigen::Product, Eigen::Transpose >, 0>; Func = assign_op]’ 890 | Assignment::run(actualDst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:797:41: required from ‘Derived& Eigen::PlainObjectBase::_set_noalias(const Eigen::DenseBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; Derived = Eigen::Matrix]’ 797 | internal::call_assignment_no_alias(this->derived(), other.derived(), internal::assign_op()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:594:19: required from ‘Eigen::PlainObjectBase::PlainObjectBase(const Eigen::DenseBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; Derived = Eigen::Matrix]’ 594 | _set_noalias(other); | ~~~~~~~~~~~~^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Matrix.h:423:29: required from ‘Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::Matrix(const Eigen::EigenBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; _Scalar = double; int _Rows = 2; int _Cols = 2; int _Options = 0; int _MaxRows = 2; int _MaxCols = 2]’ 423 | : Base(other.derived()) | ^ ../inst/include/RcppML/project.hpp:106:41: required from here 106 | Eigen::Matrix2d a = w * w.transpose(); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ In file included from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/Core:330: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h: In instantiation of ‘class Eigen::internal::gebp_traits’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/Parallelizer.h:126:68: required from ‘void Eigen::internal::parallelize_gemm(const Functor&, Index, Index, Index, bool) [with bool Condition = false; Functor = gemm_functor, Eigen::Matrix, Eigen::Transpose >, Eigen::Matrix, gemm_blocking_space<0, double, double, 2, 2, -1, 1, false> >; Index = long int]’ 126 | Index pb_max_threads = std::max(1,size / Functor::Traits::nr); | ^~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixMatrix.h:509:9: required from ‘static void Eigen::internal::generic_product_impl::scaleAndAddTo(Dest&, const Lhs&, const Rhs&, const Scalar&) [with Dest = Eigen::Matrix; Lhs = Eigen::Matrix; Rhs = Eigen::Transpose >; Scalar = double]’ 508 | internal::parallelize_gemm<(Dest::MaxRowsAtCompileTime>32 || Dest::MaxRowsAtCompileTime==Dynamic)> | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 509 | (GemmFunctor(lhs, rhs, dst, actualAlpha, blocking), a_lhs.rows(), a_rhs.cols(), a_lhs.cols(), Dest::Flags&RowMajorBit); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixMatrix.h:445:20: required from ‘static void Eigen::internal::generic_product_impl::evalTo(Dst&, const Lhs&, const Rhs&) [with Dst = Eigen::Matrix; Lhs = Eigen::Matrix; Rhs = Eigen::Transpose >]’ 445 | scaleAndAddTo(dst, lhs, rhs, Scalar(1)); | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:148:43: required from ‘static void Eigen::internal::Assignment, Eigen::internal::assign_op, Eigen::internal::Dense2Dense, typename Eigen::internal::enable_if<((Options == Eigen::DefaultProduct) || (Options == Eigen::AliasFreeProduct))>::type>::run(DstXprType&, const SrcXprType&, const Eigen::internal::assign_op&) [with DstXprType = Eigen::Matrix; Lhs = Eigen::Matrix; Rhs = Eigen::Transpose >; int Options = 0; Scalar = double; SrcXprType = Eigen::Product, Eigen::Transpose >, 0>]’ 148 | generic_product_impl::evalTo(dst, src.lhs(), src.rhs()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:890:49: required from ‘void Eigen::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen::Matrix; Src = Eigen::Product, Eigen::Transpose >, 0>; Func = assign_op]’ 890 | Assignment::run(actualDst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:797:41: required from ‘Derived& Eigen::PlainObjectBase::_set_noalias(const Eigen::DenseBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; Derived = Eigen::Matrix]’ 797 | internal::call_assignment_no_alias(this->derived(), other.derived(), internal::assign_op()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:594:19: required from ‘Eigen::PlainObjectBase::PlainObjectBase(const Eigen::DenseBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; Derived = Eigen::Matrix]’ 594 | _set_noalias(other); | ~~~~~~~~~~~~^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Matrix.h:423:29: required from ‘Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::Matrix(const Eigen::EigenBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; _Scalar = double; int _Rows = 2; int _Cols = 2; int _Options = 0; int _MaxRows = 2; int _MaxCols = 2]’ 423 | : Base(other.derived()) | ^ ../inst/include/RcppML/project.hpp:106:41: required from here 106 | Eigen::Matrix2d a = w * w.transpose(); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:425:27: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] 425 | PACKET_DECL_COND_PREFIX(_, Lhs, _PacketSize); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:384:3: note: in definition of macro ‘PACKET_DECL_COND_PREFIX’ 384 | prefix ## name ## Packet | ^~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:425:27: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 425 | PACKET_DECL_COND_PREFIX(_, Lhs, _PacketSize); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:384:3: note: in definition of macro ‘PACKET_DECL_COND_PREFIX’ 384 | prefix ## name ## Packet | ^~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:425:27: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] 425 | PACKET_DECL_COND_PREFIX(_, Lhs, _PacketSize); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:384:3: note: in definition of macro ‘PACKET_DECL_COND_PREFIX’ 384 | prefix ## name ## Packet | ^~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:425:27: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] 425 | PACKET_DECL_COND_PREFIX(_, Lhs, _PacketSize); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:384:3: note: in definition of macro ‘PACKET_DECL_COND_PREFIX’ 384 | prefix ## name ## Packet | ^~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:426:27: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] 426 | PACKET_DECL_COND_PREFIX(_, Rhs, _PacketSize); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:384:3: note: in definition of macro ‘PACKET_DECL_COND_PREFIX’ 384 | prefix ## name ## Packet | ^~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:426:27: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 426 | PACKET_DECL_COND_PREFIX(_, Rhs, _PacketSize); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:384:3: note: in definition of macro ‘PACKET_DECL_COND_PREFIX’ 384 | prefix ## name ## Packet | ^~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:426:27: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] 426 | PACKET_DECL_COND_PREFIX(_, Rhs, _PacketSize); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:384:3: note: in definition of macro ‘PACKET_DECL_COND_PREFIX’ 384 | prefix ## name ## Packet | ^~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:426:27: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] 426 | PACKET_DECL_COND_PREFIX(_, Rhs, _PacketSize); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:384:3: note: in definition of macro ‘PACKET_DECL_COND_PREFIX’ 384 | prefix ## name ## Packet | ^~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:427:27: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] 427 | PACKET_DECL_COND_PREFIX(_, Res, _PacketSize); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:384:3: note: in definition of macro ‘PACKET_DECL_COND_PREFIX’ 384 | prefix ## name ## Packet | ^~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:427:27: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 427 | PACKET_DECL_COND_PREFIX(_, Res, _PacketSize); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:384:3: note: in definition of macro ‘PACKET_DECL_COND_PREFIX’ 384 | prefix ## name ## Packet | ^~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:427:27: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] 427 | PACKET_DECL_COND_PREFIX(_, Res, _PacketSize); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:384:3: note: in definition of macro ‘PACKET_DECL_COND_PREFIX’ 384 | prefix ## name ## Packet | ^~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:427:27: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] 427 | PACKET_DECL_COND_PREFIX(_, Res, _PacketSize); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:384:3: note: in definition of macro ‘PACKET_DECL_COND_PREFIX’ 384 | prefix ## name ## Packet | ^~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:432:49: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] 432 | Vectorizable = unpacket_traits<_LhsPacket>::vectorizable && unpacket_traits<_RhsPacket>::vectorizable, | ^~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:432:49: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:432:49: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:432:49: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:432:94: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] 432 | Vectorizable = unpacket_traits<_LhsPacket>::vectorizable && unpacket_traits<_RhsPacket>::vectorizable, | ^~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:432:94: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:432:94: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:432:94: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:433:65: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] 433 | LhsPacketSize = Vectorizable ? unpacket_traits<_LhsPacket>::size : 1, | ^~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:433:65: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:433:65: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:433:65: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:434:65: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] 434 | RhsPacketSize = Vectorizable ? unpacket_traits<_RhsPacket>::size : 1, | ^~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:434:65: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:434:65: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:434:65: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:435:65: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] 435 | ResPacketSize = Vectorizable ? unpacket_traits<_ResPacket>::size : 1, | ^~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:435:65: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:435:65: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:435:65: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:460:73: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] 460 | typedef typename conditional::type LhsPacket; | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:460:73: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:460:73: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:460:73: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:461:73: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] 461 | typedef typename conditional::type RhsPacket; | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:461:73: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:461:73: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:461:73: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:462:73: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] 462 | typedef typename conditional::type ResPacket; | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:462:73: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:462:73: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:462:73: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:465:33: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] 465 | typedef QuadPacket RhsPacketx4; | ^~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:465:33: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:465:33: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:465:33: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h: In instantiation of ‘class Eigen::internal::gebp_traits’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:1080:42: required from ‘struct Eigen::internal::gebp_kernel, 4, 4, false, false>’ 1080 | typedef typename HalfTraits::LhsPacket LhsPacketHalf; | ^~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/TriangularSolverMatrix.h:231:93: required from ‘static void Eigen::internal::triangular_solve_matrix::run(Index, Index, const Scalar*, Index, Scalar*, Index, Index, Eigen::internal::level3_blocking&) [with Scalar = double; Index = long int; int Mode = 2; bool Conjugate = false; int TriStorageOrder = 1; int OtherInnerStride = 1]’ 231 | gebp_kernel gebp_kernel; | ^~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/SolveTriangular.h:102:12: required from ‘static void Eigen::internal::triangular_solver_selector::run(const Lhs&, Rhs&) [with Lhs = const Eigen::Transpose, -1, -1, false> >; Rhs = Eigen::Block, -1, -1, false>; int Side = 2; int Mode = 2]’ 100 | triangular_solve_matrix | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 102 | ::run(size, othersize, &actualLhs.coeffRef(0,0), actualLhs.outerStride(), &rhs.coeffRef(0,0), rhs.innerStride(), rhs.outerStride(), blocking); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/SolveTriangular.h:182:21: required from ‘void Eigen::TriangularViewImpl<_MatrixType, _Mode, Eigen::Dense>::solveInPlace(const Eigen::MatrixBase&) const [with int Side = 2; OtherDerived = Eigen::Block, -1, -1, false>; _MatrixType = const Eigen::Transpose, -1, -1, false> >; unsigned int _Mode = 2]’ 181 | internal::triangular_solver_selector::type, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 182 | Side, Mode>::run(derived().nestedExpression(), otherCopy); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:364:96: required from ‘static Eigen::Index Eigen::internal::llt_inplace::blocked(MatrixType&) [with MatrixType = Eigen::Matrix; Scalar = double; Eigen::Index = long int]’ 364 | if(rs>0) A11.adjoint().template triangularView().template solveInPlace(A21); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:408:68: required from ‘static bool Eigen::internal::LLT_Traits::inplace_decomposition(MatrixType&) [with MatrixType = Eigen::Matrix]’ 408 | { return llt_inplace::blocked(m)==-1; } | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:456:42: required from ‘Eigen::LLT<_MatrixType, _UpLo>& Eigen::LLT::compute(const Eigen::EigenBase&) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix; int _UpLo = 1]’ 456 | bool ok = Traits::inplace_decomposition(m_matrix); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:109:14: required from ‘Eigen::LLT::LLT(const Eigen::EigenBase&) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix; int _UpLo = 1]’ 109 | compute(matrix.derived()); | ~~~~~~~^~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:542:10: required from ‘const Eigen::LLT::PlainObject> Eigen::MatrixBase::llt() const [with Derived = Eigen::Matrix; typename Eigen::DenseBase::PlainObject = Eigen::Matrix]’ 542 | return LLT(derived()); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../inst/include/RcppML/project.hpp:123:51: required from here 123 | Eigen::LLT a_llt = a.llt(); | ~~~~~^~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:425:27: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] 425 | PACKET_DECL_COND_PREFIX(_, Lhs, _PacketSize); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:384:3: note: in definition of macro ‘PACKET_DECL_COND_PREFIX’ 384 | prefix ## name ## Packet | ^~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:425:27: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 425 | PACKET_DECL_COND_PREFIX(_, Lhs, _PacketSize); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:384:3: note: in definition of macro ‘PACKET_DECL_COND_PREFIX’ 384 | prefix ## name ## Packet | ^~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:425:27: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] 425 | PACKET_DECL_COND_PREFIX(_, Lhs, _PacketSize); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:384:3: note: in definition of macro ‘PACKET_DECL_COND_PREFIX’ 384 | prefix ## name ## Packet | ^~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:425:27: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] 425 | PACKET_DECL_COND_PREFIX(_, Lhs, _PacketSize); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:384:3: note: in definition of macro ‘PACKET_DECL_COND_PREFIX’ 384 | prefix ## name ## Packet | ^~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:426:27: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] 426 | PACKET_DECL_COND_PREFIX(_, Rhs, _PacketSize); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:384:3: note: in definition of macro ‘PACKET_DECL_COND_PREFIX’ 384 | prefix ## name ## Packet | ^~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:426:27: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 426 | PACKET_DECL_COND_PREFIX(_, Rhs, _PacketSize); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:384:3: note: in definition of macro ‘PACKET_DECL_COND_PREFIX’ 384 | prefix ## name ## Packet | ^~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:426:27: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] 426 | PACKET_DECL_COND_PREFIX(_, Rhs, _PacketSize); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:384:3: note: in definition of macro ‘PACKET_DECL_COND_PREFIX’ 384 | prefix ## name ## Packet | ^~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:426:27: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] 426 | PACKET_DECL_COND_PREFIX(_, Rhs, _PacketSize); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:384:3: note: in definition of macro ‘PACKET_DECL_COND_PREFIX’ 384 | prefix ## name ## Packet | ^~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:427:27: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] 427 | PACKET_DECL_COND_PREFIX(_, Res, _PacketSize); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:384:3: note: in definition of macro ‘PACKET_DECL_COND_PREFIX’ 384 | prefix ## name ## Packet | ^~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:427:27: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 427 | PACKET_DECL_COND_PREFIX(_, Res, _PacketSize); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:384:3: note: in definition of macro ‘PACKET_DECL_COND_PREFIX’ 384 | prefix ## name ## Packet | ^~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:427:27: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] 427 | PACKET_DECL_COND_PREFIX(_, Res, _PacketSize); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:384:3: note: in definition of macro ‘PACKET_DECL_COND_PREFIX’ 384 | prefix ## name ## Packet | ^~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:427:27: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] 427 | PACKET_DECL_COND_PREFIX(_, Res, _PacketSize); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:384:3: note: in definition of macro ‘PACKET_DECL_COND_PREFIX’ 384 | prefix ## name ## Packet | ^~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:432:49: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] 432 | Vectorizable = unpacket_traits<_LhsPacket>::vectorizable && unpacket_traits<_RhsPacket>::vectorizable, | ^~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:432:49: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:432:49: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:432:49: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:432:94: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] 432 | Vectorizable = unpacket_traits<_LhsPacket>::vectorizable && unpacket_traits<_RhsPacket>::vectorizable, | ^~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:432:94: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:432:94: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:432:94: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:433:65: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] 433 | LhsPacketSize = Vectorizable ? unpacket_traits<_LhsPacket>::size : 1, | ^~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:433:65: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:433:65: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:433:65: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:434:65: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] 434 | RhsPacketSize = Vectorizable ? unpacket_traits<_RhsPacket>::size : 1, | ^~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:434:65: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:434:65: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:434:65: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:435:65: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] 435 | ResPacketSize = Vectorizable ? unpacket_traits<_ResPacket>::size : 1, | ^~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:435:65: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:435:65: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:435:65: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:460:73: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] 460 | typedef typename conditional::type LhsPacket; | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:460:73: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:460:73: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:460:73: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:461:73: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] 461 | typedef typename conditional::type RhsPacket; | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:461:73: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:461:73: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:461:73: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:462:73: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] 462 | typedef typename conditional::type ResPacket; | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:462:73: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:462:73: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:462:73: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:465:33: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] 465 | typedef QuadPacket RhsPacketx4; | ^~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:465:33: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:465:33: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:465:33: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h: In instantiation of ‘class Eigen::internal::gebp_traits’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:1085:45: required from ‘struct Eigen::internal::gebp_kernel, 4, 4, false, false>’ 1085 | typedef typename QuarterTraits::LhsPacket LhsPacketQuarter; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/TriangularSolverMatrix.h:231:93: required from ‘static void Eigen::internal::triangular_solve_matrix::run(Index, Index, const Scalar*, Index, Scalar*, Index, Index, Eigen::internal::level3_blocking&) [with Scalar = double; Index = long int; int Mode = 2; bool Conjugate = false; int TriStorageOrder = 1; int OtherInnerStride = 1]’ 231 | gebp_kernel gebp_kernel; | ^~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/SolveTriangular.h:102:12: required from ‘static void Eigen::internal::triangular_solver_selector::run(const Lhs&, Rhs&) [with Lhs = const Eigen::Transpose, -1, -1, false> >; Rhs = Eigen::Block, -1, -1, false>; int Side = 2; int Mode = 2]’ 100 | triangular_solve_matrix | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 102 | ::run(size, othersize, &actualLhs.coeffRef(0,0), actualLhs.outerStride(), &rhs.coeffRef(0,0), rhs.innerStride(), rhs.outerStride(), blocking); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/SolveTriangular.h:182:21: required from ‘void Eigen::TriangularViewImpl<_MatrixType, _Mode, Eigen::Dense>::solveInPlace(const Eigen::MatrixBase&) const [with int Side = 2; OtherDerived = Eigen::Block, -1, -1, false>; _MatrixType = const Eigen::Transpose, -1, -1, false> >; unsigned int _Mode = 2]’ 181 | internal::triangular_solver_selector::type, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 182 | Side, Mode>::run(derived().nestedExpression(), otherCopy); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:364:96: required from ‘static Eigen::Index Eigen::internal::llt_inplace::blocked(MatrixType&) [with MatrixType = Eigen::Matrix; Scalar = double; Eigen::Index = long int]’ 364 | if(rs>0) A11.adjoint().template triangularView().template solveInPlace(A21); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:408:68: required from ‘static bool Eigen::internal::LLT_Traits::inplace_decomposition(MatrixType&) [with MatrixType = Eigen::Matrix]’ 408 | { return llt_inplace::blocked(m)==-1; } | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:456:42: required from ‘Eigen::LLT<_MatrixType, _UpLo>& Eigen::LLT::compute(const Eigen::EigenBase&) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix; int _UpLo = 1]’ 456 | bool ok = Traits::inplace_decomposition(m_matrix); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:109:14: required from ‘Eigen::LLT::LLT(const Eigen::EigenBase&) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix; int _UpLo = 1]’ 109 | compute(matrix.derived()); | ~~~~~~~^~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:542:10: required from ‘const Eigen::LLT::PlainObject> Eigen::MatrixBase::llt() const [with Derived = Eigen::Matrix; typename Eigen::DenseBase::PlainObject = Eigen::Matrix]’ 542 | return LLT(derived()); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../inst/include/RcppML/project.hpp:123:51: required from here 123 | Eigen::LLT a_llt = a.llt(); | ~~~~~^~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:425:27: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] 425 | PACKET_DECL_COND_PREFIX(_, Lhs, _PacketSize); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:384:3: note: in definition of macro ‘PACKET_DECL_COND_PREFIX’ 384 | prefix ## name ## Packet | ^~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:425:27: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 425 | PACKET_DECL_COND_PREFIX(_, Lhs, _PacketSize); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:384:3: note: in definition of macro ‘PACKET_DECL_COND_PREFIX’ 384 | prefix ## name ## Packet | ^~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:425:27: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] 425 | PACKET_DECL_COND_PREFIX(_, Lhs, _PacketSize); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:384:3: note: in definition of macro ‘PACKET_DECL_COND_PREFIX’ 384 | prefix ## name ## Packet | ^~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:425:27: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] 425 | PACKET_DECL_COND_PREFIX(_, Lhs, _PacketSize); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:384:3: note: in definition of macro ‘PACKET_DECL_COND_PREFIX’ 384 | prefix ## name ## Packet | ^~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:426:27: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] 426 | PACKET_DECL_COND_PREFIX(_, Rhs, _PacketSize); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:384:3: note: in definition of macro ‘PACKET_DECL_COND_PREFIX’ 384 | prefix ## name ## Packet | ^~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:426:27: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 426 | PACKET_DECL_COND_PREFIX(_, Rhs, _PacketSize); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:384:3: note: in definition of macro ‘PACKET_DECL_COND_PREFIX’ 384 | prefix ## name ## Packet | ^~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:426:27: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] 426 | PACKET_DECL_COND_PREFIX(_, Rhs, _PacketSize); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:384:3: note: in definition of macro ‘PACKET_DECL_COND_PREFIX’ 384 | prefix ## name ## Packet | ^~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:426:27: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] 426 | PACKET_DECL_COND_PREFIX(_, Rhs, _PacketSize); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:384:3: note: in definition of macro ‘PACKET_DECL_COND_PREFIX’ 384 | prefix ## name ## Packet | ^~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:427:27: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] 427 | PACKET_DECL_COND_PREFIX(_, Res, _PacketSize); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:384:3: note: in definition of macro ‘PACKET_DECL_COND_PREFIX’ 384 | prefix ## name ## Packet | ^~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:427:27: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 427 | PACKET_DECL_COND_PREFIX(_, Res, _PacketSize); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:384:3: note: in definition of macro ‘PACKET_DECL_COND_PREFIX’ 384 | prefix ## name ## Packet | ^~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:427:27: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] 427 | PACKET_DECL_COND_PREFIX(_, Res, _PacketSize); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:384:3: note: in definition of macro ‘PACKET_DECL_COND_PREFIX’ 384 | prefix ## name ## Packet | ^~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:427:27: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] 427 | PACKET_DECL_COND_PREFIX(_, Res, _PacketSize); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:384:3: note: in definition of macro ‘PACKET_DECL_COND_PREFIX’ 384 | prefix ## name ## Packet | ^~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:432:49: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] 432 | Vectorizable = unpacket_traits<_LhsPacket>::vectorizable && unpacket_traits<_RhsPacket>::vectorizable, | ^~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:432:49: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:432:49: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:432:49: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:432:94: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] 432 | Vectorizable = unpacket_traits<_LhsPacket>::vectorizable && unpacket_traits<_RhsPacket>::vectorizable, | ^~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:432:94: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:432:94: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:432:94: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:433:65: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] 433 | LhsPacketSize = Vectorizable ? unpacket_traits<_LhsPacket>::size : 1, | ^~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:433:65: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:433:65: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:433:65: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:434:65: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] 434 | RhsPacketSize = Vectorizable ? unpacket_traits<_RhsPacket>::size : 1, | ^~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:434:65: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:434:65: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:434:65: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:435:65: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] 435 | ResPacketSize = Vectorizable ? unpacket_traits<_ResPacket>::size : 1, | ^~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:435:65: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:435:65: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:435:65: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:460:73: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] 460 | typedef typename conditional::type LhsPacket; | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:460:73: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:460:73: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:460:73: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:461:73: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] 461 | typedef typename conditional::type RhsPacket; | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:461:73: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:461:73: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:461:73: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:462:73: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] 462 | typedef typename conditional::type ResPacket; | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:462:73: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:462:73: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:462:73: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:465:33: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] 465 | typedef QuadPacket RhsPacketx4; | ^~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:465:33: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:465:33: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:465:33: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h: In instantiation of ‘struct Eigen::internal::gemm_pack_rhs, 4, 1, false, false>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/TriangularSolverMatrix.h:232:74: required from ‘static void Eigen::internal::triangular_solve_matrix::run(Index, Index, const Scalar*, Index, Scalar*, Index, Index, Eigen::internal::level3_blocking&) [with Scalar = double; Index = long int; int Mode = 2; bool Conjugate = false; int TriStorageOrder = 1; int OtherInnerStride = 1]’ 232 | gemm_pack_rhs pack_rhs; | ^~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/SolveTriangular.h:102:12: required from ‘static void Eigen::internal::triangular_solver_selector::run(const Lhs&, Rhs&) [with Lhs = const Eigen::Transpose, -1, -1, false> >; Rhs = Eigen::Block, -1, -1, false>; int Side = 2; int Mode = 2]’ 100 | triangular_solve_matrix | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 102 | ::run(size, othersize, &actualLhs.coeffRef(0,0), actualLhs.outerStride(), &rhs.coeffRef(0,0), rhs.innerStride(), rhs.outerStride(), blocking); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/SolveTriangular.h:182:21: required from ‘void Eigen::TriangularViewImpl<_MatrixType, _Mode, Eigen::Dense>::solveInPlace(const Eigen::MatrixBase&) const [with int Side = 2; OtherDerived = Eigen::Block, -1, -1, false>; _MatrixType = const Eigen::Transpose, -1, -1, false> >; unsigned int _Mode = 2]’ 181 | internal::triangular_solver_selector::type, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 182 | Side, Mode>::run(derived().nestedExpression(), otherCopy); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:364:96: required from ‘static Eigen::Index Eigen::internal::llt_inplace::blocked(MatrixType&) [with MatrixType = Eigen::Matrix; Scalar = double; Eigen::Index = long int]’ 364 | if(rs>0) A11.adjoint().template triangularView().template solveInPlace(A21); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:408:68: required from ‘static bool Eigen::internal::LLT_Traits::inplace_decomposition(MatrixType&) [with MatrixType = Eigen::Matrix]’ 408 | { return llt_inplace::blocked(m)==-1; } | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:456:42: required from ‘Eigen::LLT<_MatrixType, _UpLo>& Eigen::LLT::compute(const Eigen::EigenBase&) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix; int _UpLo = 1]’ 456 | bool ok = Traits::inplace_decomposition(m_matrix); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:109:14: required from ‘Eigen::LLT::LLT(const Eigen::EigenBase&) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix; int _UpLo = 1]’ 109 | compute(matrix.derived()); | ~~~~~~~^~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:542:10: required from ‘const Eigen::LLT::PlainObject> Eigen::MatrixBase::llt() const [with Derived = Eigen::Matrix; typename Eigen::DenseBase::PlainObject = Eigen::Matrix]’ 542 | return LLT(derived()); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../inst/include/RcppML/project.hpp:123:51: required from here 123 | Eigen::LLT a_llt = a.llt(); | ~~~~~^~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:2504:50: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 2504 | typedef typename unpacket_traits::half HalfPacket; | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:2505:82: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 2505 | typedef typename unpacket_traits::half>::half QuarterPacket; | ^~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:2505:82: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:2508:56: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 2508 | HalfPacketSize = unpacket_traits::size, | ^~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:2508:56: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:2509:70: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 2509 | QuarterPacketSize = unpacket_traits::size}; | ^~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:2509:70: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:2509:70: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h: In instantiation of ‘struct Eigen::internal::gemm_pack_rhs, 4, 1, false, true>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/TriangularSolverMatrix.h:233:85: required from ‘static void Eigen::internal::triangular_solve_matrix::run(Index, Index, const Scalar*, Index, Scalar*, Index, Index, Eigen::internal::level3_blocking&) [with Scalar = double; Index = long int; int Mode = 2; bool Conjugate = false; int TriStorageOrder = 1; int OtherInnerStride = 1]’ 233 | gemm_pack_rhs pack_rhs_panel; | ^~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/SolveTriangular.h:102:12: required from ‘static void Eigen::internal::triangular_solver_selector::run(const Lhs&, Rhs&) [with Lhs = const Eigen::Transpose, -1, -1, false> >; Rhs = Eigen::Block, -1, -1, false>; int Side = 2; int Mode = 2]’ 100 | triangular_solve_matrix | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 102 | ::run(size, othersize, &actualLhs.coeffRef(0,0), actualLhs.outerStride(), &rhs.coeffRef(0,0), rhs.innerStride(), rhs.outerStride(), blocking); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/SolveTriangular.h:182:21: required from ‘void Eigen::TriangularViewImpl<_MatrixType, _Mode, Eigen::Dense>::solveInPlace(const Eigen::MatrixBase&) const [with int Side = 2; OtherDerived = Eigen::Block, -1, -1, false>; _MatrixType = const Eigen::Transpose, -1, -1, false> >; unsigned int _Mode = 2]’ 181 | internal::triangular_solver_selector::type, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 182 | Side, Mode>::run(derived().nestedExpression(), otherCopy); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:364:96: required from ‘static Eigen::Index Eigen::internal::llt_inplace::blocked(MatrixType&) [with MatrixType = Eigen::Matrix; Scalar = double; Eigen::Index = long int]’ 364 | if(rs>0) A11.adjoint().template triangularView().template solveInPlace(A21); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:408:68: required from ‘static bool Eigen::internal::LLT_Traits::inplace_decomposition(MatrixType&) [with MatrixType = Eigen::Matrix]’ 408 | { return llt_inplace::blocked(m)==-1; } | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:456:42: required from ‘Eigen::LLT<_MatrixType, _UpLo>& Eigen::LLT::compute(const Eigen::EigenBase&) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix; int _UpLo = 1]’ 456 | bool ok = Traits::inplace_decomposition(m_matrix); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:109:14: required from ‘Eigen::LLT::LLT(const Eigen::EigenBase&) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix; int _UpLo = 1]’ 109 | compute(matrix.derived()); | ~~~~~~~^~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:542:10: required from ‘const Eigen::LLT::PlainObject> Eigen::MatrixBase::llt() const [with Derived = Eigen::Matrix; typename Eigen::DenseBase::PlainObject = Eigen::Matrix]’ 542 | return LLT(derived()); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../inst/include/RcppML/project.hpp:123:51: required from here 123 | Eigen::LLT a_llt = a.llt(); | ~~~~~^~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:2504:50: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 2504 | typedef typename unpacket_traits::half HalfPacket; | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:2505:82: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 2505 | typedef typename unpacket_traits::half>::half QuarterPacket; | ^~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:2505:82: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:2508:56: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 2508 | HalfPacketSize = unpacket_traits::size, | ^~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:2508:56: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:2509:70: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 2509 | QuarterPacketSize = unpacket_traits::size}; | ^~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:2509:70: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:2509:70: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase >, -1, 1, false>, -1, 1, true>, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:481:7: required from ‘class Eigen::DenseCoeffsBase >, -1, 1, false>, -1, 1, true>, 2>’ 481 | class DenseCoeffsBase : public DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase >, -1, 1, false>, -1, 1, true> >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase >, -1, 1, false>, -1, 1, true> >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MapBase.h:37:34: required from ‘class Eigen::MapBase >, -1, 1, false>, -1, 1, true>, 0>’ 37 | template class MapBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Block.h:329:7: required from ‘class Eigen::internal::BlockImpl_dense >, -1, 1, false>, -1, 1, true, true>’ 329 | class BlockImpl_dense | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Block.h:154:7: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:148:43: required from ‘static void Eigen::internal::Assignment, Eigen::internal::assign_op, Eigen::internal::Dense2Dense, typename Eigen::internal::enable_if<((Options == Eigen::DefaultProduct) || (Options == Eigen::AliasFreeProduct))>::type>::run(DstXprType&, const SrcXprType&, const Eigen::internal::assign_op&) [with DstXprType = Eigen::Matrix; Lhs = Eigen::Matrix; Rhs = Eigen::Transpose >; int Options = 0; Scalar = double; SrcXprType = Eigen::Product, Eigen::Transpose >, 0>]’ 148 | generic_product_impl::evalTo(dst, src.lhs(), src.rhs()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:890:49: required from ‘void Eigen::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen::Matrix; Src = Eigen::Product, Eigen::Transpose >, 0>; Func = assign_op]’ 890 | Assignment::run(actualDst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:797:41: required from ‘Derived& Eigen::PlainObjectBase::_set_noalias(const Eigen::DenseBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; Derived = Eigen::Matrix]’ 797 | internal::call_assignment_no_alias(this->derived(), other.derived(), internal::assign_op()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:594:19: required from ‘Eigen::PlainObjectBase::PlainObjectBase(const Eigen::DenseBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; Derived = Eigen::Matrix]’ 594 | _set_noalias(other); | ~~~~~~~~~~~~^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Matrix.h:423:29: required from ‘Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::Matrix(const Eigen::EigenBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; _Scalar = double; int _Rows = -1; int _Cols = -1; int _Options = 0; int _MaxRows = -1; int _MaxCols = -1]’ 423 | : Base(other.derived()) | ^ ../inst/include/RcppML/project.hpp:149:47: required from here 149 | Eigen::MatrixXd a = w_ * w_.transpose(); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, -1, 1, true>, -1, 1, true>, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:481:7: required from ‘class Eigen::DenseCoeffsBase, -1, 1, true>, -1, 1, true>, 2>’ 481 | class DenseCoeffsBase : public DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, -1, 1, true>, -1, 1, true> >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, -1, 1, true>, -1, 1, true> >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MapBase.h:37:34: required from ‘class Eigen::MapBase, -1, 1, true>, -1, 1, true>, 0>’ 37 | template class MapBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Block.h:329:7: required from ‘class Eigen::internal::BlockImpl_dense, -1, 1, true>, -1, 1, true, true>’ 329 | class BlockImpl_dense | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Block.h:154:7: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:148:43: required from ‘static void Eigen::internal::Assignment, Eigen::internal::assign_op, Eigen::internal::Dense2Dense, typename Eigen::internal::enable_if<((Options == Eigen::DefaultProduct) || (Options == Eigen::AliasFreeProduct))>::type>::run(DstXprType&, const SrcXprType&, const Eigen::internal::assign_op&) [with DstXprType = Eigen::Matrix; Lhs = Eigen::Matrix; Rhs = Eigen::Block, -1, 1, true>; int Options = 0; Scalar = double; SrcXprType = Eigen::Product, Eigen::Block, -1, 1, true>, 0>]’ 148 | generic_product_impl::evalTo(dst, src.lhs(), src.rhs()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:890:49: required from ‘void Eigen::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen::Matrix; Src = Eigen::Product, Eigen::Block, -1, 1, true>, 0>; Func = assign_op]’ 890 | Assignment::run(actualDst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:797:41: required from ‘Derived& Eigen::PlainObjectBase::_set_noalias(const Eigen::DenseBase&) [with OtherDerived = Eigen::Product, Eigen::Block, -1, 1, true>, 0>; Derived = Eigen::Matrix]’ 797 | internal::call_assignment_no_alias(this->derived(), other.derived(), internal::assign_op()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:594:19: required from ‘Eigen::PlainObjectBase::PlainObjectBase(const Eigen::DenseBase&) [with OtherDerived = Eigen::Product, Eigen::Block, -1, 1, true>, 0>; Derived = Eigen::Matrix]’ 594 | _set_noalias(other); | ~~~~~~~~~~~~^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Matrix.h:423:29: required from ‘Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::Matrix(const Eigen::EigenBase&) [with OtherDerived = Eigen::Product, Eigen::Block, -1, 1, true>, 0>; _Scalar = double; int _Rows = -1; int _Cols = 1; int _Options = 0; int _MaxRows = -1; int _MaxCols = 1]’ 423 | : Base(other.derived()) | ^ ../inst/include/RcppML/nmf.hpp:98:46: required from here 98 | Eigen::VectorXd wh_i = w0 * h.col(i); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ In file included from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/Core:333: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h: In instantiation of ‘class Eigen::internal::gemv_traits’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:87:38: required from ‘struct Eigen::internal::general_matrix_vector_product, 0, false, double, Eigen::internal::const_blas_data_mapper, false, 0>’ 87 | typedef typename Traits::LhsPacket LhsPacket; | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/GeneralProduct.h:253:134: required from ‘static void Eigen::internal::gemv_dense_selector<2, 0, true>::run(const Lhs&, const Rhs&, Dest&, const typename Dest::Scalar&) [with Lhs = Eigen::Matrix; Rhs = Eigen::Block >, -1, 1, false>; Dest = Eigen::Block, 2, 1, true>; typename Dest::Scalar = double]’ 252 | general_matrix_vector_product | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 253 | ::run( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 254 | actualLhs.rows(), actualLhs.cols(), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 255 | LhsMapper(actualLhs.data(), actualLhs.outerStride()), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 256 | RhsMapper(actualRhs.data(), actualRhs.innerStride()), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 257 | dest.data(), 1, | ~~~~~~~~~~~~~~~ 258 | compatibleAlpha); | ~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:388:34: required from ‘static void Eigen::internal::generic_product_impl::scaleAndAddTo(Dest&, const Lhs&, const Rhs&, const Scalar&) [with Dest = Eigen::Block, 2, 1, true>; Lhs = Eigen::Matrix; Rhs = const Eigen::Block >, -1, 1, false>; Scalar = double]’ 385 | internal::gemv_dense_selector::HasUsableDirectAccess) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 388 | >::run(actual_lhs, actual_rhs, dst, alpha); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixMatrix.h:479:24: required from ‘static void Eigen::internal::generic_product_impl::scaleAndAddTo(Dest&, const Lhs&, const Rhs&, const Scalar&) [with Dest = Eigen::Matrix; Lhs = Eigen::Matrix; Rhs = Eigen::Transpose >; Scalar = double]’ 478 | return internal::generic_product_impl | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 479 | ::scaleAndAddTo(dst_vec, a_lhs, a_rhs.col(0), alpha); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixMatrix.h:445:20: required from ‘static void Eigen::internal::generic_product_impl::evalTo(Dst&, const Lhs&, const Rhs&) [with Dst = Eigen::Matrix; Lhs = Eigen::Matrix; Rhs = Eigen::Transpose >]’ 445 | scaleAndAddTo(dst, lhs, rhs, Scalar(1)); | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:148:43: required from ‘static void Eigen::internal::Assignment, Eigen::internal::assign_op, Eigen::internal::Dense2Dense, typename Eigen::internal::enable_if<((Options == Eigen::DefaultProduct) || (Options == Eigen::AliasFreeProduct))>::type>::run(DstXprType&, const SrcXprType&, const Eigen::internal::assign_op&) [with DstXprType = Eigen::Matrix; Lhs = Eigen::Matrix; Rhs = Eigen::Transpose >; int Options = 0; Scalar = double; SrcXprType = Eigen::Product, Eigen::Transpose >, 0>]’ 148 | generic_product_impl::evalTo(dst, src.lhs(), src.rhs()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:890:49: required from ‘void Eigen::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen::Matrix; Src = Eigen::Product, Eigen::Transpose >, 0>; Func = assign_op]’ 890 | Assignment::run(actualDst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:797:41: required from ‘Derived& Eigen::PlainObjectBase::_set_noalias(const Eigen::DenseBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; Derived = Eigen::Matrix]’ 797 | internal::call_assignment_no_alias(this->derived(), other.derived(), internal::assign_op()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:594:19: required from ‘Eigen::PlainObjectBase::PlainObjectBase(const Eigen::DenseBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; Derived = Eigen::Matrix]’ 594 | _set_noalias(other); | ~~~~~~~~~~~~^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Matrix.h:423:29: required from ‘Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::Matrix(const Eigen::EigenBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; _Scalar = double; int _Rows = 2; int _Cols = 2; int _Options = 0; int _MaxRows = 2; int _MaxCols = 2]’ 423 | : Base(other.derived()) | ^ ../inst/include/RcppML/project.hpp:106:41: required from here 106 | Eigen::Matrix2d a = w * w.transpose(); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:44:27: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] 44 | PACKET_DECL_COND_PREFIX(_, Lhs, _PacketSize); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:42:3: note: in definition of macro ‘PACKET_DECL_COND_PREFIX’ 42 | prefix ## name ## Packet | ^~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:44:27: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 44 | PACKET_DECL_COND_PREFIX(_, Lhs, _PacketSize); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:42:3: note: in definition of macro ‘PACKET_DECL_COND_PREFIX’ 42 | prefix ## name ## Packet | ^~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:44:27: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] 44 | PACKET_DECL_COND_PREFIX(_, Lhs, _PacketSize); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:42:3: note: in definition of macro ‘PACKET_DECL_COND_PREFIX’ 42 | prefix ## name ## Packet | ^~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:44:27: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] 44 | PACKET_DECL_COND_PREFIX(_, Lhs, _PacketSize); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:42:3: note: in definition of macro ‘PACKET_DECL_COND_PREFIX’ 42 | prefix ## name ## Packet | ^~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:45:27: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] 45 | PACKET_DECL_COND_PREFIX(_, Rhs, _PacketSize); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:42:3: note: in definition of macro ‘PACKET_DECL_COND_PREFIX’ 42 | prefix ## name ## Packet | ^~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:45:27: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 45 | PACKET_DECL_COND_PREFIX(_, Rhs, _PacketSize); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:42:3: note: in definition of macro ‘PACKET_DECL_COND_PREFIX’ 42 | prefix ## name ## Packet | ^~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:45:27: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] 45 | PACKET_DECL_COND_PREFIX(_, Rhs, _PacketSize); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:42:3: note: in definition of macro ‘PACKET_DECL_COND_PREFIX’ 42 | prefix ## name ## Packet | ^~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:45:27: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] 45 | PACKET_DECL_COND_PREFIX(_, Rhs, _PacketSize); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:42:3: note: in definition of macro ‘PACKET_DECL_COND_PREFIX’ 42 | prefix ## name ## Packet | ^~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:46:27: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] 46 | PACKET_DECL_COND_PREFIX(_, Res, _PacketSize); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:42:3: note: in definition of macro ‘PACKET_DECL_COND_PREFIX’ 42 | prefix ## name ## Packet | ^~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:46:27: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 46 | PACKET_DECL_COND_PREFIX(_, Res, _PacketSize); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:42:3: note: in definition of macro ‘PACKET_DECL_COND_PREFIX’ 42 | prefix ## name ## Packet | ^~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:46:27: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] 46 | PACKET_DECL_COND_PREFIX(_, Res, _PacketSize); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:42:3: note: in definition of macro ‘PACKET_DECL_COND_PREFIX’ 42 | prefix ## name ## Packet | ^~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:46:27: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] 46 | PACKET_DECL_COND_PREFIX(_, Res, _PacketSize); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:42:3: note: in definition of macro ‘PACKET_DECL_COND_PREFIX’ 42 | prefix ## name ## Packet | ^~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:51:53: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] 51 | Vectorizable = unpacket_traits<_LhsPacket>::vectorizable && | ^~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:51:53: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:51:53: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:51:53: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:52:38: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] 52 | unpacket_traits<_RhsPacket>::vectorizable && | ^~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:52:38: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:52:38: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:52:38: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:53:42: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] 53 | int(unpacket_traits<_LhsPacket>::size)==int(unpacket_traits<_RhsPacket>::size), | ^~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:53:42: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:53:42: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:53:42: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:53:82: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] 53 | int(unpacket_traits<_LhsPacket>::size)==int(unpacket_traits<_RhsPacket>::size), | ^~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:53:82: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:53:82: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:53:82: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:54:69: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] 54 | LhsPacketSize = Vectorizable ? unpacket_traits<_LhsPacket>::size : 1, | ^~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:54:69: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:54:69: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:54:69: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:55:69: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] 55 | RhsPacketSize = Vectorizable ? unpacket_traits<_RhsPacket>::size : 1, | ^~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:55:69: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:55:69: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:55:69: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:56:69: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] 56 | ResPacketSize = Vectorizable ? unpacket_traits<_ResPacket>::size : 1 | ^~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:56:69: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:56:69: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:56:69: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:59:73: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] 59 | typedef typename conditional::type LhsPacket; | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:59:73: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:59:73: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:59:73: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:60:73: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] 60 | typedef typename conditional::type RhsPacket; | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:60:73: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:60:73: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:60:73: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:61:73: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] 61 | typedef typename conditional::type ResPacket; | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:61:73: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:61:73: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:61:73: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h: In instantiation of ‘class Eigen::internal::gemv_traits’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:91:42: required from ‘struct Eigen::internal::general_matrix_vector_product, 0, false, double, Eigen::internal::const_blas_data_mapper, false, 0>’ 91 | typedef typename HalfTraits::LhsPacket LhsPacketHalf; | ^~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/GeneralProduct.h:253:134: required from ‘static void Eigen::internal::gemv_dense_selector<2, 0, true>::run(const Lhs&, const Rhs&, Dest&, const typename Dest::Scalar&) [with Lhs = Eigen::Matrix; Rhs = Eigen::Block >, -1, 1, false>; Dest = Eigen::Block, 2, 1, true>; typename Dest::Scalar = double]’ 252 | general_matrix_vector_product | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 253 | ::run( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 254 | actualLhs.rows(), actualLhs.cols(), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 255 | LhsMapper(actualLhs.data(), actualLhs.outerStride()), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 256 | RhsMapper(actualRhs.data(), actualRhs.innerStride()), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 257 | dest.data(), 1, | ~~~~~~~~~~~~~~~ 258 | compatibleAlpha); | ~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:388:34: required from ‘static void Eigen::internal::generic_product_impl::scaleAndAddTo(Dest&, const Lhs&, const Rhs&, const Scalar&) [with Dest = Eigen::Block, 2, 1, true>; Lhs = Eigen::Matrix; Rhs = const Eigen::Block >, -1, 1, false>; Scalar = double]’ 385 | internal::gemv_dense_selector::HasUsableDirectAccess) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 388 | >::run(actual_lhs, actual_rhs, dst, alpha); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixMatrix.h:479:24: required from ‘static void Eigen::internal::generic_product_impl::scaleAndAddTo(Dest&, const Lhs&, const Rhs&, const Scalar&) [with Dest = Eigen::Matrix; Lhs = Eigen::Matrix; Rhs = Eigen::Transpose >; Scalar = double]’ 478 | return internal::generic_product_impl | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 479 | ::scaleAndAddTo(dst_vec, a_lhs, a_rhs.col(0), alpha); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixMatrix.h:445:20: required from ‘static void Eigen::internal::generic_product_impl::evalTo(Dst&, const Lhs&, const Rhs&) [with Dst = Eigen::Matrix; Lhs = Eigen::Matrix; Rhs = Eigen::Transpose >]’ 445 | scaleAndAddTo(dst, lhs, rhs, Scalar(1)); | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:148:43: required from ‘static void Eigen::internal::Assignment, Eigen::internal::assign_op, Eigen::internal::Dense2Dense, typename Eigen::internal::enable_if<((Options == Eigen::DefaultProduct) || (Options == Eigen::AliasFreeProduct))>::type>::run(DstXprType&, const SrcXprType&, const Eigen::internal::assign_op&) [with DstXprType = Eigen::Matrix; Lhs = Eigen::Matrix; Rhs = Eigen::Transpose >; int Options = 0; Scalar = double; SrcXprType = Eigen::Product, Eigen::Transpose >, 0>]’ 148 | generic_product_impl::evalTo(dst, src.lhs(), src.rhs()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:890:49: required from ‘void Eigen::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen::Matrix; Src = Eigen::Product, Eigen::Transpose >, 0>; Func = assign_op]’ 890 | Assignment::run(actualDst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:797:41: required from ‘Derived& Eigen::PlainObjectBase::_set_noalias(const Eigen::DenseBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; Derived = Eigen::Matrix]’ 797 | internal::call_assignment_no_alias(this->derived(), other.derived(), internal::assign_op()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:594:19: required from ‘Eigen::PlainObjectBase::PlainObjectBase(const Eigen::DenseBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; Derived = Eigen::Matrix]’ 594 | _set_noalias(other); | ~~~~~~~~~~~~^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Matrix.h:423:29: required from ‘Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::Matrix(const Eigen::EigenBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; _Scalar = double; int _Rows = 2; int _Cols = 2; int _Options = 0; int _MaxRows = 2; int _MaxCols = 2]’ 423 | : Base(other.derived()) | ^ ../inst/include/RcppML/project.hpp:106:41: required from here 106 | Eigen::Matrix2d a = w * w.transpose(); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:44:27: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] 44 | PACKET_DECL_COND_PREFIX(_, Lhs, _PacketSize); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:42:3: note: in definition of macro ‘PACKET_DECL_COND_PREFIX’ 42 | prefix ## name ## Packet | ^~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:44:27: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 44 | PACKET_DECL_COND_PREFIX(_, Lhs, _PacketSize); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:42:3: note: in definition of macro ‘PACKET_DECL_COND_PREFIX’ 42 | prefix ## name ## Packet | ^~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:44:27: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] 44 | PACKET_DECL_COND_PREFIX(_, Lhs, _PacketSize); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:42:3: note: in definition of macro ‘PACKET_DECL_COND_PREFIX’ 42 | prefix ## name ## Packet | ^~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:44:27: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] 44 | PACKET_DECL_COND_PREFIX(_, Lhs, _PacketSize); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:42:3: note: in definition of macro ‘PACKET_DECL_COND_PREFIX’ 42 | prefix ## name ## Packet | ^~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:45:27: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] 45 | PACKET_DECL_COND_PREFIX(_, Rhs, _PacketSize); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:42:3: note: in definition of macro ‘PACKET_DECL_COND_PREFIX’ 42 | prefix ## name ## Packet | ^~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:45:27: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 45 | PACKET_DECL_COND_PREFIX(_, Rhs, _PacketSize); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:42:3: note: in definition of macro ‘PACKET_DECL_COND_PREFIX’ 42 | prefix ## name ## Packet | ^~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:45:27: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] 45 | PACKET_DECL_COND_PREFIX(_, Rhs, _PacketSize); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:42:3: note: in definition of macro ‘PACKET_DECL_COND_PREFIX’ 42 | prefix ## name ## Packet | ^~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:45:27: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] 45 | PACKET_DECL_COND_PREFIX(_, Rhs, _PacketSize); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:42:3: note: in definition of macro ‘PACKET_DECL_COND_PREFIX’ 42 | prefix ## name ## Packet | ^~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:46:27: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] 46 | PACKET_DECL_COND_PREFIX(_, Res, _PacketSize); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:42:3: note: in definition of macro ‘PACKET_DECL_COND_PREFIX’ 42 | prefix ## name ## Packet | ^~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:46:27: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 46 | PACKET_DECL_COND_PREFIX(_, Res, _PacketSize); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:42:3: note: in definition of macro ‘PACKET_DECL_COND_PREFIX’ 42 | prefix ## name ## Packet | ^~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:46:27: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] 46 | PACKET_DECL_COND_PREFIX(_, Res, _PacketSize); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:42:3: note: in definition of macro ‘PACKET_DECL_COND_PREFIX’ 42 | prefix ## name ## Packet | ^~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:46:27: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] 46 | PACKET_DECL_COND_PREFIX(_, Res, _PacketSize); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:42:3: note: in definition of macro ‘PACKET_DECL_COND_PREFIX’ 42 | prefix ## name ## Packet | ^~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:51:53: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] 51 | Vectorizable = unpacket_traits<_LhsPacket>::vectorizable && | ^~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:51:53: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:51:53: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:51:53: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:52:38: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] 52 | unpacket_traits<_RhsPacket>::vectorizable && | ^~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:52:38: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:52:38: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:52:38: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:53:42: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] 53 | int(unpacket_traits<_LhsPacket>::size)==int(unpacket_traits<_RhsPacket>::size), | ^~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:53:42: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:53:42: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:53:42: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:53:82: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] 53 | int(unpacket_traits<_LhsPacket>::size)==int(unpacket_traits<_RhsPacket>::size), | ^~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:53:82: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:53:82: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:53:82: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:54:69: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] 54 | LhsPacketSize = Vectorizable ? unpacket_traits<_LhsPacket>::size : 1, | ^~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:54:69: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:54:69: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:54:69: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:55:69: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] 55 | RhsPacketSize = Vectorizable ? unpacket_traits<_RhsPacket>::size : 1, | ^~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:55:69: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:55:69: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:55:69: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:56:69: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] 56 | ResPacketSize = Vectorizable ? unpacket_traits<_ResPacket>::size : 1 | ^~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:56:69: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:56:69: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:56:69: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:59:73: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] 59 | typedef typename conditional::type LhsPacket; | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:59:73: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:59:73: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:59:73: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:60:73: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] 60 | typedef typename conditional::type RhsPacket; | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:60:73: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:60:73: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:60:73: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:61:73: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] 61 | typedef typename conditional::type ResPacket; | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:61:73: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:61:73: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:61:73: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h: In instantiation of ‘class Eigen::internal::gemv_traits’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:95:45: required from ‘struct Eigen::internal::general_matrix_vector_product, 0, false, double, Eigen::internal::const_blas_data_mapper, false, 0>’ 95 | typedef typename QuarterTraits::LhsPacket LhsPacketQuarter; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/GeneralProduct.h:253:134: required from ‘static void Eigen::internal::gemv_dense_selector<2, 0, true>::run(const Lhs&, const Rhs&, Dest&, const typename Dest::Scalar&) [with Lhs = Eigen::Matrix; Rhs = Eigen::Block >, -1, 1, false>; Dest = Eigen::Block, 2, 1, true>; typename Dest::Scalar = double]’ 252 | general_matrix_vector_product | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 253 | ::run( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^ 254 | actualLhs.rows(), actualLhs.cols(), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 255 | LhsMapper(actualLhs.data(), actualLhs.outerStride()), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 256 | RhsMapper(actualRhs.data(), actualRhs.innerStride()), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 257 | dest.data(), 1, | ~~~~~~~~~~~~~~~ 258 | compatibleAlpha); | ~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:388:34: required from ‘static void Eigen::internal::generic_product_impl::scaleAndAddTo(Dest&, const Lhs&, const Rhs&, const Scalar&) [with Dest = Eigen::Block, 2, 1, true>; Lhs = Eigen::Matrix; Rhs = const Eigen::Block >, -1, 1, false>; Scalar = double]’ 385 | internal::gemv_dense_selector::HasUsableDirectAccess) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 388 | >::run(actual_lhs, actual_rhs, dst, alpha); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixMatrix.h:479:24: required from ‘static void Eigen::internal::generic_product_impl::scaleAndAddTo(Dest&, const Lhs&, const Rhs&, const Scalar&) [with Dest = Eigen::Matrix; Lhs = Eigen::Matrix; Rhs = Eigen::Transpose >; Scalar = double]’ 478 | return internal::generic_product_impl | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 479 | ::scaleAndAddTo(dst_vec, a_lhs, a_rhs.col(0), alpha); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixMatrix.h:445:20: required from ‘static void Eigen::internal::generic_product_impl::evalTo(Dst&, const Lhs&, const Rhs&) [with Dst = Eigen::Matrix; Lhs = Eigen::Matrix; Rhs = Eigen::Transpose >]’ 445 | scaleAndAddTo(dst, lhs, rhs, Scalar(1)); | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:148:43: required from ‘static void Eigen::internal::Assignment, Eigen::internal::assign_op, Eigen::internal::Dense2Dense, typename Eigen::internal::enable_if<((Options == Eigen::DefaultProduct) || (Options == Eigen::AliasFreeProduct))>::type>::run(DstXprType&, const SrcXprType&, const Eigen::internal::assign_op&) [with DstXprType = Eigen::Matrix; Lhs = Eigen::Matrix; Rhs = Eigen::Transpose >; int Options = 0; Scalar = double; SrcXprType = Eigen::Product, Eigen::Transpose >, 0>]’ 148 | generic_product_impl::evalTo(dst, src.lhs(), src.rhs()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:890:49: required from ‘void Eigen::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen::Matrix; Src = Eigen::Product, Eigen::Transpose >, 0>; Func = assign_op]’ 890 | Assignment::run(actualDst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:797:41: required from ‘Derived& Eigen::PlainObjectBase::_set_noalias(const Eigen::DenseBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; Derived = Eigen::Matrix]’ 797 | internal::call_assignment_no_alias(this->derived(), other.derived(), internal::assign_op()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:594:19: required from ‘Eigen::PlainObjectBase::PlainObjectBase(const Eigen::DenseBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; Derived = Eigen::Matrix]’ 594 | _set_noalias(other); | ~~~~~~~~~~~~^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Matrix.h:423:29: required from ‘Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::Matrix(const Eigen::EigenBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; _Scalar = double; int _Rows = 2; int _Cols = 2; int _Options = 0; int _MaxRows = 2; int _MaxCols = 2]’ 423 | : Base(other.derived()) | ^ ../inst/include/RcppML/project.hpp:106:41: required from here 106 | Eigen::Matrix2d a = w * w.transpose(); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:44:27: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] 44 | PACKET_DECL_COND_PREFIX(_, Lhs, _PacketSize); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:42:3: note: in definition of macro ‘PACKET_DECL_COND_PREFIX’ 42 | prefix ## name ## Packet | ^~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:44:27: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 44 | PACKET_DECL_COND_PREFIX(_, Lhs, _PacketSize); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:42:3: note: in definition of macro ‘PACKET_DECL_COND_PREFIX’ 42 | prefix ## name ## Packet | ^~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:44:27: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] 44 | PACKET_DECL_COND_PREFIX(_, Lhs, _PacketSize); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:42:3: note: in definition of macro ‘PACKET_DECL_COND_PREFIX’ 42 | prefix ## name ## Packet | ^~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:44:27: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] 44 | PACKET_DECL_COND_PREFIX(_, Lhs, _PacketSize); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:42:3: note: in definition of macro ‘PACKET_DECL_COND_PREFIX’ 42 | prefix ## name ## Packet | ^~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:45:27: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] 45 | PACKET_DECL_COND_PREFIX(_, Rhs, _PacketSize); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:42:3: note: in definition of macro ‘PACKET_DECL_COND_PREFIX’ 42 | prefix ## name ## Packet | ^~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:45:27: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 45 | PACKET_DECL_COND_PREFIX(_, Rhs, _PacketSize); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:42:3: note: in definition of macro ‘PACKET_DECL_COND_PREFIX’ 42 | prefix ## name ## Packet | ^~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:45:27: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] 45 | PACKET_DECL_COND_PREFIX(_, Rhs, _PacketSize); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:42:3: note: in definition of macro ‘PACKET_DECL_COND_PREFIX’ 42 | prefix ## name ## Packet | ^~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:45:27: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] 45 | PACKET_DECL_COND_PREFIX(_, Rhs, _PacketSize); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:42:3: note: in definition of macro ‘PACKET_DECL_COND_PREFIX’ 42 | prefix ## name ## Packet | ^~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:46:27: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] 46 | PACKET_DECL_COND_PREFIX(_, Res, _PacketSize); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:42:3: note: in definition of macro ‘PACKET_DECL_COND_PREFIX’ 42 | prefix ## name ## Packet | ^~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:46:27: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 46 | PACKET_DECL_COND_PREFIX(_, Res, _PacketSize); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:42:3: note: in definition of macro ‘PACKET_DECL_COND_PREFIX’ 42 | prefix ## name ## Packet | ^~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:46:27: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] 46 | PACKET_DECL_COND_PREFIX(_, Res, _PacketSize); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:42:3: note: in definition of macro ‘PACKET_DECL_COND_PREFIX’ 42 | prefix ## name ## Packet | ^~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:46:27: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] 46 | PACKET_DECL_COND_PREFIX(_, Res, _PacketSize); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:42:3: note: in definition of macro ‘PACKET_DECL_COND_PREFIX’ 42 | prefix ## name ## Packet | ^~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:51:53: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] 51 | Vectorizable = unpacket_traits<_LhsPacket>::vectorizable && | ^~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:51:53: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:51:53: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:51:53: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:52:38: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] 52 | unpacket_traits<_RhsPacket>::vectorizable && | ^~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:52:38: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:52:38: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:52:38: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:53:42: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] 53 | int(unpacket_traits<_LhsPacket>::size)==int(unpacket_traits<_RhsPacket>::size), | ^~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:53:42: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:53:42: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:53:42: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:53:82: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] 53 | int(unpacket_traits<_LhsPacket>::size)==int(unpacket_traits<_RhsPacket>::size), | ^~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:53:82: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:53:82: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:53:82: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:54:69: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] 54 | LhsPacketSize = Vectorizable ? unpacket_traits<_LhsPacket>::size : 1, | ^~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:54:69: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:54:69: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:54:69: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:55:69: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] 55 | RhsPacketSize = Vectorizable ? unpacket_traits<_RhsPacket>::size : 1, | ^~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:55:69: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:55:69: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:55:69: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:56:69: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] 56 | ResPacketSize = Vectorizable ? unpacket_traits<_ResPacket>::size : 1 | ^~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:56:69: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:56:69: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:56:69: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:59:73: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] 59 | typedef typename conditional::type LhsPacket; | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:59:73: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:59:73: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:59:73: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:60:73: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] 60 | typedef typename conditional::type RhsPacket; | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:60:73: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:60:73: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:60:73: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:61:73: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] 61 | typedef typename conditional::type ResPacket; | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:61:73: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:61:73: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixVector.h:61:73: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, 2, Eigen::Stride<0, 0> >, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:302:7: required from ‘class Eigen::DenseCoeffsBase, 2, Eigen::Stride<0, 0> >, 1>’ 302 | class DenseCoeffsBase : public DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:555:7: required from ‘class Eigen::DenseCoeffsBase, 2, Eigen::Stride<0, 0> >, 3>’ 555 | class DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, 2, Eigen::Stride<0, 0> > >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, 2, Eigen::Stride<0, 0> > >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MapBase.h:37:34: required from ‘class Eigen::MapBase, 2, Eigen::Stride<0, 0> >, 0>’ 37 | template class MapBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MapBase.h:223:34: [ skipping 6 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:148:43: required from ‘static void Eigen::internal::Assignment, Eigen::internal::assign_op, Eigen::internal::Dense2Dense, typename Eigen::internal::enable_if<((Options == Eigen::DefaultProduct) || (Options == Eigen::AliasFreeProduct))>::type>::run(DstXprType&, const SrcXprType&, const Eigen::internal::assign_op&) [with DstXprType = Eigen::Matrix; Lhs = Eigen::Matrix; Rhs = Eigen::Transpose >; int Options = 0; Scalar = double; SrcXprType = Eigen::Product, Eigen::Transpose >, 0>]’ 148 | generic_product_impl::evalTo(dst, src.lhs(), src.rhs()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:890:49: required from ‘void Eigen::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen::Matrix; Src = Eigen::Product, Eigen::Transpose >, 0>; Func = assign_op]’ 890 | Assignment::run(actualDst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:797:41: required from ‘Derived& Eigen::PlainObjectBase::_set_noalias(const Eigen::DenseBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; Derived = Eigen::Matrix]’ 797 | internal::call_assignment_no_alias(this->derived(), other.derived(), internal::assign_op()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:594:19: required from ‘Eigen::PlainObjectBase::PlainObjectBase(const Eigen::DenseBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; Derived = Eigen::Matrix]’ 594 | _set_noalias(other); | ~~~~~~~~~~~~^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Matrix.h:423:29: required from ‘Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::Matrix(const Eigen::EigenBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; _Scalar = double; int _Rows = 2; int _Cols = 2; int _Options = 0; int _MaxRows = 2; int _MaxCols = 2]’ 423 | : Base(other.derived()) | ^ ../inst/include/RcppML/project.hpp:106:41: required from here 106 | Eigen::Matrix2d a = w * w.transpose(); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Map, 2, Eigen::Stride<0, 0> > >, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Map, 2, Eigen::Stride<0, 0> > > >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Map, 2, Eigen::Stride<0, 0> > > >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CwiseBinaryOp.h:148:7: required from ‘class Eigen::CwiseBinaryOpImpl, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Map, 2, Eigen::Stride<0, 0> >, Eigen::Dense>’ 148 | class CwiseBinaryOpImpl | ^~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CwiseBinaryOp.h:77:7: required from ‘class Eigen::CwiseBinaryOp, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Map, 2, Eigen::Stride<0, 0> > >’ 77 | class CwiseBinaryOp : | ^~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/GeneralProduct.h:296:40: required from ‘static void Eigen::internal::gemv_dense_selector<2, 0, true>::run(const Lhs&, const Rhs&, Dest&, const typename Dest::Scalar&) [with Lhs = Eigen::Matrix; Rhs = Eigen::Block >, -1, 1, false>; Dest = Eigen::Block, 2, 1, true>; typename Dest::Scalar = double]’ 296 | dest.matrix() += actualAlpha * MappedDest(actualDestPtr, dest.size()); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:388:34: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:148:43: required from ‘static void Eigen::internal::Assignment, Eigen::internal::assign_op, Eigen::internal::Dense2Dense, typename Eigen::internal::enable_if<((Options == Eigen::DefaultProduct) || (Options == Eigen::AliasFreeProduct))>::type>::run(DstXprType&, const SrcXprType&, const Eigen::internal::assign_op&) [with DstXprType = Eigen::Matrix; Lhs = Eigen::Matrix; Rhs = Eigen::Transpose >; int Options = 0; Scalar = double; SrcXprType = Eigen::Product, Eigen::Transpose >, 0>]’ 148 | generic_product_impl::evalTo(dst, src.lhs(), src.rhs()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:890:49: required from ‘void Eigen::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen::Matrix; Src = Eigen::Product, Eigen::Transpose >, 0>; Func = assign_op]’ 890 | Assignment::run(actualDst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:797:41: required from ‘Derived& Eigen::PlainObjectBase::_set_noalias(const Eigen::DenseBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; Derived = Eigen::Matrix]’ 797 | internal::call_assignment_no_alias(this->derived(), other.derived(), internal::assign_op()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:594:19: required from ‘Eigen::PlainObjectBase::PlainObjectBase(const Eigen::DenseBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; Derived = Eigen::Matrix]’ 594 | _set_noalias(other); | ~~~~~~~~~~~~^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Matrix.h:423:29: required from ‘Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::Matrix(const Eigen::EigenBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; _Scalar = double; int _Rows = 2; int _Cols = 2; int _Options = 0; int _MaxRows = 2; int _MaxCols = 2]’ 423 | : Base(other.derived()) | ^ ../inst/include/RcppML/project.hpp:106:41: required from here 106 | Eigen::Matrix2d a = w * w.transpose(); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, 1, 2, false> >, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:302:7: required from ‘class Eigen::DenseCoeffsBase, 1, 2, false> >, 1>’ 302 | class DenseCoeffsBase : public DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:555:7: required from ‘class Eigen::DenseCoeffsBase, 1, 2, false> >, 3>’ 555 | class DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, 1, 2, false> > >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, 1, 2, false> > >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Transpose.h:118:37: required from ‘class Eigen::TransposeImpl, 1, 2, false>, Eigen::Dense>’ 118 | template class TransposeImpl | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Transpose.h:52:37: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:148:43: required from ‘static void Eigen::internal::Assignment, Eigen::internal::assign_op, Eigen::internal::Dense2Dense, typename Eigen::internal::enable_if<((Options == Eigen::DefaultProduct) || (Options == Eigen::AliasFreeProduct))>::type>::run(DstXprType&, const SrcXprType&, const Eigen::internal::assign_op&) [with DstXprType = Eigen::Matrix; Lhs = Eigen::Matrix; Rhs = Eigen::Transpose >; int Options = 0; Scalar = double; SrcXprType = Eigen::Product, Eigen::Transpose >, 0>]’ 148 | generic_product_impl::evalTo(dst, src.lhs(), src.rhs()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:890:49: required from ‘void Eigen::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen::Matrix; Src = Eigen::Product, Eigen::Transpose >, 0>; Func = assign_op]’ 890 | Assignment::run(actualDst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:797:41: required from ‘Derived& Eigen::PlainObjectBase::_set_noalias(const Eigen::DenseBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; Derived = Eigen::Matrix]’ 797 | internal::call_assignment_no_alias(this->derived(), other.derived(), internal::assign_op()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:594:19: required from ‘Eigen::PlainObjectBase::PlainObjectBase(const Eigen::DenseBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; Derived = Eigen::Matrix]’ 594 | _set_noalias(other); | ~~~~~~~~~~~~^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Matrix.h:423:29: required from ‘Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::Matrix(const Eigen::EigenBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; _Scalar = double; int _Rows = 2; int _Cols = 2; int _Options = 0; int _MaxRows = 2; int _MaxCols = 2]’ 423 | : Base(other.derived()) | ^ ../inst/include/RcppML/project.hpp:106:41: required from here 106 | Eigen::Matrix2d a = w * w.transpose(); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase > >, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:481:7: required from ‘class Eigen::DenseCoeffsBase > >, 2>’ 481 | class DenseCoeffsBase : public DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase > > >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase > > >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Transpose.h:118:37: required from ‘class Eigen::TransposeImpl >, Eigen::Dense>’ 118 | template class TransposeImpl | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Transpose.h:52:37: required from ‘class Eigen::Transpose > >’ 52 | template class Transpose | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/GeneralProduct.h:207:26: [ skipping 4 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:148:43: required from ‘static void Eigen::internal::Assignment, Eigen::internal::assign_op, Eigen::internal::Dense2Dense, typename Eigen::internal::enable_if<((Options == Eigen::DefaultProduct) || (Options == Eigen::AliasFreeProduct))>::type>::run(DstXprType&, const SrcXprType&, const Eigen::internal::assign_op&) [with DstXprType = Eigen::Matrix; Lhs = Eigen::Matrix; Rhs = Eigen::Transpose >; int Options = 0; Scalar = double; SrcXprType = Eigen::Product, Eigen::Transpose >, 0>]’ 148 | generic_product_impl::evalTo(dst, src.lhs(), src.rhs()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:890:49: required from ‘void Eigen::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen::Matrix; Src = Eigen::Product, Eigen::Transpose >, 0>; Func = assign_op]’ 890 | Assignment::run(actualDst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:797:41: required from ‘Derived& Eigen::PlainObjectBase::_set_noalias(const Eigen::DenseBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; Derived = Eigen::Matrix]’ 797 | internal::call_assignment_no_alias(this->derived(), other.derived(), internal::assign_op()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:594:19: required from ‘Eigen::PlainObjectBase::PlainObjectBase(const Eigen::DenseBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; Derived = Eigen::Matrix]’ 594 | _set_noalias(other); | ~~~~~~~~~~~~^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Matrix.h:423:29: required from ‘Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::Matrix(const Eigen::EigenBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; _Scalar = double; int _Rows = 2; int _Cols = 2; int _Options = 0; int _MaxRows = 2; int _MaxCols = 2]’ 423 | : Base(other.derived()) | ^ ../inst/include/RcppML/project.hpp:106:41: required from here 106 | Eigen::Matrix2d a = w * w.transpose(); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, 1, -1, false> >, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:481:7: required from ‘class Eigen::DenseCoeffsBase, 1, -1, false> >, 2>’ 481 | class DenseCoeffsBase : public DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, 1, -1, false> > >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, 1, -1, false> > >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Transpose.h:118:37: required from ‘class Eigen::TransposeImpl, 1, -1, false>, Eigen::Dense>’ 118 | template class TransposeImpl | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Transpose.h:52:37: required from ‘class Eigen::Transpose, 1, -1, false> >’ 52 | template class Transpose | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/GeneralProduct.h:207:43: [ skipping 4 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:148:43: required from ‘static void Eigen::internal::Assignment, Eigen::internal::assign_op, Eigen::internal::Dense2Dense, typename Eigen::internal::enable_if<((Options == Eigen::DefaultProduct) || (Options == Eigen::AliasFreeProduct))>::type>::run(DstXprType&, const SrcXprType&, const Eigen::internal::assign_op&) [with DstXprType = Eigen::Matrix; Lhs = Eigen::Matrix; Rhs = Eigen::Transpose >; int Options = 0; Scalar = double; SrcXprType = Eigen::Product, Eigen::Transpose >, 0>]’ 148 | generic_product_impl::evalTo(dst, src.lhs(), src.rhs()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:890:49: required from ‘void Eigen::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen::Matrix; Src = Eigen::Product, Eigen::Transpose >, 0>; Func = assign_op]’ 890 | Assignment::run(actualDst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:797:41: required from ‘Derived& Eigen::PlainObjectBase::_set_noalias(const Eigen::DenseBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; Derived = Eigen::Matrix]’ 797 | internal::call_assignment_no_alias(this->derived(), other.derived(), internal::assign_op()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:594:19: required from ‘Eigen::PlainObjectBase::PlainObjectBase(const Eigen::DenseBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; Derived = Eigen::Matrix]’ 594 | _set_noalias(other); | ~~~~~~~~~~~~^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Matrix.h:423:29: required from ‘Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::Matrix(const Eigen::EigenBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; _Scalar = double; int _Rows = 2; int _Cols = 2; int _Options = 0; int _MaxRows = 2; int _MaxCols = 2]’ 423 | : Base(other.derived()) | ^ ../inst/include/RcppML/project.hpp:106:41: required from here 106 | Eigen::Matrix2d a = w * w.transpose(); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, 1, -1, false> >, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:302:7: required from ‘class Eigen::DenseCoeffsBase, 1, -1, false> >, 1>’ 302 | class DenseCoeffsBase : public DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:555:7: required from ‘class Eigen::DenseCoeffsBase, 1, -1, false> >, 3>’ 555 | class DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, 1, -1, false> > >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, 1, -1, false> > >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Transpose.h:118:37: required from ‘class Eigen::TransposeImpl, 1, -1, false>, Eigen::Dense>’ 118 | template class TransposeImpl | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Transpose.h:52:37: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:148:43: required from ‘static void Eigen::internal::Assignment, Eigen::internal::assign_op, Eigen::internal::Dense2Dense, typename Eigen::internal::enable_if<((Options == Eigen::DefaultProduct) || (Options == Eigen::AliasFreeProduct))>::type>::run(DstXprType&, const SrcXprType&, const Eigen::internal::assign_op&) [with DstXprType = Eigen::Matrix; Lhs = Eigen::Matrix; Rhs = Eigen::Transpose >; int Options = 0; Scalar = double; SrcXprType = Eigen::Product, Eigen::Transpose >, 0>]’ 148 | generic_product_impl::evalTo(dst, src.lhs(), src.rhs()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:890:49: required from ‘void Eigen::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen::Matrix; Src = Eigen::Product, Eigen::Transpose >, 0>; Func = assign_op]’ 890 | Assignment::run(actualDst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:797:41: required from ‘Derived& Eigen::PlainObjectBase::_set_noalias(const Eigen::DenseBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; Derived = Eigen::Matrix]’ 797 | internal::call_assignment_no_alias(this->derived(), other.derived(), internal::assign_op()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:594:19: required from ‘Eigen::PlainObjectBase::PlainObjectBase(const Eigen::DenseBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; Derived = Eigen::Matrix]’ 594 | _set_noalias(other); | ~~~~~~~~~~~~^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Matrix.h:423:29: required from ‘Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::Matrix(const Eigen::EigenBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; _Scalar = double; int _Rows = -1; int _Cols = -1; int _Options = 0; int _MaxRows = -1; int _MaxCols = -1]’ 423 | : Base(other.derived()) | ^ ../inst/include/RcppML/project.hpp:121:43: required from here 121 | Eigen::MatrixXd a = w * w.transpose(); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘Eigen::Index Eigen::internal::first_default_aligned(const Eigen::DenseBase&) [with Derived = Eigen::CwiseUnaryOp, const Eigen::Block, -1, 1, true>, -1, 1, false> >; Eigen::Index = long int]’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Redux.h:243:63: required from ‘static Eigen::internal::redux_impl::Scalar Eigen::internal::redux_impl::run(const Evaluator&, const Func&, const XprType&) [with XprType = Eigen::CwiseUnaryOp, const Eigen::Block, -1, 1, true>, -1, 1, false> >; Func = Eigen::internal::scalar_sum_op; Evaluator = Eigen::internal::redux_evaluator, const Eigen::Block, -1, 1, true>, -1, 1, false> > >; Scalar = double]’ 243 | const Index alignedStart = internal::first_default_aligned(xpr); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Redux.h:418:56: required from ‘typename Eigen::internal::traits::Scalar Eigen::DenseBase::redux(const Func&) const [with BinaryOp = Eigen::internal::scalar_sum_op; Derived = Eigen::CwiseUnaryOp, const Eigen::Block, -1, 1, true>, -1, 1, false> >; typename Eigen::internal::traits::Scalar = double]’ 418 | return internal::redux_impl::run(thisEval, func, derived()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Redux.h:463:25: required from ‘typename Eigen::internal::traits::Scalar Eigen::DenseBase::sum() const [with Derived = Eigen::CwiseUnaryOp, const Eigen::Block, -1, 1, true>, -1, 1, false> >; typename Eigen::internal::traits::Scalar = double]’ 463 | return derived().redux(Eigen::internal::scalar_sum_op()); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Dot.h:221:28: required from ‘static typename Eigen::NumTraits::Scalar>::Real Eigen::internal::lpNorm_selector::run(const Eigen::MatrixBase&) [with Derived = Eigen::Block, -1, 1, true>, -1, 1, false>; typename Eigen::NumTraits::Scalar>::Real = double; typename Eigen::internal::traits::Scalar = double]’ 221 | return m.cwiseAbs().sum(); | ~~~~~~~~~~~~~~~~^~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Dot.h:269:52: required from ‘typename Eigen::NumTraits::Scalar>::Real Eigen::MatrixBase::lpNorm() const [with int p = 1; Derived = Eigen::Block, -1, 1, true>, -1, 1, false>; typename Eigen::NumTraits::Scalar>::Real = double; typename Eigen::internal::traits::Scalar = double]’ 269 | return internal::lpNorm_selector::run(*this); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:448:74: required from ‘Eigen::LLT<_MatrixType, _UpLo>& Eigen::LLT::compute(const Eigen::EigenBase&) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix; int _UpLo = 1]’ 448 | abs_col_sum = m_matrix.col(col).tail(size - col).template lpNorm<1>() + m_matrix.row(col).head(col).template lpNorm<1>(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:109:14: required from ‘Eigen::LLT::LLT(const Eigen::EigenBase&) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix; int _UpLo = 1]’ 109 | compute(matrix.derived()); | ~~~~~~~^~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:542:10: required from ‘const Eigen::LLT::PlainObject> Eigen::MatrixBase::llt() const [with Derived = Eigen::Matrix; typename Eigen::DenseBase::PlainObject = Eigen::Matrix]’ 542 | return LLT(derived()); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../inst/include/RcppML/project.hpp:123:51: required from here 123 | Eigen::LLT a_llt = a.llt(); | ~~~~~^~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:654:74: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 654 | return internal::first_aligned::alignment),Derived>(m); | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h: In instantiation of ‘struct Eigen::internal::evaluator, -1, -1, false> >’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:372:102: required from ‘struct Eigen::internal::plain_object_eval, -1, -1, false>, Eigen::Dense>’ 372 | typedef typename plain_matrix_type_dense::XprKind, evaluator::Flags>::type type; | ^~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:369:45: required from ‘struct Eigen::internal::generic_product_impl, -1, -1, false>, Eigen::Transpose, 1, -1, false> >, Eigen::DenseShape, Eigen::DenseShape, 7>’ 369 | typedef typename nested_eval::type LhsNested; | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:178:42: required from ‘static void Eigen::internal::Assignment, Eigen::internal::sub_assign_op, Eigen::internal::Dense2Dense, typename Eigen::internal::enable_if<((Options == Eigen::DefaultProduct) || (Options == Eigen::AliasFreeProduct))>::type>::run(DstXprType&, const SrcXprType&, const Eigen::internal::sub_assign_op&) [with DstXprType = Eigen::Block, -1, 1, false>; Lhs = Eigen::Block, -1, -1, false>; Rhs = Eigen::Transpose, 1, -1, false> >; int Options = 0; Scalar = double; SrcXprType = Eigen::Product, -1, -1, false>, Eigen::Transpose, 1, -1, false> >, 0>]’ 178 | generic_product_impl::subTo(dst, src.lhs(), src.rhs()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:890:49: required from ‘void Eigen::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen::Block, -1, 1, false>; Src = Eigen::Product, -1, -1, false>, Eigen::Transpose, 1, -1, false> >, 0>; Func = sub_assign_op]’ 890 | Assignment::run(actualDst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/NoAlias.h:59:31: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:344:23: required from ‘static Eigen::Index Eigen::internal::llt_inplace::blocked(MatrixType&) [with MatrixType = Eigen::Matrix; Scalar = double; Eigen::Index = long int]’ 344 | return unblocked(m); | ~~~~~~~~~^~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:408:68: required from ‘static bool Eigen::internal::LLT_Traits::inplace_decomposition(MatrixType&) [with MatrixType = Eigen::Matrix]’ 408 | { return llt_inplace::blocked(m)==-1; } | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:456:42: required from ‘Eigen::LLT<_MatrixType, _UpLo>& Eigen::LLT::compute(const Eigen::EigenBase&) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix; int _UpLo = 1]’ 456 | bool ok = Traits::inplace_decomposition(m_matrix); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:109:14: required from ‘Eigen::LLT::LLT(const Eigen::EigenBase&) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix; int _UpLo = 1]’ 109 | compute(matrix.derived()); | ~~~~~~~^~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:542:10: required from ‘const Eigen::LLT::PlainObject> Eigen::MatrixBase::llt() const [with Derived = Eigen::Matrix; typename Eigen::DenseBase::PlainObject = Eigen::Matrix]’ 542 | return LLT(derived()); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../inst/include/RcppML/project.hpp:123:51: required from here 123 | Eigen::LLT a_llt = a.llt(); | ~~~~~^~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:1071:54: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 1071 | PacketAlignment = unpacket_traits::alignment, | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h: In instantiation of ‘struct Eigen::internal::evaluator, -1, -1, false>, 1, -1, false> >’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:100:8: required from ‘struct Eigen::internal::evaluator, -1, -1, false>, 1, -1, false> >’ 100 | struct evaluator | ^~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:564:45: required from ‘struct Eigen::internal::unary_evaluator, const Eigen::Block, -1, -1, false>, 1, -1, false> >, Eigen::internal::IndexBased, double>’ 564 | CoeffReadCost = int(evaluator::CoeffReadCost) + int(functor_traits::Cost), | ^~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:90:8: required from ‘struct Eigen::internal::evaluator, const Eigen::Block, -1, -1, false>, 1, -1, false> > >’ 90 | struct evaluator : public unary_evaluator | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Redux.h:357:7: required from ‘class Eigen::internal::redux_evaluator, const Eigen::Block, -1, -1, false>, 1, -1, false> > >’ 357 | class redux_evaluator : public internal::evaluator<_XprType> | ^~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Redux.h:414:17: required from ‘typename Eigen::internal::traits::Scalar Eigen::DenseBase::redux(const Func&) const [with BinaryOp = Eigen::internal::scalar_sum_op; Derived = Eigen::CwiseUnaryOp, const Eigen::Block, -1, -1, false>, 1, -1, false> >; typename Eigen::internal::traits::Scalar = double]’ 414 | ThisEvaluator thisEval(derived()); | ^~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Redux.h:463:25: [ skipping 3 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:363:24: required from ‘static Eigen::Index Eigen::internal::llt_inplace::blocked(MatrixType&) [with MatrixType = Eigen::Matrix; Scalar = double; Eigen::Index = long int]’ 363 | if((ret=unblocked(A11))>=0) return k+ret; | ~~~~~~~~~^~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:408:68: required from ‘static bool Eigen::internal::LLT_Traits::inplace_decomposition(MatrixType&) [with MatrixType = Eigen::Matrix]’ 408 | { return llt_inplace::blocked(m)==-1; } | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:456:42: required from ‘Eigen::LLT<_MatrixType, _UpLo>& Eigen::LLT::compute(const Eigen::EigenBase&) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix; int _UpLo = 1]’ 456 | bool ok = Traits::inplace_decomposition(m_matrix); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:109:14: required from ‘Eigen::LLT::LLT(const Eigen::EigenBase&) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix; int _UpLo = 1]’ 109 | compute(matrix.derived()); | ~~~~~~~^~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:542:10: required from ‘const Eigen::LLT::PlainObject> Eigen::MatrixBase::llt() const [with Derived = Eigen::Matrix; typename Eigen::DenseBase::PlainObject = Eigen::Matrix]’ 542 | return LLT(derived()); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../inst/include/RcppML/project.hpp:123:51: required from here 123 | Eigen::LLT a_llt = a.llt(); | ~~~~~^~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:1071:54: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 1071 | PacketAlignment = unpacket_traits::alignment, | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h: In instantiation of ‘struct Eigen::internal::evaluator, -1, -1, false>, -1, -1, false> >’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:372:102: required from ‘struct Eigen::internal::plain_object_eval, -1, -1, false>, -1, -1, false>, Eigen::Dense>’ 372 | typedef typename plain_matrix_type_dense::XprKind, evaluator::Flags>::type type; | ^~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:369:45: required from ‘struct Eigen::internal::generic_product_impl, -1, -1, false>, -1, -1, false>, Eigen::Transpose, -1, -1, false>, 1, -1, false> >, Eigen::DenseShape, Eigen::DenseShape, 7>’ 369 | typedef typename nested_eval::type LhsNested; | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:178:42: required from ‘static void Eigen::internal::Assignment, Eigen::internal::sub_assign_op, Eigen::internal::Dense2Dense, typename Eigen::internal::enable_if<((Options == Eigen::DefaultProduct) || (Options == Eigen::AliasFreeProduct))>::type>::run(DstXprType&, const SrcXprType&, const Eigen::internal::sub_assign_op&) [with DstXprType = Eigen::Block, -1, -1, false>, -1, 1, false>; Lhs = Eigen::Block, -1, -1, false>, -1, -1, false>; Rhs = Eigen::Transpose, -1, -1, false>, 1, -1, false> >; int Options = 0; Scalar = double; SrcXprType = Eigen::Product, -1, -1, false>, -1, -1, false>, Eigen::Transpose, -1, -1, false>, 1, -1, false> >, 0>]’ 178 | generic_product_impl::subTo(dst, src.lhs(), src.rhs()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:890:49: required from ‘void Eigen::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen::Block, -1, -1, false>, -1, 1, false>; Src = Eigen::Product, -1, -1, false>, -1, -1, false>, Eigen::Transpose, -1, -1, false>, 1, -1, false> >, 0>; Func = sub_assign_op]’ 890 | Assignment::run(actualDst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/NoAlias.h:59:31: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:363:24: required from ‘static Eigen::Index Eigen::internal::llt_inplace::blocked(MatrixType&) [with MatrixType = Eigen::Matrix; Scalar = double; Eigen::Index = long int]’ 363 | if((ret=unblocked(A11))>=0) return k+ret; | ~~~~~~~~~^~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:408:68: required from ‘static bool Eigen::internal::LLT_Traits::inplace_decomposition(MatrixType&) [with MatrixType = Eigen::Matrix]’ 408 | { return llt_inplace::blocked(m)==-1; } | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:456:42: required from ‘Eigen::LLT<_MatrixType, _UpLo>& Eigen::LLT::compute(const Eigen::EigenBase&) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix; int _UpLo = 1]’ 456 | bool ok = Traits::inplace_decomposition(m_matrix); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:109:14: required from ‘Eigen::LLT::LLT(const Eigen::EigenBase&) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix; int _UpLo = 1]’ 109 | compute(matrix.derived()); | ~~~~~~~^~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:542:10: required from ‘const Eigen::LLT::PlainObject> Eigen::MatrixBase::llt() const [with Derived = Eigen::Matrix; typename Eigen::DenseBase::PlainObject = Eigen::Matrix]’ 542 | return LLT(derived()); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../inst/include/RcppML/project.hpp:123:51: required from here 123 | Eigen::LLT a_llt = a.llt(); | ~~~~~^~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:1071:54: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 1071 | PacketAlignment = unpacket_traits::alignment, | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h: In instantiation of ‘void Eigen::internal::gebp_kernel::operator()(const DataMapper&, const LhsScalar*, const RhsScalar*, Index, Index, Index, ResScalar, Index, Index, Index, Index) [with LhsScalar = double; RhsScalar = double; Index = long int; DataMapper = Eigen::internal::blas_data_mapper; int mr = 4; int nr = 4; bool ConjugateLhs = false; bool ConjugateRhs = false; ResScalar = double]’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/TriangularSolverMatrix.h:289:26: required from ‘static void Eigen::internal::triangular_solve_matrix::run(Index, Index, const Scalar*, Index, Scalar*, Index, Index, Eigen::internal::level3_blocking&) [with Scalar = double; Index = long int; int Mode = 2; bool Conjugate = false; int TriStorageOrder = 1; int OtherInnerStride = 1]’ 289 | gebp_kernel(lhs.getSubMapper(i2,absolute_j2), | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 290 | blockA, blockB+j2*actual_kc, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 291 | actual_mc, panelLength, actualPanelWidth, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 292 | Scalar(-1), | ~~~~~~~~~~~ 293 | actual_kc, actual_kc, // strides | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 294 | panelOffset, panelOffset); // offsets | ~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/SolveTriangular.h:102:12: required from ‘static void Eigen::internal::triangular_solver_selector::run(const Lhs&, Rhs&) [with Lhs = const Eigen::Transpose, -1, -1, false> >; Rhs = Eigen::Block, -1, -1, false>; int Side = 2; int Mode = 2]’ 100 | triangular_solve_matrix | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 102 | ::run(size, othersize, &actualLhs.coeffRef(0,0), actualLhs.outerStride(), &rhs.coeffRef(0,0), rhs.innerStride(), rhs.outerStride(), blocking); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/SolveTriangular.h:182:21: required from ‘void Eigen::TriangularViewImpl<_MatrixType, _Mode, Eigen::Dense>::solveInPlace(const Eigen::MatrixBase&) const [with int Side = 2; OtherDerived = Eigen::Block, -1, -1, false>; _MatrixType = const Eigen::Transpose, -1, -1, false> >; unsigned int _Mode = 2]’ 181 | internal::triangular_solver_selector::type, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 182 | Side, Mode>::run(derived().nestedExpression(), otherCopy); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:364:96: required from ‘static Eigen::Index Eigen::internal::llt_inplace::blocked(MatrixType&) [with MatrixType = Eigen::Matrix; Scalar = double; Eigen::Index = long int]’ 364 | if(rs>0) A11.adjoint().template triangularView().template solveInPlace(A21); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:408:68: required from ‘static bool Eigen::internal::LLT_Traits::inplace_decomposition(MatrixType&) [with MatrixType = Eigen::Matrix]’ 408 | { return llt_inplace::blocked(m)==-1; } | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:456:42: required from ‘Eigen::LLT<_MatrixType, _UpLo>& Eigen::LLT::compute(const Eigen::EigenBase&) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix; int _UpLo = 1]’ 456 | bool ok = Traits::inplace_decomposition(m_matrix); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:109:14: required from ‘Eigen::LLT::LLT(const Eigen::EigenBase&) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix; int _UpLo = 1]’ 109 | compute(matrix.derived()); | ~~~~~~~^~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:542:10: required from ‘const Eigen::LLT::PlainObject> Eigen::MatrixBase::llt() const [with Derived = Eigen::Matrix; typename Eigen::DenseBase::PlainObject = Eigen::Matrix]’ 542 | return LLT(derived()); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../inst/include/RcppML/project.hpp:123:51: required from here 123 | Eigen::LLT a_llt = a.llt(); | ~~~~~^~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:1920:103: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] 1920 | const int SResPacketHalfSize = unpacket_traits::half>::size; | ^~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:1921:138: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] 1921 | const int SResPacketQuarterSize = unpacket_traits::half>::half>::size; | ^~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:1921:138: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:1977:135: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] 1977 | typedef typename conditional=8,typename unpacket_traits::half,SResPacket>::type SResPacketHalf; | ^~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:1978:135: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] 1978 | typedef typename conditional=8,typename unpacket_traits::half,SLhsPacket>::type SLhsPacketHalf; | ^~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:1979:135: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] 1979 | typedef typename conditional=8,typename unpacket_traits::half,SRhsPacket>::type SRhsPacketHalf; | ^~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:1980:135: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] 1980 | typedef typename conditional=8,typename unpacket_traits::half,SAccPacket>::type SAccPacketHalf; | ^~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h: In instantiation of ‘void Eigen::internal::gemm_pack_lhs::operator()(Scalar*, const DataMapper&, Index, Index, Index, Index) [with Scalar = double; Index = long int; DataMapper = Eigen::internal::blas_data_mapper; int Pack1 = 4; int Pack2 = 2; Packet = __vector(2) double; bool Conjugate = false; bool PanelMode = true]’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/TriangularSolverMatrix.h:319:27: required from ‘static void Eigen::internal::triangular_solve_matrix::run(Index, Index, const Scalar*, Index, Scalar*, Index, Index, Eigen::internal::level3_blocking&) [with Scalar = double; Index = long int; int Mode = 2; bool Conjugate = false; int TriStorageOrder = 1; int OtherInnerStride = 1]’ 319 | pack_lhs_panel(blockA, lhs.getSubMapper(i2,absolute_j2), | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 320 | actualPanelWidth, actual_mc, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 321 | actual_kc, j2); | ~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/SolveTriangular.h:102:12: required from ‘static void Eigen::internal::triangular_solver_selector::run(const Lhs&, Rhs&) [with Lhs = const Eigen::Transpose, -1, -1, false> >; Rhs = Eigen::Block, -1, -1, false>; int Side = 2; int Mode = 2]’ 100 | triangular_solve_matrix | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 102 | ::run(size, othersize, &actualLhs.coeffRef(0,0), actualLhs.outerStride(), &rhs.coeffRef(0,0), rhs.innerStride(), rhs.outerStride(), blocking); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/SolveTriangular.h:182:21: required from ‘void Eigen::TriangularViewImpl<_MatrixType, _Mode, Eigen::Dense>::solveInPlace(const Eigen::MatrixBase&) const [with int Side = 2; OtherDerived = Eigen::Block, -1, -1, false>; _MatrixType = const Eigen::Transpose, -1, -1, false> >; unsigned int _Mode = 2]’ 181 | internal::triangular_solver_selector::type, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 182 | Side, Mode>::run(derived().nestedExpression(), otherCopy); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:364:96: required from ‘static Eigen::Index Eigen::internal::llt_inplace::blocked(MatrixType&) [with MatrixType = Eigen::Matrix; Scalar = double; Eigen::Index = long int]’ 364 | if(rs>0) A11.adjoint().template triangularView().template solveInPlace(A21); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:408:68: required from ‘static bool Eigen::internal::LLT_Traits::inplace_decomposition(MatrixType&) [with MatrixType = Eigen::Matrix]’ 408 | { return llt_inplace::blocked(m)==-1; } | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:456:42: required from ‘Eigen::LLT<_MatrixType, _UpLo>& Eigen::LLT::compute(const Eigen::EigenBase&) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix; int _UpLo = 1]’ 456 | bool ok = Traits::inplace_decomposition(m_matrix); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:109:14: required from ‘Eigen::LLT::LLT(const Eigen::EigenBase&) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix; int _UpLo = 1]’ 109 | compute(matrix.derived()); | ~~~~~~~^~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:542:10: required from ‘const Eigen::LLT::PlainObject> Eigen::MatrixBase::llt() const [with Derived = Eigen::Matrix; typename Eigen::DenseBase::PlainObject = Eigen::Matrix]’ 542 | return LLT(derived()); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../inst/include/RcppML/project.hpp:123:51: required from here 123 | Eigen::LLT a_llt = a.llt(); | ~~~~~^~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:2100:82: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] 2100 | typedef typename unpacket_traits::half>::half QuarterPacket; | ^~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:2102:56: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] 2102 | HalfPacketSize = unpacket_traits::size, | ^~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:2103:62: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] 2103 | QuarterPacketSize = unpacket_traits::size, | ^~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:2103:62: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h: In instantiation of ‘void Eigen::internal::gemm_pack_lhs::operator()(Scalar*, const DataMapper&, Index, Index, Index, Index) [with Scalar = double; Index = long int; DataMapper = Eigen::internal::const_blas_data_mapper; int Pack1 = 4; int Pack2 = 2; Packet = __vector(2) double; bool Conjugate = false; bool PanelMode = false]’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixMatrixTriangular.h:106:17: required from ‘static void Eigen::internal::general_matrix_matrix_triangular_product::run(Index, Index, const LhsScalar*, Index, const RhsScalar*, Index, ResScalar*, Index, Index, const ResScalar&, Eigen::internal::level3_blocking&) [with Index = long int; LhsScalar = double; int LhsStorageOrder = 0; bool ConjugateLhs = false; RhsScalar = double; int RhsStorageOrder = 1; bool ConjugateRhs = false; int ResInnerStride = 1; int UpLo = 1; int Version = 0; ResScalar = double]’ 106 | pack_lhs(blockA, lhs.getSubMapper(i2, k2), actual_kc, actual_mc); | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/SelfadjointProduct.h:113:12: required from ‘static void Eigen::selfadjoint_product_selector::run(MatrixType&, const OtherType&, const typename MatrixType::Scalar&) [with MatrixType = Eigen::Block, -1, -1, false>; OtherType = Eigen::Block, -1, -1, false>; int UpLo = 1; typename MatrixType::Scalar = double]’ 109 | internal::general_matrix_matrix_triangular_product::IsComplex, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 111 | Scalar, OtherIsRowMajor ? ColMajor : RowMajor, (!OtherBlasTraits::NeedToConjugate) && NumTraits::IsComplex, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 112 | IsRowMajor ? RowMajor : ColMajor, MatrixType::InnerStrideAtCompileTime, UpLo> | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 113 | ::run(size, depth, | ~~~~~^~~~~~~~~~~~~ 114 | actualOther.data(), actualOther.outerStride(), actualOther.data(), actualOther.outerStride(), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 115 | mat.data(), mat.innerStride(), mat.outerStride(), actualAlpha, blocking); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/SelfadjointProduct.h:126:62: required from ‘Eigen::SelfAdjointView& Eigen::SelfAdjointView::rankUpdate(const Eigen::MatrixBase&, const Scalar&) [with DerivedU = Eigen::Block, -1, -1, false>; _MatrixType = Eigen::Block, -1, -1, false>; unsigned int UpLo = 1; Scalar = double]’ 126 | selfadjoint_product_selector::run(_expression().const_cast_derived(), u.derived(), alpha); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:365:64: required from ‘static Eigen::Index Eigen::internal::llt_inplace::blocked(MatrixType&) [with MatrixType = Eigen::Matrix; Scalar = double; Eigen::Index = long int]’ 365 | if(rs>0) A22.template selfadjointView().rankUpdate(A21,typename NumTraits::Literal(-1)); // bottleneck | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:408:68: required from ‘static bool Eigen::internal::LLT_Traits::inplace_decomposition(MatrixType&) [with MatrixType = Eigen::Matrix]’ 408 | { return llt_inplace::blocked(m)==-1; } | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:456:42: required from ‘Eigen::LLT<_MatrixType, _UpLo>& Eigen::LLT::compute(const Eigen::EigenBase&) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix; int _UpLo = 1]’ 456 | bool ok = Traits::inplace_decomposition(m_matrix); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:109:14: required from ‘Eigen::LLT::LLT(const Eigen::EigenBase&) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix; int _UpLo = 1]’ 109 | compute(matrix.derived()); | ~~~~~~~^~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:542:10: required from ‘const Eigen::LLT::PlainObject> Eigen::MatrixBase::llt() const [with Derived = Eigen::Matrix; typename Eigen::DenseBase::PlainObject = Eigen::Matrix]’ 542 | return LLT(derived()); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../inst/include/RcppML/project.hpp:123:51: required from here 123 | Eigen::LLT a_llt = a.llt(); | ~~~~~^~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:2100:82: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] 2100 | typedef typename unpacket_traits::half>::half QuarterPacket; | ^~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:2102:56: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] 2102 | HalfPacketSize = unpacket_traits::size, | ^~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:2103:62: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] 2103 | QuarterPacketSize = unpacket_traits::size, | ^~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralBlockPanelKernel.h:2103:62: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/util/XprHelper.h: In instantiation of ‘struct Eigen::internal::find_best_packet’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Matrix.h:22:57: required from ‘struct Eigen::internal::traits >’ 22 | typedef typename find_best_packet<_Scalar,size>::type PacketScalar; | ^~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:98:7: required from ‘class Eigen::PlainObjectBase >’ 98 | class PlainObjectBase : public internal::dense_xpr_base::type | ^~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Matrix.h:178:7: required from ‘class Eigen::Matrix’ 178 | class Matrix | ^~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixMatrixTriangular.h:155:52: required from ‘void Eigen::internal::tribb_kernel::operator()(ResScalar*, Index, Index, const LhsScalar*, const RhsScalar*, Index, Index, const ResScalar&) [with LhsScalar = double; RhsScalar = double; Index = long int; int mr = 4; int nr = 4; bool ConjLhs = false; bool ConjRhs = false; int ResInnerStride = 1; int UpLo = 1; ResScalar = double]’ 155 | Matrix buffer((internal::constructor_without_unaligned_array_assert())); | ^~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixMatrixTriangular.h:116:13: required from ‘static void Eigen::internal::general_matrix_matrix_triangular_product::run(Index, Index, const LhsScalar*, Index, const RhsScalar*, Index, ResScalar*, Index, Index, const ResScalar&, Eigen::internal::level3_blocking&) [with Index = long int; LhsScalar = double; int LhsStorageOrder = 0; bool ConjugateLhs = false; RhsScalar = double; int RhsStorageOrder = 1; bool ConjugateRhs = false; int ResInnerStride = 1; int UpLo = 1; int Version = 0; ResScalar = double]’ 116 | sybb(_res+resStride*i2 + resIncr*i2, resIncr, resStride, blockA, blockB + actual_kc*i2, actual_mc, actual_kc, alpha); | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/SelfadjointProduct.h:113:12: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:365:64: required from ‘static Eigen::Index Eigen::internal::llt_inplace::blocked(MatrixType&) [with MatrixType = Eigen::Matrix; Scalar = double; Eigen::Index = long int]’ 365 | if(rs>0) A22.template selfadjointView().rankUpdate(A21,typename NumTraits::Literal(-1)); // bottleneck | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:408:68: required from ‘static bool Eigen::internal::LLT_Traits::inplace_decomposition(MatrixType&) [with MatrixType = Eigen::Matrix]’ 408 | { return llt_inplace::blocked(m)==-1; } | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:456:42: required from ‘Eigen::LLT<_MatrixType, _UpLo>& Eigen::LLT::compute(const Eigen::EigenBase&) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix; int _UpLo = 1]’ 456 | bool ok = Traits::inplace_decomposition(m_matrix); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:109:14: required from ‘Eigen::LLT::LLT(const Eigen::EigenBase&) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix; int _UpLo = 1]’ 109 | compute(matrix.derived()); | ~~~~~~~^~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:542:10: required from ‘const Eigen::LLT::PlainObject> Eigen::MatrixBase::llt() const [with Derived = Eigen::Matrix; typename Eigen::DenseBase::PlainObject = Eigen::Matrix]’ 542 | return LLT(derived()); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../inst/include/RcppML/project.hpp:123:51: required from here 123 | Eigen::LLT a_llt = a.llt(); | ~~~~~^~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:190:44: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 190 | bool Stop = Size==Dynamic || (Size%unpacket_traits::size)==0 || is_same::half>::value> | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:190:83: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 190 | bool Stop = Size==Dynamic || (Size%unpacket_traits::size)==0 || is_same::half>::value> | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:190:83: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:190:83: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:208:88: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 208 | typedef typename find_best_packet_helper::type>::type type; | ^~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:302:7: required from ‘class Eigen::DenseCoeffsBase, 1>’ 302 | class DenseCoeffsBase : public DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:555:7: required from ‘class Eigen::DenseCoeffsBase, 3>’ 555 | class DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:98:7: required from ‘class Eigen::PlainObjectBase >’ 98 | class PlainObjectBase : public internal::dense_xpr_base::type | ^~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Matrix.h:178:7: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:365:64: required from ‘static Eigen::Index Eigen::internal::llt_inplace::blocked(MatrixType&) [with MatrixType = Eigen::Matrix; Scalar = double; Eigen::Index = long int]’ 365 | if(rs>0) A22.template selfadjointView().rankUpdate(A21,typename NumTraits::Literal(-1)); // bottleneck | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:408:68: required from ‘static bool Eigen::internal::LLT_Traits::inplace_decomposition(MatrixType&) [with MatrixType = Eigen::Matrix]’ 408 | { return llt_inplace::blocked(m)==-1; } | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:456:42: required from ‘Eigen::LLT<_MatrixType, _UpLo>& Eigen::LLT::compute(const Eigen::EigenBase&) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix; int _UpLo = 1]’ 456 | bool ok = Traits::inplace_decomposition(m_matrix); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:109:14: required from ‘Eigen::LLT::LLT(const Eigen::EigenBase&) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix; int _UpLo = 1]’ 109 | compute(matrix.derived()); | ~~~~~~~^~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:542:10: required from ‘const Eigen::LLT::PlainObject> Eigen::MatrixBase::llt() const [with Derived = Eigen::Matrix; typename Eigen::DenseBase::PlainObject = Eigen::Matrix]’ 542 | return LLT(derived()); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../inst/include/RcppML/project.hpp:123:51: required from here 123 | Eigen::LLT a_llt = a.llt(); | ~~~~~^~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase > >, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:481:7: required from ‘class Eigen::DenseCoeffsBase > >, 2>’ 481 | class DenseCoeffsBase : public DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase > > >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase > > >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Transpose.h:118:37: required from ‘class Eigen::TransposeImpl >, Eigen::Dense>’ 118 | template class TransposeImpl | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Transpose.h:52:37: required from ‘class Eigen::Transpose > >’ 52 | template class Transpose | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/GeneralProduct.h:207:26: [ skipping 4 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:148:43: required from ‘static void Eigen::internal::Assignment, Eigen::internal::assign_op, Eigen::internal::Dense2Dense, typename Eigen::internal::enable_if<((Options == Eigen::DefaultProduct) || (Options == Eigen::AliasFreeProduct))>::type>::run(DstXprType&, const SrcXprType&, const Eigen::internal::assign_op&) [with DstXprType = Eigen::Matrix; Lhs = Eigen::Matrix; Rhs = Eigen::Transpose >; int Options = 0; Scalar = double; SrcXprType = Eigen::Product, Eigen::Transpose >, 0>]’ 148 | generic_product_impl::evalTo(dst, src.lhs(), src.rhs()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:890:49: required from ‘void Eigen::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen::Matrix; Src = Eigen::Product, Eigen::Transpose >, 0>; Func = assign_op]’ 890 | Assignment::run(actualDst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:797:41: required from ‘Derived& Eigen::PlainObjectBase::_set_noalias(const Eigen::DenseBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; Derived = Eigen::Matrix]’ 797 | internal::call_assignment_no_alias(this->derived(), other.derived(), internal::assign_op()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:594:19: required from ‘Eigen::PlainObjectBase::PlainObjectBase(const Eigen::DenseBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; Derived = Eigen::Matrix]’ 594 | _set_noalias(other); | ~~~~~~~~~~~~^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Matrix.h:423:29: required from ‘Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::Matrix(const Eigen::EigenBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; _Scalar = double; int _Rows = -1; int _Cols = -1; int _Options = 0; int _MaxRows = -1; int _MaxCols = -1]’ 423 | : Base(other.derived()) | ^ ../inst/include/RcppML/project.hpp:149:47: required from here 149 | Eigen::MatrixXd a = w_ * w_.transpose(); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, const Eigen::Transpose, 1, -1, false> >, const Eigen::Block >, -1, 1, false>, -1, 1, true> >, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, const Eigen::Transpose, 1, -1, false> >, const Eigen::Block >, -1, 1, false>, -1, 1, true> > >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, const Eigen::Transpose, 1, -1, false> >, const Eigen::Block >, -1, 1, false>, -1, 1, true> > >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CwiseBinaryOp.h:148:7: required from ‘class Eigen::CwiseBinaryOpImpl, const Eigen::Transpose, 1, -1, false> >, const Eigen::Block >, -1, 1, false>, -1, 1, true>, Eigen::Dense>’ 148 | class CwiseBinaryOpImpl | ^~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CwiseBinaryOp.h:77:7: required from ‘class Eigen::CwiseBinaryOp, const Eigen::Transpose, 1, -1, false> >, const Eigen::Block >, -1, 1, false>, -1, 1, true> >’ 77 | class CwiseBinaryOp : | ^~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Dot.h:50:56: required from ‘static Eigen::internal::dot_nocheck::ResScalar Eigen::internal::dot_nocheck::run(const Eigen::MatrixBase&, const Eigen::MatrixBase&) [with T = Eigen::Block, 1, -1, false>; U = Eigen::Block >, -1, 1, false>, -1, 1, true>; ResScalar = double]’ 50 | return a.transpose().template binaryExpr(b).sum(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Dot.h:84:58: [ skipping 4 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:148:43: required from ‘static void Eigen::internal::Assignment, Eigen::internal::assign_op, Eigen::internal::Dense2Dense, typename Eigen::internal::enable_if<((Options == Eigen::DefaultProduct) || (Options == Eigen::AliasFreeProduct))>::type>::run(DstXprType&, const SrcXprType&, const Eigen::internal::assign_op&) [with DstXprType = Eigen::Matrix; Lhs = Eigen::Matrix; Rhs = Eigen::Transpose >; int Options = 0; Scalar = double; SrcXprType = Eigen::Product, Eigen::Transpose >, 0>]’ 148 | generic_product_impl::evalTo(dst, src.lhs(), src.rhs()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:890:49: required from ‘void Eigen::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen::Matrix; Src = Eigen::Product, Eigen::Transpose >, 0>; Func = assign_op]’ 890 | Assignment::run(actualDst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:797:41: required from ‘Derived& Eigen::PlainObjectBase::_set_noalias(const Eigen::DenseBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; Derived = Eigen::Matrix]’ 797 | internal::call_assignment_no_alias(this->derived(), other.derived(), internal::assign_op()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:594:19: required from ‘Eigen::PlainObjectBase::PlainObjectBase(const Eigen::DenseBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; Derived = Eigen::Matrix]’ 594 | _set_noalias(other); | ~~~~~~~~~~~~^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Matrix.h:423:29: required from ‘Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::Matrix(const Eigen::EigenBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; _Scalar = double; int _Rows = 2; int _Cols = 2; int _Options = 0; int _MaxRows = 2; int _MaxCols = 2]’ 423 | : Base(other.derived()) | ^ ../inst/include/RcppML/project.hpp:106:41: required from here 106 | Eigen::Matrix2d a = w * w.transpose(); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, 1, -1, false>, 1, -1, true> >, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:481:7: required from ‘class Eigen::DenseCoeffsBase, 1, -1, false>, 1, -1, true> >, 2>’ 481 | class DenseCoeffsBase : public DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, 1, -1, false>, 1, -1, true> > >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, 1, -1, false>, 1, -1, true> > >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Transpose.h:118:37: required from ‘class Eigen::TransposeImpl, 1, -1, false>, 1, -1, true>, Eigen::Dense>’ 118 | template class TransposeImpl | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Transpose.h:52:37: required from ‘class Eigen::Transpose, 1, -1, false>, 1, -1, true> >’ 52 | template class Transpose | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Dot.h:50:23: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:148:43: required from ‘static void Eigen::internal::Assignment, Eigen::internal::assign_op, Eigen::internal::Dense2Dense, typename Eigen::internal::enable_if<((Options == Eigen::DefaultProduct) || (Options == Eigen::AliasFreeProduct))>::type>::run(DstXprType&, const SrcXprType&, const Eigen::internal::assign_op&) [with DstXprType = Eigen::Matrix; Lhs = Eigen::Matrix; Rhs = Eigen::Transpose >; int Options = 0; Scalar = double; SrcXprType = Eigen::Product, Eigen::Transpose >, 0>]’ 148 | generic_product_impl::evalTo(dst, src.lhs(), src.rhs()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:890:49: required from ‘void Eigen::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen::Matrix; Src = Eigen::Product, Eigen::Transpose >, 0>; Func = assign_op]’ 890 | Assignment::run(actualDst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:797:41: required from ‘Derived& Eigen::PlainObjectBase::_set_noalias(const Eigen::DenseBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; Derived = Eigen::Matrix]’ 797 | internal::call_assignment_no_alias(this->derived(), other.derived(), internal::assign_op()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:594:19: required from ‘Eigen::PlainObjectBase::PlainObjectBase(const Eigen::DenseBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; Derived = Eigen::Matrix]’ 594 | _set_noalias(other); | ~~~~~~~~~~~~^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Matrix.h:423:29: required from ‘Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::Matrix(const Eigen::EigenBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; _Scalar = double; int _Rows = 2; int _Cols = 2; int _Options = 0; int _MaxRows = 2; int _MaxCols = 2]’ 423 | : Base(other.derived()) | ^ ../inst/include/RcppML/project.hpp:106:41: required from here 106 | Eigen::Matrix2d a = w * w.transpose(); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, const Eigen::Transpose, 1, -1, false>, 1, -1, true> >, const Eigen::Block >, -1, 1, false> >, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, const Eigen::Transpose, 1, -1, false>, 1, -1, true> >, const Eigen::Block >, -1, 1, false> > >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, const Eigen::Transpose, 1, -1, false>, 1, -1, true> >, const Eigen::Block >, -1, 1, false> > >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CwiseBinaryOp.h:148:7: required from ‘class Eigen::CwiseBinaryOpImpl, const Eigen::Transpose, 1, -1, false>, 1, -1, true> >, const Eigen::Block >, -1, 1, false>, Eigen::Dense>’ 148 | class CwiseBinaryOpImpl | ^~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CwiseBinaryOp.h:77:7: required from ‘class Eigen::CwiseBinaryOp, const Eigen::Transpose, 1, -1, false>, 1, -1, true> >, const Eigen::Block >, -1, 1, false> >’ 77 | class CwiseBinaryOp : | ^~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Dot.h:50:56: required from ‘static Eigen::internal::dot_nocheck::ResScalar Eigen::internal::dot_nocheck::run(const Eigen::MatrixBase&, const Eigen::MatrixBase&) [with T = Eigen::Block, 1, -1, false>, 1, -1, true>; U = Eigen::Block >, -1, 1, false>; ResScalar = double]’ 50 | return a.transpose().template binaryExpr(b).sum(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Dot.h:84:58: [ skipping 4 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:148:43: required from ‘static void Eigen::internal::Assignment, Eigen::internal::assign_op, Eigen::internal::Dense2Dense, typename Eigen::internal::enable_if<((Options == Eigen::DefaultProduct) || (Options == Eigen::AliasFreeProduct))>::type>::run(DstXprType&, const SrcXprType&, const Eigen::internal::assign_op&) [with DstXprType = Eigen::Matrix; Lhs = Eigen::Matrix; Rhs = Eigen::Transpose >; int Options = 0; Scalar = double; SrcXprType = Eigen::Product, Eigen::Transpose >, 0>]’ 148 | generic_product_impl::evalTo(dst, src.lhs(), src.rhs()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:890:49: required from ‘void Eigen::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen::Matrix; Src = Eigen::Product, Eigen::Transpose >, 0>; Func = assign_op]’ 890 | Assignment::run(actualDst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:797:41: required from ‘Derived& Eigen::PlainObjectBase::_set_noalias(const Eigen::DenseBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; Derived = Eigen::Matrix]’ 797 | internal::call_assignment_no_alias(this->derived(), other.derived(), internal::assign_op()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:594:19: required from ‘Eigen::PlainObjectBase::PlainObjectBase(const Eigen::DenseBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; Derived = Eigen::Matrix]’ 594 | _set_noalias(other); | ~~~~~~~~~~~~^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Matrix.h:423:29: required from ‘Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::Matrix(const Eigen::EigenBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; _Scalar = double; int _Rows = 2; int _Cols = 2; int _Options = 0; int _MaxRows = 2; int _MaxCols = 2]’ 423 | : Base(other.derived()) | ^ ../inst/include/RcppML/project.hpp:106:41: required from here 106 | Eigen::Matrix2d a = w * w.transpose(); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, 16, Eigen::Stride<0, 0> >, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:302:7: required from ‘class Eigen::DenseCoeffsBase, 16, Eigen::Stride<0, 0> >, 1>’ 302 | class DenseCoeffsBase : public DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:555:7: required from ‘class Eigen::DenseCoeffsBase, 16, Eigen::Stride<0, 0> >, 3>’ 555 | class DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, 16, Eigen::Stride<0, 0> > >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, 16, Eigen::Stride<0, 0> > >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MapBase.h:37:34: required from ‘class Eigen::MapBase, 16, Eigen::Stride<0, 0> >, 0>’ 37 | template class MapBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MapBase.h:223:34: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Solve.h:147:26: required from ‘static void Eigen::internal::Assignment, Eigen::internal::assign_op, Eigen::internal::Dense2Dense>::run(DstXprType&, const SrcXprType&, const Eigen::internal::assign_op&) [with DstXprType = Eigen::Block, -1, 1, true>; DecType = Eigen::LLT, 1>; RhsType = Eigen::Matrix; Scalar = double; SrcXprType = Eigen::Solve, 1>, Eigen::Matrix >]’ 147 | src.dec()._solve_impl(src.rhs(), dst); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:890:49: required from ‘void Eigen::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen::Block, -1, 1, true>; Src = Eigen::Solve, 1>, Eigen::Matrix >; Func = assign_op]’ 890 | Assignment::run(actualDst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:858:27: required from ‘void Eigen::internal::call_assignment(Dst&, const Src&, const Func&, typename enable_if<(! evaluator_assume_aliasing::value), void*>::type) [with Dst = Eigen::Block, -1, 1, true>; Src = Eigen::Solve, 1>, Eigen::Matrix >; Func = assign_op; typename enable_if<(! evaluator_assume_aliasing::value), void*>::type = void*; typename evaluator_traits::Shape = Eigen::DenseShape]’ 858 | call_assignment_no_alias(dst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:836:18: required from ‘void Eigen::internal::call_assignment(Dst&, const Src&) [with Dst = Eigen::Block, -1, 1, true>; Src = Eigen::Solve, 1>, Eigen::Matrix >]’ 836 | call_assignment(dst, src, internal::assign_op()); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Assign.h:66:28: required from ‘Derived& Eigen::MatrixBase::operator=(const Eigen::DenseBase&) [with OtherDerived = Eigen::Solve, 1>, Eigen::Matrix >; Derived = Eigen::Block, -1, 1, true>]’ 66 | internal::call_assignment(derived(), other.derived()); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../inst/include/RcppML/project.hpp:133:33: required from here 133 | h.col(i) = a_llt.solve(b); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, const Eigen::Transpose, 1, -1, false> >, const Eigen::Block >, -1, 1, false>, -1, 1, true> >, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, const Eigen::Transpose, 1, -1, false> >, const Eigen::Block >, -1, 1, false>, -1, 1, true> > >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, const Eigen::Transpose, 1, -1, false> >, const Eigen::Block >, -1, 1, false>, -1, 1, true> > >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CwiseBinaryOp.h:148:7: required from ‘class Eigen::CwiseBinaryOpImpl, const Eigen::Transpose, 1, -1, false> >, const Eigen::Block >, -1, 1, false>, -1, 1, true>, Eigen::Dense>’ 148 | class CwiseBinaryOpImpl | ^~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CwiseBinaryOp.h:77:7: required from ‘class Eigen::CwiseBinaryOp, const Eigen::Transpose, 1, -1, false> >, const Eigen::Block >, -1, 1, false>, -1, 1, true> >’ 77 | class CwiseBinaryOp : | ^~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Dot.h:50:56: required from ‘static Eigen::internal::dot_nocheck::ResScalar Eigen::internal::dot_nocheck::run(const Eigen::MatrixBase&, const Eigen::MatrixBase&) [with T = Eigen::Block, 1, -1, false>; U = Eigen::Block >, -1, 1, false>, -1, 1, true>; ResScalar = double]’ 50 | return a.transpose().template binaryExpr(b).sum(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Dot.h:84:58: [ skipping 4 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:148:43: required from ‘static void Eigen::internal::Assignment, Eigen::internal::assign_op, Eigen::internal::Dense2Dense, typename Eigen::internal::enable_if<((Options == Eigen::DefaultProduct) || (Options == Eigen::AliasFreeProduct))>::type>::run(DstXprType&, const SrcXprType&, const Eigen::internal::assign_op&) [with DstXprType = Eigen::Matrix; Lhs = Eigen::Matrix; Rhs = Eigen::Transpose >; int Options = 0; Scalar = double; SrcXprType = Eigen::Product, Eigen::Transpose >, 0>]’ 148 | generic_product_impl::evalTo(dst, src.lhs(), src.rhs()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:890:49: required from ‘void Eigen::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen::Matrix; Src = Eigen::Product, Eigen::Transpose >, 0>; Func = assign_op]’ 890 | Assignment::run(actualDst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:797:41: required from ‘Derived& Eigen::PlainObjectBase::_set_noalias(const Eigen::DenseBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; Derived = Eigen::Matrix]’ 797 | internal::call_assignment_no_alias(this->derived(), other.derived(), internal::assign_op()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:594:19: required from ‘Eigen::PlainObjectBase::PlainObjectBase(const Eigen::DenseBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; Derived = Eigen::Matrix]’ 594 | _set_noalias(other); | ~~~~~~~~~~~~^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Matrix.h:423:29: required from ‘Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::Matrix(const Eigen::EigenBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; _Scalar = double; int _Rows = -1; int _Cols = -1; int _Options = 0; int _MaxRows = -1; int _MaxCols = -1]’ 423 | : Base(other.derived()) | ^ ../inst/include/RcppML/project.hpp:149:47: required from here 149 | Eigen::MatrixXd a = w_ * w_.transpose(); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, const Eigen::Transpose, 1, -1, false>, 1, -1, true> >, const Eigen::Block >, -1, 1, false> >, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, const Eigen::Transpose, 1, -1, false>, 1, -1, true> >, const Eigen::Block >, -1, 1, false> > >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, const Eigen::Transpose, 1, -1, false>, 1, -1, true> >, const Eigen::Block >, -1, 1, false> > >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CwiseBinaryOp.h:148:7: required from ‘class Eigen::CwiseBinaryOpImpl, const Eigen::Transpose, 1, -1, false>, 1, -1, true> >, const Eigen::Block >, -1, 1, false>, Eigen::Dense>’ 148 | class CwiseBinaryOpImpl | ^~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CwiseBinaryOp.h:77:7: required from ‘class Eigen::CwiseBinaryOp, const Eigen::Transpose, 1, -1, false>, 1, -1, true> >, const Eigen::Block >, -1, 1, false> >’ 77 | class CwiseBinaryOp : | ^~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Dot.h:50:56: required from ‘static Eigen::internal::dot_nocheck::ResScalar Eigen::internal::dot_nocheck::run(const Eigen::MatrixBase&, const Eigen::MatrixBase&) [with T = Eigen::Block, 1, -1, false>, 1, -1, true>; U = Eigen::Block >, -1, 1, false>; ResScalar = double]’ 50 | return a.transpose().template binaryExpr(b).sum(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Dot.h:84:58: [ skipping 4 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:148:43: required from ‘static void Eigen::internal::Assignment, Eigen::internal::assign_op, Eigen::internal::Dense2Dense, typename Eigen::internal::enable_if<((Options == Eigen::DefaultProduct) || (Options == Eigen::AliasFreeProduct))>::type>::run(DstXprType&, const SrcXprType&, const Eigen::internal::assign_op&) [with DstXprType = Eigen::Matrix; Lhs = Eigen::Matrix; Rhs = Eigen::Transpose >; int Options = 0; Scalar = double; SrcXprType = Eigen::Product, Eigen::Transpose >, 0>]’ 148 | generic_product_impl::evalTo(dst, src.lhs(), src.rhs()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:890:49: required from ‘void Eigen::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen::Matrix; Src = Eigen::Product, Eigen::Transpose >, 0>; Func = assign_op]’ 890 | Assignment::run(actualDst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:797:41: required from ‘Derived& Eigen::PlainObjectBase::_set_noalias(const Eigen::DenseBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; Derived = Eigen::Matrix]’ 797 | internal::call_assignment_no_alias(this->derived(), other.derived(), internal::assign_op()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:594:19: required from ‘Eigen::PlainObjectBase::PlainObjectBase(const Eigen::DenseBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; Derived = Eigen::Matrix]’ 594 | _set_noalias(other); | ~~~~~~~~~~~~^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Matrix.h:423:29: required from ‘Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::Matrix(const Eigen::EigenBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; _Scalar = double; int _Rows = -1; int _Cols = -1; int _Options = 0; int _MaxRows = -1; int _MaxCols = -1]’ 423 | : Base(other.derived()) | ^ ../inst/include/RcppML/project.hpp:149:47: required from here 149 | Eigen::MatrixXd a = w_ * w_.transpose(); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, -1, 1, true>, -1, 1, true>, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:481:7: required from ‘class Eigen::DenseCoeffsBase, -1, 1, true>, -1, 1, true>, 2>’ 481 | class DenseCoeffsBase : public DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, -1, 1, true>, -1, 1, true> >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, -1, 1, true>, -1, 1, true> >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MapBase.h:37:34: required from ‘class Eigen::MapBase, -1, 1, true>, -1, 1, true>, 0>’ 37 | template class MapBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Block.h:329:7: required from ‘class Eigen::internal::BlockImpl_dense, -1, 1, true>, -1, 1, true, true>’ 329 | class BlockImpl_dense | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Block.h:154:7: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:797:41: required from ‘Derived& Eigen::PlainObjectBase::_set_noalias(const Eigen::DenseBase&) [with OtherDerived = Eigen::Product, Eigen::Block, -1, 1, true>, 0>; Derived = Eigen::Matrix]’ 797 | internal::call_assignment_no_alias(this->derived(), other.derived(), internal::assign_op()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:883:25: required from ‘void Eigen::PlainObjectBase::_init1(const Eigen::DenseBase&) [with T = Eigen::Product, Eigen::Block, -1, 1, true>, 0>; OtherDerived = Eigen::Product, Eigen::Block, -1, 1, true>, 0>; Derived = Eigen::Matrix]’ 883 | this->_set_noalias(other); | ~~~~~~~~~~~~~~~~~~^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Matrix.h:332:31: required from ‘Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::Matrix(const T&) [with T = Eigen::Product, Eigen::Block, -1, 1, true>, 0>; _Scalar = double; int _Rows = -1; int _Cols = 1; int _Options = 0; int _MaxRows = -1; int _MaxCols = 1]’ 332 | Base::template _init1(x); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:850:41: required from ‘void Eigen::internal::call_assignment(Dst&, const Src&, const Func&, typename enable_if::value, void*>::type) [with Dst = Eigen::Matrix; Src = Eigen::Product, Eigen::Block, -1, 1, true>, 0>; Func = add_assign_op; typename enable_if::value, void*>::type = void*; typename evaluator_traits::Shape = Eigen::DenseShape]’ 850 | typename plain_matrix_type::type tmp(src); | ^~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CwiseBinaryOp.h:177:18: required from ‘Derived& Eigen::MatrixBase::operator+=(const Eigen::MatrixBase&) [with OtherDerived = Eigen::Product, Eigen::Block, -1, 1, true>, 0>; Derived = Eigen::Matrix]’ 177 | call_assignment(derived(), other.derived(), internal::add_assign_op()); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../inst/include/RcppML/project.hpp:198:23: required from here 198 | b += w * A.col(i); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, const Eigen::Transpose, 1, -1, false> >, const Eigen::Block, -1, 1, true>, -1, 1, true> >, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, const Eigen::Transpose, 1, -1, false> >, const Eigen::Block, -1, 1, true>, -1, 1, true> > >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, const Eigen::Transpose, 1, -1, false> >, const Eigen::Block, -1, 1, true>, -1, 1, true> > >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CwiseBinaryOp.h:148:7: required from ‘class Eigen::CwiseBinaryOpImpl, const Eigen::Transpose, 1, -1, false> >, const Eigen::Block, -1, 1, true>, -1, 1, true>, Eigen::Dense>’ 148 | class CwiseBinaryOpImpl | ^~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CwiseBinaryOp.h:77:7: required from ‘class Eigen::CwiseBinaryOp, const Eigen::Transpose, 1, -1, false> >, const Eigen::Block, -1, 1, true>, -1, 1, true> >’ 77 | class CwiseBinaryOp : | ^~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Dot.h:50:56: required from ‘static Eigen::internal::dot_nocheck::ResScalar Eigen::internal::dot_nocheck::run(const Eigen::MatrixBase&, const Eigen::MatrixBase&) [with T = Eigen::Block, 1, -1, false>; U = Eigen::Block, -1, 1, true>, -1, 1, true>; ResScalar = double]’ 50 | return a.transpose().template binaryExpr(b).sum(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Dot.h:84:58: [ skipping 4 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:148:43: required from ‘static void Eigen::internal::Assignment, Eigen::internal::assign_op, Eigen::internal::Dense2Dense, typename Eigen::internal::enable_if<((Options == Eigen::DefaultProduct) || (Options == Eigen::AliasFreeProduct))>::type>::run(DstXprType&, const SrcXprType&, const Eigen::internal::assign_op&) [with DstXprType = Eigen::Matrix; Lhs = Eigen::Matrix; Rhs = Eigen::Block, -1, 1, true>; int Options = 0; Scalar = double; SrcXprType = Eigen::Product, Eigen::Block, -1, 1, true>, 0>]’ 148 | generic_product_impl::evalTo(dst, src.lhs(), src.rhs()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:890:49: required from ‘void Eigen::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen::Matrix; Src = Eigen::Product, Eigen::Block, -1, 1, true>, 0>; Func = assign_op]’ 890 | Assignment::run(actualDst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:797:41: required from ‘Derived& Eigen::PlainObjectBase::_set_noalias(const Eigen::DenseBase&) [with OtherDerived = Eigen::Product, Eigen::Block, -1, 1, true>, 0>; Derived = Eigen::Matrix]’ 797 | internal::call_assignment_no_alias(this->derived(), other.derived(), internal::assign_op()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:594:19: required from ‘Eigen::PlainObjectBase::PlainObjectBase(const Eigen::DenseBase&) [with OtherDerived = Eigen::Product, Eigen::Block, -1, 1, true>, 0>; Derived = Eigen::Matrix]’ 594 | _set_noalias(other); | ~~~~~~~~~~~~^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Matrix.h:423:29: required from ‘Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::Matrix(const Eigen::EigenBase&) [with OtherDerived = Eigen::Product, Eigen::Block, -1, 1, true>, 0>; _Scalar = double; int _Rows = -1; int _Cols = 1; int _Options = 0; int _MaxRows = -1; int _MaxCols = 1]’ 423 | : Base(other.derived()) | ^ ../inst/include/RcppML/nmf.hpp:98:46: required from here 98 | Eigen::VectorXd wh_i = w0 * h.col(i); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, 2, -1, true>, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:481:7: required from ‘class Eigen::DenseCoeffsBase, 2, -1, true>, 2>’ 481 | class DenseCoeffsBase : public DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, 2, -1, true> >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, 2, -1, true> >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MapBase.h:37:34: required from ‘class Eigen::MapBase, 2, -1, true>, 0>’ 37 | template class MapBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Block.h:329:7: required from ‘class Eigen::internal::BlockImpl_dense, 2, -1, true, true>’ 329 | class BlockImpl_dense | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Block.h:154:7: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:890:49: required from ‘void Eigen::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen::Matrix; Src = Eigen::PartialReduxExpr, member_sum, 1>; Func = assign_op]’ 890 | Assignment::run(actualDst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:858:27: required from ‘void Eigen::internal::call_assignment(Dst&, const Src&, const Func&, typename enable_if<(! evaluator_assume_aliasing::value), void*>::type) [with Dst = Eigen::Matrix; Src = Eigen::PartialReduxExpr, member_sum, 1>; Func = assign_op; typename enable_if<(! evaluator_assume_aliasing::value), void*>::type = void*; typename evaluator_traits::Shape = Eigen::DenseShape]’ 858 | call_assignment_no_alias(dst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:836:18: required from ‘void Eigen::internal::call_assignment(Dst&, const Src&) [with Dst = Eigen::Matrix; Src = Eigen::PartialReduxExpr, member_sum, 1>]’ 836 | call_assignment(dst, src, internal::assign_op()); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:779:32: required from ‘Derived& Eigen::PlainObjectBase::_set(const Eigen::DenseBase&) [with OtherDerived = Eigen::PartialReduxExpr, Eigen::internal::member_sum, 1>; Derived = Eigen::Matrix]’ 779 | internal::call_assignment(this->derived(), other.derived()); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Matrix.h:225:24: required from ‘Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>& Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::operator=(const Eigen::DenseBase&) [with OtherDerived = Eigen::PartialReduxExpr, Eigen::internal::member_sum, 1>; _Scalar = double; int _Rows = -1; int _Cols = 1; int _Options = 0; int _MaxRows = -1; int _MaxCols = 1]’ 225 | return Base::_set(other); | ~~~~~~~~~~^~~~~~~ ../inst/include/RcppML/nmf.hpp:154:27: required from here 154 | d = w.rowwise().sum(); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h: In instantiation of ‘struct Eigen::internal::evaluator, 2, -1, true> >’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Redux.h:357:7: required from ‘class Eigen::internal::redux_evaluator, 2, -1, true> >’ 357 | class redux_evaluator : public internal::evaluator<_XprType> | ^~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PartialReduxEvaluator.h:217:20: required from ‘PacketType Eigen::internal::evaluator >::packet(Eigen::Index) const [with int LoadMode = 0; PacketType = __vector(2) double; ArgType = Eigen::Matrix; MemberOp = Eigen::internal::member_sum; int Direction = 1; Eigen::Index = long int]’ 217 | PanelEvaluator panel_eval(panel); | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:681:114: required from ‘void Eigen::internal::generic_dense_assignment_kernel::assignPacket(Eigen::Index) [with int StoreMode = 16; int LoadMode = 0; PacketType = __vector(2) double; DstEvaluatorTypeT = Eigen::internal::evaluator >; SrcEvaluatorTypeT = Eigen::internal::evaluator, Eigen::internal::member_sum, 1> >; Functor = Eigen::internal::assign_op; int Version = 0; Eigen::Index = long int]’ 681 | m_functor.template assignPacket(&m_dst.coeffRef(index), m_src.template packet(index)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:437:75: required from ‘static void Eigen::internal::dense_assignment_loop::run(Kernel&) [with Kernel = Eigen::internal::generic_dense_assignment_kernel >, Eigen::internal::evaluator, Eigen::internal::member_sum, 1> >, Eigen::internal::assign_op, 0>]’ 437 | kernel.template assignPacket(index); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:785:37: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:890:49: required from ‘void Eigen::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen::Matrix; Src = Eigen::PartialReduxExpr, member_sum, 1>; Func = assign_op]’ 890 | Assignment::run(actualDst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:858:27: required from ‘void Eigen::internal::call_assignment(Dst&, const Src&, const Func&, typename enable_if<(! evaluator_assume_aliasing::value), void*>::type) [with Dst = Eigen::Matrix; Src = Eigen::PartialReduxExpr, member_sum, 1>; Func = assign_op; typename enable_if<(! evaluator_assume_aliasing::value), void*>::type = void*; typename evaluator_traits::Shape = Eigen::DenseShape]’ 858 | call_assignment_no_alias(dst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:836:18: required from ‘void Eigen::internal::call_assignment(Dst&, const Src&) [with Dst = Eigen::Matrix; Src = Eigen::PartialReduxExpr, member_sum, 1>]’ 836 | call_assignment(dst, src, internal::assign_op()); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:779:32: required from ‘Derived& Eigen::PlainObjectBase::_set(const Eigen::DenseBase&) [with OtherDerived = Eigen::PartialReduxExpr, Eigen::internal::member_sum, 1>; Derived = Eigen::Matrix]’ 779 | internal::call_assignment(this->derived(), other.derived()); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Matrix.h:225:24: required from ‘Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>& Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::operator=(const Eigen::DenseBase&) [with OtherDerived = Eigen::PartialReduxExpr, Eigen::internal::member_sum, 1>; _Scalar = double; int _Rows = -1; int _Cols = 1; int _Options = 0; int _MaxRows = -1; int _MaxCols = 1]’ 225 | return Base::_set(other); | ~~~~~~~~~~^~~~~~~ ../inst/include/RcppML/nmf.hpp:154:27: required from here 154 | d = w.rowwise().sum(); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:1071:54: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 1071 | PacketAlignment = unpacket_traits::alignment, | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h: In instantiation of ‘struct Eigen::internal::evaluator, -1, 1, false> >’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:780:20: required from ‘void Eigen::internal::call_dense_assignment_loop(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen::Block, -1, 1, false>; SrcXprType = Eigen::CwiseNullaryOp, Eigen::Matrix >; Functor = div_assign_op]’ 780 | DstEvaluatorType dstEvaluator(dst); | ^~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:954:31: required from ‘static void Eigen::internal::Assignment::run(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen::Block, -1, 1, false>; SrcXprType = Eigen::CwiseNullaryOp, Eigen::Matrix >; Functor = Eigen::internal::div_assign_op; Weak = void]’ 954 | call_dense_assignment_loop(dst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:890:49: required from ‘void Eigen::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen::Block, -1, 1, false>; Src = Eigen::CwiseNullaryOp, Eigen::Matrix >; Func = div_assign_op]’ 890 | Assignment::run(actualDst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:858:27: required from ‘void Eigen::internal::call_assignment(Dst&, const Src&, const Func&, typename enable_if<(! evaluator_assume_aliasing::value), void*>::type) [with Dst = Eigen::Block, -1, 1, false>; Src = Eigen::CwiseNullaryOp, Eigen::Matrix >; Func = div_assign_op; typename enable_if<(! evaluator_assume_aliasing::value), void*>::type = void*; typename evaluator_traits::Shape = Eigen::DenseShape]’ 858 | call_assignment_no_alias(dst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/SelfCwiseBinaryOp.h:41:28: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:344:23: required from ‘static Eigen::Index Eigen::internal::llt_inplace::blocked(MatrixType&) [with MatrixType = Eigen::Matrix; Scalar = double; Eigen::Index = long int]’ 344 | return unblocked(m); | ~~~~~~~~~^~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:408:68: required from ‘static bool Eigen::internal::LLT_Traits::inplace_decomposition(MatrixType&) [with MatrixType = Eigen::Matrix]’ 408 | { return llt_inplace::blocked(m)==-1; } | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:456:42: required from ‘Eigen::LLT<_MatrixType, _UpLo>& Eigen::LLT::compute(const Eigen::EigenBase&) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix; int _UpLo = 1]’ 456 | bool ok = Traits::inplace_decomposition(m_matrix); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:109:14: required from ‘Eigen::LLT::LLT(const Eigen::EigenBase&) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix; int _UpLo = 1]’ 109 | compute(matrix.derived()); | ~~~~~~~^~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:542:10: required from ‘const Eigen::LLT::PlainObject> Eigen::MatrixBase::llt() const [with Derived = Eigen::Matrix; typename Eigen::DenseBase::PlainObject = Eigen::Matrix]’ 542 | return LLT(derived()); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../inst/include/RcppML/project.hpp:123:51: required from here 123 | Eigen::LLT a_llt = a.llt(); | ~~~~~^~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:1071:54: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 1071 | PacketAlignment = unpacket_traits::alignment, | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h: In instantiation of ‘struct Eigen::internal::evaluator, -1, -1, false>, -1, 1, false> >’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:780:20: required from ‘void Eigen::internal::call_dense_assignment_loop(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen::Block, -1, -1, false>, -1, 1, false>; SrcXprType = Eigen::CwiseNullaryOp, Eigen::Matrix >; Functor = div_assign_op]’ 780 | DstEvaluatorType dstEvaluator(dst); | ^~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:954:31: required from ‘static void Eigen::internal::Assignment::run(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen::Block, -1, -1, false>, -1, 1, false>; SrcXprType = Eigen::CwiseNullaryOp, Eigen::Matrix >; Functor = Eigen::internal::div_assign_op; Weak = void]’ 954 | call_dense_assignment_loop(dst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:890:49: required from ‘void Eigen::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen::Block, -1, -1, false>, -1, 1, false>; Src = Eigen::CwiseNullaryOp, Eigen::Matrix >; Func = div_assign_op]’ 890 | Assignment::run(actualDst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:858:27: required from ‘void Eigen::internal::call_assignment(Dst&, const Src&, const Func&, typename enable_if<(! evaluator_assume_aliasing::value), void*>::type) [with Dst = Eigen::Block, -1, -1, false>, -1, 1, false>; Src = Eigen::CwiseNullaryOp, Eigen::Matrix >; Func = div_assign_op; typename enable_if<(! evaluator_assume_aliasing::value), void*>::type = void*; typename evaluator_traits::Shape = Eigen::DenseShape]’ 858 | call_assignment_no_alias(dst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/SelfCwiseBinaryOp.h:41:28: [ skipping 2 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:363:24: required from ‘static Eigen::Index Eigen::internal::llt_inplace::blocked(MatrixType&) [with MatrixType = Eigen::Matrix; Scalar = double; Eigen::Index = long int]’ 363 | if((ret=unblocked(A11))>=0) return k+ret; | ~~~~~~~~~^~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:408:68: required from ‘static bool Eigen::internal::LLT_Traits::inplace_decomposition(MatrixType&) [with MatrixType = Eigen::Matrix]’ 408 | { return llt_inplace::blocked(m)==-1; } | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:456:42: required from ‘Eigen::LLT<_MatrixType, _UpLo>& Eigen::LLT::compute(const Eigen::EigenBase&) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix; int _UpLo = 1]’ 456 | bool ok = Traits::inplace_decomposition(m_matrix); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:109:14: required from ‘Eigen::LLT::LLT(const Eigen::EigenBase&) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix; int _UpLo = 1]’ 109 | compute(matrix.derived()); | ~~~~~~~^~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:542:10: required from ‘const Eigen::LLT::PlainObject> Eigen::MatrixBase::llt() const [with Derived = Eigen::Matrix; typename Eigen::DenseBase::PlainObject = Eigen::Matrix]’ 542 | return LLT(derived()); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../inst/include/RcppML/project.hpp:123:51: required from here 123 | Eigen::LLT a_llt = a.llt(); | ~~~~~^~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:1071:54: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 1071 | PacketAlignment = unpacket_traits::alignment, | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, Eigen::Matrix >, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, Eigen::Matrix > >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, Eigen::Matrix > >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CwiseNullaryOp.h:60:7: required from ‘class Eigen::CwiseNullaryOp, Eigen::Matrix >’ 60 | class CwiseNullaryOp : public internal::dense_xpr_base< CwiseNullaryOp >::type, internal::no_assignment_operator | ^~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CwiseNullaryOp.h:347:30: required from ‘Derived& Eigen::DenseBase::setConstant(const Scalar&) [with Derived = Eigen::Matrix; Scalar = double]’ 347 | return derived() = Constant(rows(), cols(), val); | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CwiseNullaryOp.h:548:10: required from ‘Derived& Eigen::DenseBase::setZero() [with Derived = Eigen::Matrix]’ 548 | return setConstant(Scalar(0)); | ^~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/GeneralMatrixMatrixTriangular.h:171:23: [ skipping 4 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:365:64: required from ‘static Eigen::Index Eigen::internal::llt_inplace::blocked(MatrixType&) [with MatrixType = Eigen::Matrix; Scalar = double; Eigen::Index = long int]’ 365 | if(rs>0) A22.template selfadjointView().rankUpdate(A21,typename NumTraits::Literal(-1)); // bottleneck | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:408:68: required from ‘static bool Eigen::internal::LLT_Traits::inplace_decomposition(MatrixType&) [with MatrixType = Eigen::Matrix]’ 408 | { return llt_inplace::blocked(m)==-1; } | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:456:42: required from ‘Eigen::LLT<_MatrixType, _UpLo>& Eigen::LLT::compute(const Eigen::EigenBase&) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix; int _UpLo = 1]’ 456 | bool ok = Traits::inplace_decomposition(m_matrix); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:109:14: required from ‘Eigen::LLT::LLT(const Eigen::EigenBase&) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix; int _UpLo = 1]’ 109 | compute(matrix.derived()); | ~~~~~~~^~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:542:10: required from ‘const Eigen::LLT::PlainObject> Eigen::MatrixBase::llt() const [with Derived = Eigen::Matrix; typename Eigen::DenseBase::PlainObject = Eigen::Matrix]’ 542 | return LLT(derived()); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../inst/include/RcppML/project.hpp:123:51: required from here 123 | Eigen::LLT a_llt = a.llt(); | ~~~~~^~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, 0, Eigen::OuterStride<> >, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:481:7: required from ‘class Eigen::DenseCoeffsBase, 0, Eigen::OuterStride<> >, 2>’ 481 | class DenseCoeffsBase : public DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, 0, Eigen::OuterStride<> > >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, 0, Eigen::OuterStride<> > >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MapBase.h:37:34: required from ‘class Eigen::MapBase, 0, Eigen::OuterStride<> >, 0>’ 37 | template class MapBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Map.h:94:79: required from ‘class Eigen::Map, 0, Eigen::OuterStride<> >’ 94 | template class Map | ^~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/TriangularSolverVector.h:97:18: [ skipping 6 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Solve.h:147:26: required from ‘static void Eigen::internal::Assignment, Eigen::internal::assign_op, Eigen::internal::Dense2Dense>::run(DstXprType&, const SrcXprType&, const Eigen::internal::assign_op&) [with DstXprType = Eigen::Block, -1, 1, true>; DecType = Eigen::LLT, 1>; RhsType = Eigen::Matrix; Scalar = double; SrcXprType = Eigen::Solve, 1>, Eigen::Matrix >]’ 147 | src.dec()._solve_impl(src.rhs(), dst); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:890:49: required from ‘void Eigen::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen::Block, -1, 1, true>; Src = Eigen::Solve, 1>, Eigen::Matrix >; Func = assign_op]’ 890 | Assignment::run(actualDst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:858:27: required from ‘void Eigen::internal::call_assignment(Dst&, const Src&, const Func&, typename enable_if<(! evaluator_assume_aliasing::value), void*>::type) [with Dst = Eigen::Block, -1, 1, true>; Src = Eigen::Solve, 1>, Eigen::Matrix >; Func = assign_op; typename enable_if<(! evaluator_assume_aliasing::value), void*>::type = void*; typename evaluator_traits::Shape = Eigen::DenseShape]’ 858 | call_assignment_no_alias(dst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:836:18: required from ‘void Eigen::internal::call_assignment(Dst&, const Src&) [with Dst = Eigen::Block, -1, 1, true>; Src = Eigen::Solve, 1>, Eigen::Matrix >]’ 836 | call_assignment(dst, src, internal::assign_op()); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Assign.h:66:28: required from ‘Derived& Eigen::MatrixBase::operator=(const Eigen::DenseBase&) [with OtherDerived = Eigen::Solve, 1>, Eigen::Matrix >; Derived = Eigen::Block, -1, 1, true>]’ 66 | internal::call_assignment(derived(), other.derived()); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../inst/include/RcppML/project.hpp:133:33: required from here 133 | h.col(i) = a_llt.solve(b); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, 0, Eigen::Stride<0, 0> >, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:302:7: required from ‘class Eigen::DenseCoeffsBase, 0, Eigen::Stride<0, 0> >, 1>’ 302 | class DenseCoeffsBase : public DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:555:7: required from ‘class Eigen::DenseCoeffsBase, 0, Eigen::Stride<0, 0> >, 3>’ 555 | class DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, 0, Eigen::Stride<0, 0> > >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, 0, Eigen::Stride<0, 0> > >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MapBase.h:37:34: required from ‘class Eigen::MapBase, 0, Eigen::Stride<0, 0> >, 0>’ 37 | template class MapBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MapBase.h:223:34: [ skipping 8 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Solve.h:147:26: required from ‘static void Eigen::internal::Assignment, Eigen::internal::assign_op, Eigen::internal::Dense2Dense>::run(DstXprType&, const SrcXprType&, const Eigen::internal::assign_op&) [with DstXprType = Eigen::Block, -1, 1, true>; DecType = Eigen::LLT, 1>; RhsType = Eigen::Matrix; Scalar = double; SrcXprType = Eigen::Solve, 1>, Eigen::Matrix >]’ 147 | src.dec()._solve_impl(src.rhs(), dst); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:890:49: required from ‘void Eigen::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen::Block, -1, 1, true>; Src = Eigen::Solve, 1>, Eigen::Matrix >; Func = assign_op]’ 890 | Assignment::run(actualDst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:858:27: required from ‘void Eigen::internal::call_assignment(Dst&, const Src&, const Func&, typename enable_if<(! evaluator_assume_aliasing::value), void*>::type) [with Dst = Eigen::Block, -1, 1, true>; Src = Eigen::Solve, 1>, Eigen::Matrix >; Func = assign_op; typename enable_if<(! evaluator_assume_aliasing::value), void*>::type = void*; typename evaluator_traits::Shape = Eigen::DenseShape]’ 858 | call_assignment_no_alias(dst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:836:18: required from ‘void Eigen::internal::call_assignment(Dst&, const Src&) [with Dst = Eigen::Block, -1, 1, true>; Src = Eigen::Solve, 1>, Eigen::Matrix >]’ 836 | call_assignment(dst, src, internal::assign_op()); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Assign.h:66:28: required from ‘Derived& Eigen::MatrixBase::operator=(const Eigen::DenseBase&) [with OtherDerived = Eigen::Solve, 1>, Eigen::Matrix >; Derived = Eigen::Block, -1, 1, true>]’ 66 | internal::call_assignment(derived(), other.derived()); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../inst/include/RcppML/project.hpp:133:33: required from here 133 | h.col(i) = a_llt.solve(b); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, 0, Eigen::OuterStride<> >, -1, 1, true>, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:481:7: required from ‘class Eigen::DenseCoeffsBase, 0, Eigen::OuterStride<> >, -1, 1, true>, 2>’ 481 | class DenseCoeffsBase : public DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, 0, Eigen::OuterStride<> >, -1, 1, true> >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, 0, Eigen::OuterStride<> >, -1, 1, true> >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MapBase.h:37:34: required from ‘class Eigen::MapBase, 0, Eigen::OuterStride<> >, -1, 1, true>, 0>’ 37 | template class MapBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Block.h:329:7: required from ‘class Eigen::internal::BlockImpl_dense, 0, Eigen::OuterStride<> >, -1, 1, true, true>’ 329 | class BlockImpl_dense | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Block.h:154:7: [ skipping 8 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Solve.h:147:26: required from ‘static void Eigen::internal::Assignment, Eigen::internal::assign_op, Eigen::internal::Dense2Dense>::run(DstXprType&, const SrcXprType&, const Eigen::internal::assign_op&) [with DstXprType = Eigen::Block, -1, 1, true>; DecType = Eigen::LLT, 1>; RhsType = Eigen::Matrix; Scalar = double; SrcXprType = Eigen::Solve, 1>, Eigen::Matrix >]’ 147 | src.dec()._solve_impl(src.rhs(), dst); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:890:49: required from ‘void Eigen::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen::Block, -1, 1, true>; Src = Eigen::Solve, 1>, Eigen::Matrix >; Func = assign_op]’ 890 | Assignment::run(actualDst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:858:27: required from ‘void Eigen::internal::call_assignment(Dst&, const Src&, const Func&, typename enable_if<(! evaluator_assume_aliasing::value), void*>::type) [with Dst = Eigen::Block, -1, 1, true>; Src = Eigen::Solve, 1>, Eigen::Matrix >; Func = assign_op; typename enable_if<(! evaluator_assume_aliasing::value), void*>::type = void*; typename evaluator_traits::Shape = Eigen::DenseShape]’ 858 | call_assignment_no_alias(dst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:836:18: required from ‘void Eigen::internal::call_assignment(Dst&, const Src&) [with Dst = Eigen::Block, -1, 1, true>; Src = Eigen::Solve, 1>, Eigen::Matrix >]’ 836 | call_assignment(dst, src, internal::assign_op()); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Assign.h:66:28: required from ‘Derived& Eigen::MatrixBase::operator=(const Eigen::DenseBase&) [with OtherDerived = Eigen::Solve, 1>, Eigen::Matrix >; Derived = Eigen::Block, -1, 1, true>]’ 66 | internal::call_assignment(derived(), other.derived()); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../inst/include/RcppML/project.hpp:133:33: required from here 133 | h.col(i) = a_llt.solve(b); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, 0, Eigen::OuterStride<> >, -1, 1, true>, -1, 1, false>, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:481:7: required from ‘class Eigen::DenseCoeffsBase, 0, Eigen::OuterStride<> >, -1, 1, true>, -1, 1, false>, 2>’ 481 | class DenseCoeffsBase : public DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, 0, Eigen::OuterStride<> >, -1, 1, true>, -1, 1, false> >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, 0, Eigen::OuterStride<> >, -1, 1, true>, -1, 1, false> >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MapBase.h:37:34: required from ‘class Eigen::MapBase, 0, Eigen::OuterStride<> >, -1, 1, true>, -1, 1, false>, 0>’ 37 | template class MapBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Block.h:329:7: required from ‘class Eigen::internal::BlockImpl_dense, 0, Eigen::OuterStride<> >, -1, 1, true>, -1, 1, false, true>’ 329 | class BlockImpl_dense | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Block.h:154:7: [ skipping 9 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Solve.h:147:26: required from ‘static void Eigen::internal::Assignment, Eigen::internal::assign_op, Eigen::internal::Dense2Dense>::run(DstXprType&, const SrcXprType&, const Eigen::internal::assign_op&) [with DstXprType = Eigen::Block, -1, 1, true>; DecType = Eigen::LLT, 1>; RhsType = Eigen::Matrix; Scalar = double; SrcXprType = Eigen::Solve, 1>, Eigen::Matrix >]’ 147 | src.dec()._solve_impl(src.rhs(), dst); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:890:49: required from ‘void Eigen::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen::Block, -1, 1, true>; Src = Eigen::Solve, 1>, Eigen::Matrix >; Func = assign_op]’ 890 | Assignment::run(actualDst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:858:27: required from ‘void Eigen::internal::call_assignment(Dst&, const Src&, const Func&, typename enable_if<(! evaluator_assume_aliasing::value), void*>::type) [with Dst = Eigen::Block, -1, 1, true>; Src = Eigen::Solve, 1>, Eigen::Matrix >; Func = assign_op; typename enable_if<(! evaluator_assume_aliasing::value), void*>::type = void*; typename evaluator_traits::Shape = Eigen::DenseShape]’ 858 | call_assignment_no_alias(dst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:836:18: required from ‘void Eigen::internal::call_assignment(Dst&, const Src&) [with Dst = Eigen::Block, -1, 1, true>; Src = Eigen::Solve, 1>, Eigen::Matrix >]’ 836 | call_assignment(dst, src, internal::assign_op()); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Assign.h:66:28: required from ‘Derived& Eigen::MatrixBase::operator=(const Eigen::DenseBase&) [with OtherDerived = Eigen::Solve, 1>, Eigen::Matrix >; Derived = Eigen::Block, -1, 1, true>]’ 66 | internal::call_assignment(derived(), other.derived()); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../inst/include/RcppML/project.hpp:133:33: required from here 133 | h.col(i) = a_llt.solve(b); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Block, 0, Eigen::OuterStride<> >, -1, 1, true>, -1, 1, false> >, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Block, 0, Eigen::OuterStride<> >, -1, 1, true>, -1, 1, false> > >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Block, 0, Eigen::OuterStride<> >, -1, 1, true>, -1, 1, false> > >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CwiseBinaryOp.h:148:7: required from ‘class Eigen::CwiseBinaryOpImpl, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Block, 0, Eigen::OuterStride<> >, -1, 1, true>, -1, 1, false>, Eigen::Dense>’ 148 | class CwiseBinaryOpImpl | ^~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CwiseBinaryOp.h:77:7: required from ‘class Eigen::CwiseBinaryOp, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Block, 0, Eigen::OuterStride<> >, -1, 1, true>, -1, 1, false> >’ 77 | class CwiseBinaryOp : | ^~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/TriangularSolverVector.h:125:66: required from ‘static void Eigen::internal::triangular_solve_vector::run(Index, const LhsScalar*, Index, RhsScalar*) [with LhsScalar = double; RhsScalar = double; Index = long int; int Mode = 1; bool Conjugate = false]’ 125 | Map >(rhs+s,r) -= rhs[i] * cjLhs.col(i).segment(s,r); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/SolveTriangular.h:73:12: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Solve.h:147:26: required from ‘static void Eigen::internal::Assignment, Eigen::internal::assign_op, Eigen::internal::Dense2Dense>::run(DstXprType&, const SrcXprType&, const Eigen::internal::assign_op&) [with DstXprType = Eigen::Block, -1, 1, true>; DecType = Eigen::LLT, 1>; RhsType = Eigen::Matrix; Scalar = double; SrcXprType = Eigen::Solve, 1>, Eigen::Matrix >]’ 147 | src.dec()._solve_impl(src.rhs(), dst); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:890:49: required from ‘void Eigen::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen::Block, -1, 1, true>; Src = Eigen::Solve, 1>, Eigen::Matrix >; Func = assign_op]’ 890 | Assignment::run(actualDst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:858:27: required from ‘void Eigen::internal::call_assignment(Dst&, const Src&, const Func&, typename enable_if<(! evaluator_assume_aliasing::value), void*>::type) [with Dst = Eigen::Block, -1, 1, true>; Src = Eigen::Solve, 1>, Eigen::Matrix >; Func = assign_op; typename enable_if<(! evaluator_assume_aliasing::value), void*>::type = void*; typename evaluator_traits::Shape = Eigen::DenseShape]’ 858 | call_assignment_no_alias(dst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:836:18: required from ‘void Eigen::internal::call_assignment(Dst&, const Src&) [with Dst = Eigen::Block, -1, 1, true>; Src = Eigen::Solve, 1>, Eigen::Matrix >]’ 836 | call_assignment(dst, src, internal::assign_op()); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Assign.h:66:28: required from ‘Derived& Eigen::MatrixBase::operator=(const Eigen::DenseBase&) [with OtherDerived = Eigen::Solve, 1>, Eigen::Matrix >; Derived = Eigen::Block, -1, 1, true>]’ 66 | internal::call_assignment(derived(), other.derived()); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../inst/include/RcppML/project.hpp:133:33: required from here 133 | h.col(i) = a_llt.solve(b); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:302:7: required from ‘class Eigen::DenseCoeffsBase, 1>’ 302 | class DenseCoeffsBase : public DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:555:7: required from ‘class Eigen::DenseCoeffsBase, 3>’ 555 | class DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:98:7: required from ‘class Eigen::PlainObjectBase >’ 98 | class PlainObjectBase : public internal::dense_xpr_base::type | ^~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Matrix.h:178:7: [ skipping 10 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Solve.h:147:26: required from ‘static void Eigen::internal::Assignment, Eigen::internal::assign_op, Eigen::internal::Dense2Dense>::run(DstXprType&, const SrcXprType&, const Eigen::internal::assign_op&) [with DstXprType = Eigen::Block, -1, 1, true>; DecType = Eigen::LLT, 1>; RhsType = Eigen::Matrix; Scalar = double; SrcXprType = Eigen::Solve, 1>, Eigen::Matrix >]’ 147 | src.dec()._solve_impl(src.rhs(), dst); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:890:49: required from ‘void Eigen::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen::Block, -1, 1, true>; Src = Eigen::Solve, 1>, Eigen::Matrix >; Func = assign_op]’ 890 | Assignment::run(actualDst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:858:27: required from ‘void Eigen::internal::call_assignment(Dst&, const Src&, const Func&, typename enable_if<(! evaluator_assume_aliasing::value), void*>::type) [with Dst = Eigen::Block, -1, 1, true>; Src = Eigen::Solve, 1>, Eigen::Matrix >; Func = assign_op; typename enable_if<(! evaluator_assume_aliasing::value), void*>::type = void*; typename evaluator_traits::Shape = Eigen::DenseShape]’ 858 | call_assignment_no_alias(dst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:836:18: required from ‘void Eigen::internal::call_assignment(Dst&, const Src&) [with Dst = Eigen::Block, -1, 1, true>; Src = Eigen::Solve, 1>, Eigen::Matrix >]’ 836 | call_assignment(dst, src, internal::assign_op()); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Assign.h:66:28: required from ‘Derived& Eigen::MatrixBase::operator=(const Eigen::DenseBase&) [with OtherDerived = Eigen::Solve, 1>, Eigen::Matrix >; Derived = Eigen::Block, -1, 1, true>]’ 66 | internal::call_assignment(derived(), other.derived()); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../inst/include/RcppML/project.hpp:133:33: required from here 133 | h.col(i) = a_llt.solve(b); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, 0, Eigen::OuterStride<> >, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:481:7: required from ‘class Eigen::DenseCoeffsBase, 0, Eigen::OuterStride<> >, 2>’ 481 | class DenseCoeffsBase : public DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, 0, Eigen::OuterStride<> > >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, 0, Eigen::OuterStride<> > >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MapBase.h:37:34: required from ‘class Eigen::MapBase, 0, Eigen::OuterStride<> >, 0>’ 37 | template class MapBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Map.h:94:79: required from ‘class Eigen::Map, 0, Eigen::OuterStride<> >’ 94 | template class Map | ^~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/TriangularSolverVector.h:39:18: [ skipping 6 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Solve.h:147:26: required from ‘static void Eigen::internal::Assignment, Eigen::internal::assign_op, Eigen::internal::Dense2Dense>::run(DstXprType&, const SrcXprType&, const Eigen::internal::assign_op&) [with DstXprType = Eigen::Block, -1, 1, true>; DecType = Eigen::LLT, 1>; RhsType = Eigen::Matrix; Scalar = double; SrcXprType = Eigen::Solve, 1>, Eigen::Matrix >]’ 147 | src.dec()._solve_impl(src.rhs(), dst); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:890:49: required from ‘void Eigen::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen::Block, -1, 1, true>; Src = Eigen::Solve, 1>, Eigen::Matrix >; Func = assign_op]’ 890 | Assignment::run(actualDst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:858:27: required from ‘void Eigen::internal::call_assignment(Dst&, const Src&, const Func&, typename enable_if<(! evaluator_assume_aliasing::value), void*>::type) [with Dst = Eigen::Block, -1, 1, true>; Src = Eigen::Solve, 1>, Eigen::Matrix >; Func = assign_op; typename enable_if<(! evaluator_assume_aliasing::value), void*>::type = void*; typename evaluator_traits::Shape = Eigen::DenseShape]’ 858 | call_assignment_no_alias(dst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:836:18: required from ‘void Eigen::internal::call_assignment(Dst&, const Src&) [with Dst = Eigen::Block, -1, 1, true>; Src = Eigen::Solve, 1>, Eigen::Matrix >]’ 836 | call_assignment(dst, src, internal::assign_op()); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Assign.h:66:28: required from ‘Derived& Eigen::MatrixBase::operator=(const Eigen::DenseBase&) [with OtherDerived = Eigen::Solve, 1>, Eigen::Matrix >; Derived = Eigen::Block, -1, 1, true>]’ 66 | internal::call_assignment(derived(), other.derived()); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../inst/include/RcppML/project.hpp:133:33: required from here 133 | h.col(i) = a_llt.solve(b); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, 0, Eigen::OuterStride<> >, 1, -1, true>, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:481:7: required from ‘class Eigen::DenseCoeffsBase, 0, Eigen::OuterStride<> >, 1, -1, true>, 2>’ 481 | class DenseCoeffsBase : public DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, 0, Eigen::OuterStride<> >, 1, -1, true> >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, 0, Eigen::OuterStride<> >, 1, -1, true> >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MapBase.h:37:34: required from ‘class Eigen::MapBase, 0, Eigen::OuterStride<> >, 1, -1, true>, 0>’ 37 | template class MapBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Block.h:329:7: required from ‘class Eigen::internal::BlockImpl_dense, 0, Eigen::OuterStride<> >, 1, -1, true, true>’ 329 | class BlockImpl_dense | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Block.h:154:7: [ skipping 8 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Solve.h:147:26: required from ‘static void Eigen::internal::Assignment, Eigen::internal::assign_op, Eigen::internal::Dense2Dense>::run(DstXprType&, const SrcXprType&, const Eigen::internal::assign_op&) [with DstXprType = Eigen::Block, -1, 1, true>; DecType = Eigen::LLT, 1>; RhsType = Eigen::Matrix; Scalar = double; SrcXprType = Eigen::Solve, 1>, Eigen::Matrix >]’ 147 | src.dec()._solve_impl(src.rhs(), dst); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:890:49: required from ‘void Eigen::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen::Block, -1, 1, true>; Src = Eigen::Solve, 1>, Eigen::Matrix >; Func = assign_op]’ 890 | Assignment::run(actualDst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:858:27: required from ‘void Eigen::internal::call_assignment(Dst&, const Src&, const Func&, typename enable_if<(! evaluator_assume_aliasing::value), void*>::type) [with Dst = Eigen::Block, -1, 1, true>; Src = Eigen::Solve, 1>, Eigen::Matrix >; Func = assign_op; typename enable_if<(! evaluator_assume_aliasing::value), void*>::type = void*; typename evaluator_traits::Shape = Eigen::DenseShape]’ 858 | call_assignment_no_alias(dst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:836:18: required from ‘void Eigen::internal::call_assignment(Dst&, const Src&) [with Dst = Eigen::Block, -1, 1, true>; Src = Eigen::Solve, 1>, Eigen::Matrix >]’ 836 | call_assignment(dst, src, internal::assign_op()); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Assign.h:66:28: required from ‘Derived& Eigen::MatrixBase::operator=(const Eigen::DenseBase&) [with OtherDerived = Eigen::Solve, 1>, Eigen::Matrix >; Derived = Eigen::Block, -1, 1, true>]’ 66 | internal::call_assignment(derived(), other.derived()); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../inst/include/RcppML/project.hpp:133:33: required from here 133 | h.col(i) = a_llt.solve(b); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, 0, Eigen::OuterStride<> >, 1, -1, true>, 1, -1, false>, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:481:7: required from ‘class Eigen::DenseCoeffsBase, 0, Eigen::OuterStride<> >, 1, -1, true>, 1, -1, false>, 2>’ 481 | class DenseCoeffsBase : public DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, 0, Eigen::OuterStride<> >, 1, -1, true>, 1, -1, false> >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, 0, Eigen::OuterStride<> >, 1, -1, true>, 1, -1, false> >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MapBase.h:37:34: required from ‘class Eigen::MapBase, 0, Eigen::OuterStride<> >, 1, -1, true>, 1, -1, false>, 0>’ 37 | template class MapBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Block.h:329:7: required from ‘class Eigen::internal::BlockImpl_dense, 0, Eigen::OuterStride<> >, 1, -1, true>, 1, -1, false, true>’ 329 | class BlockImpl_dense | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Block.h:154:7: [ skipping 9 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Solve.h:147:26: required from ‘static void Eigen::internal::Assignment, Eigen::internal::assign_op, Eigen::internal::Dense2Dense>::run(DstXprType&, const SrcXprType&, const Eigen::internal::assign_op&) [with DstXprType = Eigen::Block, -1, 1, true>; DecType = Eigen::LLT, 1>; RhsType = Eigen::Matrix; Scalar = double; SrcXprType = Eigen::Solve, 1>, Eigen::Matrix >]’ 147 | src.dec()._solve_impl(src.rhs(), dst); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:890:49: required from ‘void Eigen::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen::Block, -1, 1, true>; Src = Eigen::Solve, 1>, Eigen::Matrix >; Func = assign_op]’ 890 | Assignment::run(actualDst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:858:27: required from ‘void Eigen::internal::call_assignment(Dst&, const Src&, const Func&, typename enable_if<(! evaluator_assume_aliasing::value), void*>::type) [with Dst = Eigen::Block, -1, 1, true>; Src = Eigen::Solve, 1>, Eigen::Matrix >; Func = assign_op; typename enable_if<(! evaluator_assume_aliasing::value), void*>::type = void*; typename evaluator_traits::Shape = Eigen::DenseShape]’ 858 | call_assignment_no_alias(dst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:836:18: required from ‘void Eigen::internal::call_assignment(Dst&, const Src&) [with Dst = Eigen::Block, -1, 1, true>; Src = Eigen::Solve, 1>, Eigen::Matrix >]’ 836 | call_assignment(dst, src, internal::assign_op()); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Assign.h:66:28: required from ‘Derived& Eigen::MatrixBase::operator=(const Eigen::DenseBase&) [with OtherDerived = Eigen::Solve, 1>, Eigen::Matrix >; Derived = Eigen::Block, -1, 1, true>]’ 66 | internal::call_assignment(derived(), other.derived()); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../inst/include/RcppML/project.hpp:133:33: required from here 133 | h.col(i) = a_llt.solve(b); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, 0, Eigen::OuterStride<> >, 1, -1, true>, 1, -1, false> >, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:481:7: required from ‘class Eigen::DenseCoeffsBase, 0, Eigen::OuterStride<> >, 1, -1, true>, 1, -1, false> >, 2>’ 481 | class DenseCoeffsBase : public DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, 0, Eigen::OuterStride<> >, 1, -1, true>, 1, -1, false> > >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, 0, Eigen::OuterStride<> >, 1, -1, true>, 1, -1, false> > >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Transpose.h:118:37: required from ‘class Eigen::TransposeImpl, 0, Eigen::OuterStride<> >, 1, -1, true>, 1, -1, false>, Eigen::Dense>’ 118 | template class TransposeImpl | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Transpose.h:52:37: required from ‘class Eigen::Transpose, 0, Eigen::OuterStride<> >, 1, -1, true>, 1, -1, false> >’ 52 | template class Transpose | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/TriangularSolverVector.h:78:57: [ skipping 6 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Solve.h:147:26: required from ‘static void Eigen::internal::Assignment, Eigen::internal::assign_op, Eigen::internal::Dense2Dense>::run(DstXprType&, const SrcXprType&, const Eigen::internal::assign_op&) [with DstXprType = Eigen::Block, -1, 1, true>; DecType = Eigen::LLT, 1>; RhsType = Eigen::Matrix; Scalar = double; SrcXprType = Eigen::Solve, 1>, Eigen::Matrix >]’ 147 | src.dec()._solve_impl(src.rhs(), dst); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:890:49: required from ‘void Eigen::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen::Block, -1, 1, true>; Src = Eigen::Solve, 1>, Eigen::Matrix >; Func = assign_op]’ 890 | Assignment::run(actualDst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:858:27: required from ‘void Eigen::internal::call_assignment(Dst&, const Src&, const Func&, typename enable_if<(! evaluator_assume_aliasing::value), void*>::type) [with Dst = Eigen::Block, -1, 1, true>; Src = Eigen::Solve, 1>, Eigen::Matrix >; Func = assign_op; typename enable_if<(! evaluator_assume_aliasing::value), void*>::type = void*; typename evaluator_traits::Shape = Eigen::DenseShape]’ 858 | call_assignment_no_alias(dst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:836:18: required from ‘void Eigen::internal::call_assignment(Dst&, const Src&) [with Dst = Eigen::Block, -1, 1, true>; Src = Eigen::Solve, 1>, Eigen::Matrix >]’ 836 | call_assignment(dst, src, internal::assign_op()); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Assign.h:66:28: required from ‘Derived& Eigen::MatrixBase::operator=(const Eigen::DenseBase&) [with OtherDerived = Eigen::Solve, 1>, Eigen::Matrix >; Derived = Eigen::Block, -1, 1, true>]’ 66 | internal::call_assignment(derived(), other.derived()); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../inst/include/RcppML/project.hpp:133:33: required from here 133 | h.col(i) = a_llt.solve(b); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, 0, Eigen::Stride<0, 0> >, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:481:7: required from ‘class Eigen::DenseCoeffsBase, 0, Eigen::Stride<0, 0> >, 2>’ 481 | class DenseCoeffsBase : public DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, 0, Eigen::Stride<0, 0> > >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, 0, Eigen::Stride<0, 0> > >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MapBase.h:37:34: required from ‘class Eigen::MapBase, 0, Eigen::Stride<0, 0> >, 0>’ 37 | template class MapBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Map.h:94:79: required from ‘class Eigen::Map, 0, Eigen::Stride<0, 0> >’ 94 | template class Map | ^~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/TriangularSolverVector.h:78:73: [ skipping 6 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Solve.h:147:26: required from ‘static void Eigen::internal::Assignment, Eigen::internal::assign_op, Eigen::internal::Dense2Dense>::run(DstXprType&, const SrcXprType&, const Eigen::internal::assign_op&) [with DstXprType = Eigen::Block, -1, 1, true>; DecType = Eigen::LLT, 1>; RhsType = Eigen::Matrix; Scalar = double; SrcXprType = Eigen::Solve, 1>, Eigen::Matrix >]’ 147 | src.dec()._solve_impl(src.rhs(), dst); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:890:49: required from ‘void Eigen::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen::Block, -1, 1, true>; Src = Eigen::Solve, 1>, Eigen::Matrix >; Func = assign_op]’ 890 | Assignment::run(actualDst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:858:27: required from ‘void Eigen::internal::call_assignment(Dst&, const Src&, const Func&, typename enable_if<(! evaluator_assume_aliasing::value), void*>::type) [with Dst = Eigen::Block, -1, 1, true>; Src = Eigen::Solve, 1>, Eigen::Matrix >; Func = assign_op; typename enable_if<(! evaluator_assume_aliasing::value), void*>::type = void*; typename evaluator_traits::Shape = Eigen::DenseShape]’ 858 | call_assignment_no_alias(dst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:836:18: required from ‘void Eigen::internal::call_assignment(Dst&, const Src&) [with Dst = Eigen::Block, -1, 1, true>; Src = Eigen::Solve, 1>, Eigen::Matrix >]’ 836 | call_assignment(dst, src, internal::assign_op()); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Assign.h:66:28: required from ‘Derived& Eigen::MatrixBase::operator=(const Eigen::DenseBase&) [with OtherDerived = Eigen::Solve, 1>, Eigen::Matrix >; Derived = Eigen::Block, -1, 1, true>]’ 66 | internal::call_assignment(derived(), other.derived()); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../inst/include/RcppML/project.hpp:133:33: required from here 133 | h.col(i) = a_llt.solve(b); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, const Eigen::Transpose, 0, Eigen::OuterStride<> >, 1, -1, true>, 1, -1, false> >, const Eigen::Map, 0, Eigen::Stride<0, 0> > >, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, const Eigen::Transpose, 0, Eigen::OuterStride<> >, 1, -1, true>, 1, -1, false> >, const Eigen::Map, 0, Eigen::Stride<0, 0> > > >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, const Eigen::Transpose, 0, Eigen::OuterStride<> >, 1, -1, true>, 1, -1, false> >, const Eigen::Map, 0, Eigen::Stride<0, 0> > > >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CwiseBinaryOp.h:148:7: required from ‘class Eigen::CwiseBinaryOpImpl, const Eigen::Transpose, 0, Eigen::OuterStride<> >, 1, -1, true>, 1, -1, false> >, const Eigen::Map, 0, Eigen::Stride<0, 0> >, Eigen::Dense>’ 148 | class CwiseBinaryOpImpl | ^~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CwiseBinaryOp.h:77:7: required from ‘class Eigen::CwiseBinaryOp, const Eigen::Transpose, 0, Eigen::OuterStride<> >, 1, -1, true>, 1, -1, false> >, const Eigen::Map, 0, Eigen::Stride<0, 0> > >’ 77 | class CwiseBinaryOp : | ^~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/TriangularSolverVector.h:78:72: required from ‘static void Eigen::internal::triangular_solve_vector::run(Index, const LhsScalar*, Index, RhsScalar*) [with LhsScalar = double; RhsScalar = double; Index = long int; int Mode = 2; bool Conjugate = false]’ 78 | rhs[i] -= (cjLhs.row(i).segment(s,k).transpose().cwiseProduct(Map >(rhs+s,k))).sum(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/SolveTriangular.h:73:12: [ skipping 5 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Solve.h:147:26: required from ‘static void Eigen::internal::Assignment, Eigen::internal::assign_op, Eigen::internal::Dense2Dense>::run(DstXprType&, const SrcXprType&, const Eigen::internal::assign_op&) [with DstXprType = Eigen::Block, -1, 1, true>; DecType = Eigen::LLT, 1>; RhsType = Eigen::Matrix; Scalar = double; SrcXprType = Eigen::Solve, 1>, Eigen::Matrix >]’ 147 | src.dec()._solve_impl(src.rhs(), dst); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:890:49: required from ‘void Eigen::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen::Block, -1, 1, true>; Src = Eigen::Solve, 1>, Eigen::Matrix >; Func = assign_op]’ 890 | Assignment::run(actualDst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:858:27: required from ‘void Eigen::internal::call_assignment(Dst&, const Src&, const Func&, typename enable_if<(! evaluator_assume_aliasing::value), void*>::type) [with Dst = Eigen::Block, -1, 1, true>; Src = Eigen::Solve, 1>, Eigen::Matrix >; Func = assign_op; typename enable_if<(! evaluator_assume_aliasing::value), void*>::type = void*; typename evaluator_traits::Shape = Eigen::DenseShape]’ 858 | call_assignment_no_alias(dst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:836:18: required from ‘void Eigen::internal::call_assignment(Dst&, const Src&) [with Dst = Eigen::Block, -1, 1, true>; Src = Eigen::Solve, 1>, Eigen::Matrix >]’ 836 | call_assignment(dst, src, internal::assign_op()); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Assign.h:66:28: required from ‘Derived& Eigen::MatrixBase::operator=(const Eigen::DenseBase&) [with OtherDerived = Eigen::Solve, 1>, Eigen::Matrix >; Derived = Eigen::Block, -1, 1, true>]’ 66 | internal::call_assignment(derived(), other.derived()); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../inst/include/RcppML/project.hpp:133:33: required from here 133 | h.col(i) = a_llt.solve(b); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h: In instantiation of ‘struct Eigen::internal::evaluator >, -1, 1, false>, -1, 1, true> >’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:100:8: required from ‘struct Eigen::internal::evaluator >, -1, 1, false>, -1, 1, true> >’ 100 | struct evaluator | ^~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:739:78: required from ‘struct Eigen::internal::binary_evaluator, const Eigen::Transpose, 1, -1, false> >, const Eigen::Block >, -1, 1, false>, -1, 1, true> >, Eigen::internal::IndexBased, Eigen::internal::IndexBased, double, double>’ 739 | CoeffReadCost = int(evaluator::CoeffReadCost) + int(evaluator::CoeffReadCost) + int(functor_traits::Cost), | ^~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:722:8: required from ‘struct Eigen::internal::evaluator, const Eigen::Transpose, 1, -1, false> >, const Eigen::Block >, -1, 1, false>, -1, 1, true> > >’ 722 | struct evaluator > | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Redux.h:357:7: required from ‘class Eigen::internal::redux_evaluator, const Eigen::Transpose, 1, -1, false> >, const Eigen::Block >, -1, 1, false>, -1, 1, true> > >’ 357 | class redux_evaluator : public internal::evaluator<_XprType> | ^~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Redux.h:414:17: required from ‘typename Eigen::internal::traits::Scalar Eigen::DenseBase::redux(const Func&) const [with BinaryOp = Eigen::internal::scalar_sum_op; Derived = Eigen::CwiseBinaryOp, const Eigen::Transpose, 1, -1, false> >, const Eigen::Block >, -1, 1, false>, -1, 1, true> >; typename Eigen::internal::traits::Scalar = double]’ 414 | ThisEvaluator thisEval(derived()); | ^~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Redux.h:463:25: [ skipping 6 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:148:43: required from ‘static void Eigen::internal::Assignment, Eigen::internal::assign_op, Eigen::internal::Dense2Dense, typename Eigen::internal::enable_if<((Options == Eigen::DefaultProduct) || (Options == Eigen::AliasFreeProduct))>::type>::run(DstXprType&, const SrcXprType&, const Eigen::internal::assign_op&) [with DstXprType = Eigen::Matrix; Lhs = Eigen::Matrix; Rhs = Eigen::Transpose >; int Options = 0; Scalar = double; SrcXprType = Eigen::Product, Eigen::Transpose >, 0>]’ 148 | generic_product_impl::evalTo(dst, src.lhs(), src.rhs()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:890:49: required from ‘void Eigen::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen::Matrix; Src = Eigen::Product, Eigen::Transpose >, 0>; Func = assign_op]’ 890 | Assignment::run(actualDst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:797:41: required from ‘Derived& Eigen::PlainObjectBase::_set_noalias(const Eigen::DenseBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; Derived = Eigen::Matrix]’ 797 | internal::call_assignment_no_alias(this->derived(), other.derived(), internal::assign_op()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:594:19: required from ‘Eigen::PlainObjectBase::PlainObjectBase(const Eigen::DenseBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; Derived = Eigen::Matrix]’ 594 | _set_noalias(other); | ~~~~~~~~~~~~^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Matrix.h:423:29: required from ‘Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::Matrix(const Eigen::EigenBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; _Scalar = double; int _Rows = 2; int _Cols = 2; int _Options = 0; int _MaxRows = 2; int _MaxCols = 2]’ 423 | : Base(other.derived()) | ^ ../inst/include/RcppML/project.hpp:106:41: required from here 106 | Eigen::Matrix2d a = w * w.transpose(); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:1071:54: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 1071 | PacketAlignment = unpacket_traits::alignment, | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h: In instantiation of ‘struct Eigen::internal::evaluator, 1, -1, false>, 1, -1, true> >’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:100:8: required from ‘struct Eigen::internal::evaluator, 1, -1, false>, 1, -1, true> >’ 100 | struct evaluator | ^~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:311:41: required from ‘struct Eigen::internal::unary_evaluator, 1, -1, false>, 1, -1, true> >, Eigen::internal::IndexBased, double>’ 311 | CoeffReadCost = evaluator::CoeffReadCost, | ^~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:90:8: required from ‘struct Eigen::internal::evaluator, 1, -1, false>, 1, -1, true> > >’ 90 | struct evaluator : public unary_evaluator | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:100:8: required from ‘struct Eigen::internal::evaluator, 1, -1, false>, 1, -1, true> > >’ 100 | struct evaluator | ^~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:739:41: required from ‘struct Eigen::internal::binary_evaluator, const Eigen::Transpose, 1, -1, false>, 1, -1, true> >, const Eigen::Block >, -1, 1, false> >, Eigen::internal::IndexBased, Eigen::internal::IndexBased, double, double>’ 739 | CoeffReadCost = int(evaluator::CoeffReadCost) + int(evaluator::CoeffReadCost) + int(functor_traits::Cost), | ^~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:722:8: [ skipping 9 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:148:43: required from ‘static void Eigen::internal::Assignment, Eigen::internal::assign_op, Eigen::internal::Dense2Dense, typename Eigen::internal::enable_if<((Options == Eigen::DefaultProduct) || (Options == Eigen::AliasFreeProduct))>::type>::run(DstXprType&, const SrcXprType&, const Eigen::internal::assign_op&) [with DstXprType = Eigen::Matrix; Lhs = Eigen::Matrix; Rhs = Eigen::Transpose >; int Options = 0; Scalar = double; SrcXprType = Eigen::Product, Eigen::Transpose >, 0>]’ 148 | generic_product_impl::evalTo(dst, src.lhs(), src.rhs()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:890:49: required from ‘void Eigen::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen::Matrix; Src = Eigen::Product, Eigen::Transpose >, 0>; Func = assign_op]’ 890 | Assignment::run(actualDst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:797:41: required from ‘Derived& Eigen::PlainObjectBase::_set_noalias(const Eigen::DenseBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; Derived = Eigen::Matrix]’ 797 | internal::call_assignment_no_alias(this->derived(), other.derived(), internal::assign_op()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:594:19: required from ‘Eigen::PlainObjectBase::PlainObjectBase(const Eigen::DenseBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; Derived = Eigen::Matrix]’ 594 | _set_noalias(other); | ~~~~~~~~~~~~^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Matrix.h:423:29: required from ‘Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::Matrix(const Eigen::EigenBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; _Scalar = double; int _Rows = 2; int _Cols = 2; int _Options = 0; int _MaxRows = 2; int _MaxCols = 2]’ 423 | : Base(other.derived()) | ^ ../inst/include/RcppML/project.hpp:106:41: required from here 106 | Eigen::Matrix2d a = w * w.transpose(); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:1071:54: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 1071 | PacketAlignment = unpacket_traits::alignment, | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, -1, -1, false>, 1, -1, false>, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:481:7: required from ‘class Eigen::DenseCoeffsBase, -1, -1, false>, 1, -1, false>, 2>’ 481 | class DenseCoeffsBase : public DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, -1, -1, false>, 1, -1, false> >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, -1, -1, false>, 1, -1, false> >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MapBase.h:37:34: required from ‘class Eigen::MapBase, -1, -1, false>, 1, -1, false>, 0>’ 37 | template class MapBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Block.h:329:7: required from ‘class Eigen::internal::BlockImpl_dense, -1, -1, false>, 1, -1, false, true>’ 329 | class BlockImpl_dense | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Block.h:154:7: [ skipping 9 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:344:23: required from ‘static Eigen::Index Eigen::internal::llt_inplace::blocked(MatrixType&) [with MatrixType = Eigen::Matrix; Scalar = double; Eigen::Index = long int]’ 344 | return unblocked(m); | ~~~~~~~~~^~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:408:68: required from ‘static bool Eigen::internal::LLT_Traits::inplace_decomposition(MatrixType&) [with MatrixType = Eigen::Matrix]’ 408 | { return llt_inplace::blocked(m)==-1; } | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:456:42: required from ‘Eigen::LLT<_MatrixType, _UpLo>& Eigen::LLT::compute(const Eigen::EigenBase&) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix; int _UpLo = 1]’ 456 | bool ok = Traits::inplace_decomposition(m_matrix); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:109:14: required from ‘Eigen::LLT::LLT(const Eigen::EigenBase&) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix; int _UpLo = 1]’ 109 | compute(matrix.derived()); | ~~~~~~~^~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:542:10: required from ‘const Eigen::LLT::PlainObject> Eigen::MatrixBase::llt() const [with Derived = Eigen::Matrix; typename Eigen::DenseBase::PlainObject = Eigen::Matrix]’ 542 | return LLT(derived()); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../inst/include/RcppML/project.hpp:123:51: required from here 123 | Eigen::LLT a_llt = a.llt(); | ~~~~~^~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, 1, -1, false> >, -1, 1, true>, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:481:7: required from ‘class Eigen::DenseCoeffsBase, 1, -1, false> >, -1, 1, true>, 2>’ 481 | class DenseCoeffsBase : public DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, 1, -1, false> >, -1, 1, true> >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, 1, -1, false> >, -1, 1, true> >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MapBase.h:37:34: required from ‘class Eigen::MapBase, 1, -1, false> >, -1, 1, true>, 0>’ 37 | template class MapBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Block.h:329:7: required from ‘class Eigen::internal::BlockImpl_dense, 1, -1, false> >, -1, 1, true, true>’ 329 | class BlockImpl_dense | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Block.h:154:7: [ skipping 9 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:344:23: required from ‘static Eigen::Index Eigen::internal::llt_inplace::blocked(MatrixType&) [with MatrixType = Eigen::Matrix; Scalar = double; Eigen::Index = long int]’ 344 | return unblocked(m); | ~~~~~~~~~^~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:408:68: required from ‘static bool Eigen::internal::LLT_Traits::inplace_decomposition(MatrixType&) [with MatrixType = Eigen::Matrix]’ 408 | { return llt_inplace::blocked(m)==-1; } | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:456:42: required from ‘Eigen::LLT<_MatrixType, _UpLo>& Eigen::LLT::compute(const Eigen::EigenBase&) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix; int _UpLo = 1]’ 456 | bool ok = Traits::inplace_decomposition(m_matrix); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:109:14: required from ‘Eigen::LLT::LLT(const Eigen::EigenBase&) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix; int _UpLo = 1]’ 109 | compute(matrix.derived()); | ~~~~~~~^~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:542:10: required from ‘const Eigen::LLT::PlainObject> Eigen::MatrixBase::llt() const [with Derived = Eigen::Matrix; typename Eigen::DenseBase::PlainObject = Eigen::Matrix]’ 542 | return LLT(derived()); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../inst/include/RcppML/project.hpp:123:51: required from here 123 | Eigen::LLT a_llt = a.llt(); | ~~~~~^~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, -1, -1, false>, -1, -1, false>, 1, -1, false>, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:481:7: required from ‘class Eigen::DenseCoeffsBase, -1, -1, false>, -1, -1, false>, 1, -1, false>, 2>’ 481 | class DenseCoeffsBase : public DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, -1, -1, false>, -1, -1, false>, 1, -1, false> >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, -1, -1, false>, -1, -1, false>, 1, -1, false> >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MapBase.h:37:34: required from ‘class Eigen::MapBase, -1, -1, false>, -1, -1, false>, 1, -1, false>, 0>’ 37 | template class MapBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Block.h:329:7: required from ‘class Eigen::internal::BlockImpl_dense, -1, -1, false>, -1, -1, false>, 1, -1, false, true>’ 329 | class BlockImpl_dense | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Block.h:154:7: [ skipping 9 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:363:24: required from ‘static Eigen::Index Eigen::internal::llt_inplace::blocked(MatrixType&) [with MatrixType = Eigen::Matrix; Scalar = double; Eigen::Index = long int]’ 363 | if((ret=unblocked(A11))>=0) return k+ret; | ~~~~~~~~~^~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:408:68: required from ‘static bool Eigen::internal::LLT_Traits::inplace_decomposition(MatrixType&) [with MatrixType = Eigen::Matrix]’ 408 | { return llt_inplace::blocked(m)==-1; } | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:456:42: required from ‘Eigen::LLT<_MatrixType, _UpLo>& Eigen::LLT::compute(const Eigen::EigenBase&) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix; int _UpLo = 1]’ 456 | bool ok = Traits::inplace_decomposition(m_matrix); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:109:14: required from ‘Eigen::LLT::LLT(const Eigen::EigenBase&) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix; int _UpLo = 1]’ 109 | compute(matrix.derived()); | ~~~~~~~^~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:542:10: required from ‘const Eigen::LLT::PlainObject> Eigen::MatrixBase::llt() const [with Derived = Eigen::Matrix; typename Eigen::DenseBase::PlainObject = Eigen::Matrix]’ 542 | return LLT(derived()); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../inst/include/RcppML/project.hpp:123:51: required from here 123 | Eigen::LLT a_llt = a.llt(); | ~~~~~^~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, -1, -1, false>, 1, -1, false> >, -1, 1, true>, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:481:7: required from ‘class Eigen::DenseCoeffsBase, -1, -1, false>, 1, -1, false> >, -1, 1, true>, 2>’ 481 | class DenseCoeffsBase : public DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, -1, -1, false>, 1, -1, false> >, -1, 1, true> >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, -1, -1, false>, 1, -1, false> >, -1, 1, true> >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MapBase.h:37:34: required from ‘class Eigen::MapBase, -1, -1, false>, 1, -1, false> >, -1, 1, true>, 0>’ 37 | template class MapBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Block.h:329:7: required from ‘class Eigen::internal::BlockImpl_dense, -1, -1, false>, 1, -1, false> >, -1, 1, true, true>’ 329 | class BlockImpl_dense | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Block.h:154:7: [ skipping 9 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:363:24: required from ‘static Eigen::Index Eigen::internal::llt_inplace::blocked(MatrixType&) [with MatrixType = Eigen::Matrix; Scalar = double; Eigen::Index = long int]’ 363 | if((ret=unblocked(A11))>=0) return k+ret; | ~~~~~~~~~^~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:408:68: required from ‘static bool Eigen::internal::LLT_Traits::inplace_decomposition(MatrixType&) [with MatrixType = Eigen::Matrix]’ 408 | { return llt_inplace::blocked(m)==-1; } | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:456:42: required from ‘Eigen::LLT<_MatrixType, _UpLo>& Eigen::LLT::compute(const Eigen::EigenBase&) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix; int _UpLo = 1]’ 456 | bool ok = Traits::inplace_decomposition(m_matrix); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:109:14: required from ‘Eigen::LLT::LLT(const Eigen::EigenBase&) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix; int _UpLo = 1]’ 109 | compute(matrix.derived()); | ~~~~~~~^~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:542:10: required from ‘const Eigen::LLT::PlainObject> Eigen::MatrixBase::llt() const [with Derived = Eigen::Matrix; typename Eigen::DenseBase::PlainObject = Eigen::Matrix]’ 542 | return LLT(derived()); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../inst/include/RcppML/project.hpp:123:51: required from here 123 | Eigen::LLT a_llt = a.llt(); | ~~~~~^~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h: In instantiation of ‘struct Eigen::internal::evaluator >, -1, 1, false>, -1, 1, true> >’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:100:8: required from ‘struct Eigen::internal::evaluator >, -1, 1, false>, -1, 1, true> >’ 100 | struct evaluator | ^~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:739:78: required from ‘struct Eigen::internal::binary_evaluator, const Eigen::Transpose, 1, -1, false> >, const Eigen::Block >, -1, 1, false>, -1, 1, true> >, Eigen::internal::IndexBased, Eigen::internal::IndexBased, double, double>’ 739 | CoeffReadCost = int(evaluator::CoeffReadCost) + int(evaluator::CoeffReadCost) + int(functor_traits::Cost), | ^~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:722:8: required from ‘struct Eigen::internal::evaluator, const Eigen::Transpose, 1, -1, false> >, const Eigen::Block >, -1, 1, false>, -1, 1, true> > >’ 722 | struct evaluator > | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Redux.h:357:7: required from ‘class Eigen::internal::redux_evaluator, const Eigen::Transpose, 1, -1, false> >, const Eigen::Block >, -1, 1, false>, -1, 1, true> > >’ 357 | class redux_evaluator : public internal::evaluator<_XprType> | ^~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Redux.h:414:17: required from ‘typename Eigen::internal::traits::Scalar Eigen::DenseBase::redux(const Func&) const [with BinaryOp = Eigen::internal::scalar_sum_op; Derived = Eigen::CwiseBinaryOp, const Eigen::Transpose, 1, -1, false> >, const Eigen::Block >, -1, 1, false>, -1, 1, true> >; typename Eigen::internal::traits::Scalar = double]’ 414 | ThisEvaluator thisEval(derived()); | ^~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Redux.h:463:25: [ skipping 6 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:148:43: required from ‘static void Eigen::internal::Assignment, Eigen::internal::assign_op, Eigen::internal::Dense2Dense, typename Eigen::internal::enable_if<((Options == Eigen::DefaultProduct) || (Options == Eigen::AliasFreeProduct))>::type>::run(DstXprType&, const SrcXprType&, const Eigen::internal::assign_op&) [with DstXprType = Eigen::Matrix; Lhs = Eigen::Matrix; Rhs = Eigen::Transpose >; int Options = 0; Scalar = double; SrcXprType = Eigen::Product, Eigen::Transpose >, 0>]’ 148 | generic_product_impl::evalTo(dst, src.lhs(), src.rhs()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:890:49: required from ‘void Eigen::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen::Matrix; Src = Eigen::Product, Eigen::Transpose >, 0>; Func = assign_op]’ 890 | Assignment::run(actualDst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:797:41: required from ‘Derived& Eigen::PlainObjectBase::_set_noalias(const Eigen::DenseBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; Derived = Eigen::Matrix]’ 797 | internal::call_assignment_no_alias(this->derived(), other.derived(), internal::assign_op()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:594:19: required from ‘Eigen::PlainObjectBase::PlainObjectBase(const Eigen::DenseBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; Derived = Eigen::Matrix]’ 594 | _set_noalias(other); | ~~~~~~~~~~~~^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Matrix.h:423:29: required from ‘Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::Matrix(const Eigen::EigenBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; _Scalar = double; int _Rows = -1; int _Cols = -1; int _Options = 0; int _MaxRows = -1; int _MaxCols = -1]’ 423 | : Base(other.derived()) | ^ ../inst/include/RcppML/project.hpp:149:47: required from here 149 | Eigen::MatrixXd a = w_ * w_.transpose(); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:1071:54: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 1071 | PacketAlignment = unpacket_traits::alignment, | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, const Eigen::Transpose, 1, -1, false> >, const Eigen::Block, -1, 1, true>, -1, 1, true> >, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, const Eigen::Transpose, 1, -1, false> >, const Eigen::Block, -1, 1, true>, -1, 1, true> > >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, const Eigen::Transpose, 1, -1, false> >, const Eigen::Block, -1, 1, true>, -1, 1, true> > >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CwiseBinaryOp.h:148:7: required from ‘class Eigen::CwiseBinaryOpImpl, const Eigen::Transpose, 1, -1, false> >, const Eigen::Block, -1, 1, true>, -1, 1, true>, Eigen::Dense>’ 148 | class CwiseBinaryOpImpl | ^~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CwiseBinaryOp.h:77:7: required from ‘class Eigen::CwiseBinaryOp, const Eigen::Transpose, 1, -1, false> >, const Eigen::Block, -1, 1, true>, -1, 1, true> >’ 77 | class CwiseBinaryOp : | ^~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Dot.h:50:56: required from ‘static Eigen::internal::dot_nocheck::ResScalar Eigen::internal::dot_nocheck::run(const Eigen::MatrixBase&, const Eigen::MatrixBase&) [with T = Eigen::Block, 1, -1, false>; U = Eigen::Block, -1, 1, true>, -1, 1, true>; ResScalar = double]’ 50 | return a.transpose().template binaryExpr(b).sum(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Dot.h:84:58: [ skipping 6 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:797:41: required from ‘Derived& Eigen::PlainObjectBase::_set_noalias(const Eigen::DenseBase&) [with OtherDerived = Eigen::Product, Eigen::Block, -1, 1, true>, 0>; Derived = Eigen::Matrix]’ 797 | internal::call_assignment_no_alias(this->derived(), other.derived(), internal::assign_op()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:883:25: required from ‘void Eigen::PlainObjectBase::_init1(const Eigen::DenseBase&) [with T = Eigen::Product, Eigen::Block, -1, 1, true>, 0>; OtherDerived = Eigen::Product, Eigen::Block, -1, 1, true>, 0>; Derived = Eigen::Matrix]’ 883 | this->_set_noalias(other); | ~~~~~~~~~~~~~~~~~~^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Matrix.h:332:31: required from ‘Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::Matrix(const T&) [with T = Eigen::Product, Eigen::Block, -1, 1, true>, 0>; _Scalar = double; int _Rows = -1; int _Cols = 1; int _Options = 0; int _MaxRows = -1; int _MaxCols = 1]’ 332 | Base::template _init1(x); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:850:41: required from ‘void Eigen::internal::call_assignment(Dst&, const Src&, const Func&, typename enable_if::value, void*>::type) [with Dst = Eigen::Matrix; Src = Eigen::Product, Eigen::Block, -1, 1, true>, 0>; Func = add_assign_op; typename enable_if::value, void*>::type = void*; typename evaluator_traits::Shape = Eigen::DenseShape]’ 850 | typename plain_matrix_type::type tmp(src); | ^~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CwiseBinaryOp.h:177:18: required from ‘Derived& Eigen::MatrixBase::operator+=(const Eigen::MatrixBase&) [with OtherDerived = Eigen::Product, Eigen::Block, -1, 1, true>, 0>; Derived = Eigen::Matrix]’ 177 | call_assignment(derived(), other.derived(), internal::add_assign_op()); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../inst/include/RcppML/project.hpp:198:23: required from here 198 | b += w * A.col(i); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h: In instantiation of ‘struct Eigen::internal::evaluator, -1, 1, true>, -1, 1, true> >’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:100:8: required from ‘struct Eigen::internal::evaluator, -1, 1, true>, -1, 1, true> >’ 100 | struct evaluator | ^~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:739:78: required from ‘struct Eigen::internal::binary_evaluator, const Eigen::Transpose, 1, -1, false> >, const Eigen::Block, -1, 1, true>, -1, 1, true> >, Eigen::internal::IndexBased, Eigen::internal::IndexBased, double, double>’ 739 | CoeffReadCost = int(evaluator::CoeffReadCost) + int(evaluator::CoeffReadCost) + int(functor_traits::Cost), | ^~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:722:8: required from ‘struct Eigen::internal::evaluator, const Eigen::Transpose, 1, -1, false> >, const Eigen::Block, -1, 1, true>, -1, 1, true> > >’ 722 | struct evaluator > | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Redux.h:357:7: required from ‘class Eigen::internal::redux_evaluator, const Eigen::Transpose, 1, -1, false> >, const Eigen::Block, -1, 1, true>, -1, 1, true> > >’ 357 | class redux_evaluator : public internal::evaluator<_XprType> | ^~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Redux.h:414:17: required from ‘typename Eigen::internal::traits::Scalar Eigen::DenseBase::redux(const Func&) const [with BinaryOp = Eigen::internal::scalar_sum_op; Derived = Eigen::CwiseBinaryOp, const Eigen::Transpose, 1, -1, false> >, const Eigen::Block, -1, 1, true>, -1, 1, true> >; typename Eigen::internal::traits::Scalar = double]’ 414 | ThisEvaluator thisEval(derived()); | ^~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Redux.h:463:25: [ skipping 6 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:148:43: required from ‘static void Eigen::internal::Assignment, Eigen::internal::assign_op, Eigen::internal::Dense2Dense, typename Eigen::internal::enable_if<((Options == Eigen::DefaultProduct) || (Options == Eigen::AliasFreeProduct))>::type>::run(DstXprType&, const SrcXprType&, const Eigen::internal::assign_op&) [with DstXprType = Eigen::Matrix; Lhs = Eigen::Matrix; Rhs = Eigen::Block, -1, 1, true>; int Options = 0; Scalar = double; SrcXprType = Eigen::Product, Eigen::Block, -1, 1, true>, 0>]’ 148 | generic_product_impl::evalTo(dst, src.lhs(), src.rhs()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:890:49: required from ‘void Eigen::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen::Matrix; Src = Eigen::Product, Eigen::Block, -1, 1, true>, 0>; Func = assign_op]’ 890 | Assignment::run(actualDst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:797:41: required from ‘Derived& Eigen::PlainObjectBase::_set_noalias(const Eigen::DenseBase&) [with OtherDerived = Eigen::Product, Eigen::Block, -1, 1, true>, 0>; Derived = Eigen::Matrix]’ 797 | internal::call_assignment_no_alias(this->derived(), other.derived(), internal::assign_op()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:594:19: required from ‘Eigen::PlainObjectBase::PlainObjectBase(const Eigen::DenseBase&) [with OtherDerived = Eigen::Product, Eigen::Block, -1, 1, true>, 0>; Derived = Eigen::Matrix]’ 594 | _set_noalias(other); | ~~~~~~~~~~~~^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Matrix.h:423:29: required from ‘Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::Matrix(const Eigen::EigenBase&) [with OtherDerived = Eigen::Product, Eigen::Block, -1, 1, true>, 0>; _Scalar = double; int _Rows = -1; int _Cols = 1; int _Options = 0; int _MaxRows = -1; int _MaxCols = 1]’ 423 | : Base(other.derived()) | ^ ../inst/include/RcppML/nmf.hpp:98:46: required from here 98 | Eigen::VectorXd wh_i = w0 * h.col(i); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:1071:54: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 1071 | PacketAlignment = unpacket_traits::alignment, | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, const Eigen::Transpose, 1, -1, false> >, const Eigen::Block >, -1, 1, false> >, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, const Eigen::Transpose, 1, -1, false> >, const Eigen::Block >, -1, 1, false> > >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, const Eigen::Transpose, 1, -1, false> >, const Eigen::Block >, -1, 1, false> > >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CwiseBinaryOp.h:148:7: required from ‘class Eigen::CwiseBinaryOpImpl, const Eigen::Transpose, 1, -1, false> >, const Eigen::Block >, -1, 1, false>, Eigen::Dense>’ 148 | class CwiseBinaryOpImpl | ^~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CwiseBinaryOp.h:77:7: required from ‘class Eigen::CwiseBinaryOp, const Eigen::Transpose, 1, -1, false> >, const Eigen::Block >, -1, 1, false> >’ 77 | class CwiseBinaryOp : | ^~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:606:52: required from ‘const Eigen::internal::product_evaluator, ProductTag, Eigen::DenseShape, Eigen::DenseShape>::CoeffReturnType Eigen::internal::product_evaluator, ProductTag, Eigen::DenseShape, Eigen::DenseShape>::coeff(Eigen::Index, Eigen::Index) const [with Lhs = Eigen::Matrix; Rhs = Eigen::Transpose >; int ProductTag = 8; typename Eigen::internal::traits::Lhs>::Scalar = double; typename Eigen::Product::Lhs = Eigen::Matrix; typename Eigen::internal::traits::Rhs>::Scalar = double; typename Eigen::Product::Rhs = Eigen::Transpose >; CoeffReturnType = double; Eigen::Index = long int]’ 606 | return (m_lhs.row(row).transpose().cwiseProduct( m_rhs.col(col) )).sum(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:654:63: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:148:43: required from ‘static void Eigen::internal::Assignment, Eigen::internal::assign_op, Eigen::internal::Dense2Dense, typename Eigen::internal::enable_if<((Options == Eigen::DefaultProduct) || (Options == Eigen::AliasFreeProduct))>::type>::run(DstXprType&, const SrcXprType&, const Eigen::internal::assign_op&) [with DstXprType = Eigen::Matrix; Lhs = Eigen::Matrix; Rhs = Eigen::Transpose >; int Options = 0; Scalar = double; SrcXprType = Eigen::Product, Eigen::Transpose >, 0>]’ 148 | generic_product_impl::evalTo(dst, src.lhs(), src.rhs()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:890:49: required from ‘void Eigen::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen::Matrix; Src = Eigen::Product, Eigen::Transpose >, 0>; Func = assign_op]’ 890 | Assignment::run(actualDst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:797:41: required from ‘Derived& Eigen::PlainObjectBase::_set_noalias(const Eigen::DenseBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; Derived = Eigen::Matrix]’ 797 | internal::call_assignment_no_alias(this->derived(), other.derived(), internal::assign_op()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:594:19: required from ‘Eigen::PlainObjectBase::PlainObjectBase(const Eigen::DenseBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; Derived = Eigen::Matrix]’ 594 | _set_noalias(other); | ~~~~~~~~~~~~^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Matrix.h:423:29: required from ‘Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::Matrix(const Eigen::EigenBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; _Scalar = double; int _Rows = -1; int _Cols = -1; int _Options = 0; int _MaxRows = -1; int _MaxCols = -1]’ 423 | : Base(other.derived()) | ^ ../inst/include/RcppML/project.hpp:121:43: required from here 121 | Eigen::MatrixXd a = w * w.transpose(); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h: In instantiation of ‘struct Eigen::internal::evaluator, 0, Eigen::OuterStride<> >, 1, -1, true> >’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:100:8: required from ‘struct Eigen::internal::evaluator, 0, Eigen::OuterStride<> >, 1, -1, true> >’ 100 | struct evaluator | ^~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:1043:41: required from ‘struct Eigen::internal::evaluator, 0, Eigen::OuterStride<> >, 1, -1, true>, 1, -1, false> >’ 1043 | CoeffReadCost = evaluator::CoeffReadCost, | ^~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:100:8: required from ‘struct Eigen::internal::evaluator, 0, Eigen::OuterStride<> >, 1, -1, true>, 1, -1, false> >’ 100 | struct evaluator | ^~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:311:41: required from ‘struct Eigen::internal::unary_evaluator, 0, Eigen::OuterStride<> >, 1, -1, true>, 1, -1, false> >, Eigen::internal::IndexBased, double>’ 311 | CoeffReadCost = evaluator::CoeffReadCost, | ^~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:90:8: required from ‘struct Eigen::internal::evaluator, 0, Eigen::OuterStride<> >, 1, -1, true>, 1, -1, false> > >’ 90 | struct evaluator : public unary_evaluator | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:100:8: [ skipping 12 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Solve.h:147:26: required from ‘static void Eigen::internal::Assignment, Eigen::internal::assign_op, Eigen::internal::Dense2Dense>::run(DstXprType&, const SrcXprType&, const Eigen::internal::assign_op&) [with DstXprType = Eigen::Block, -1, 1, true>; DecType = Eigen::LLT, 1>; RhsType = Eigen::Matrix; Scalar = double; SrcXprType = Eigen::Solve, 1>, Eigen::Matrix >]’ 147 | src.dec()._solve_impl(src.rhs(), dst); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:890:49: required from ‘void Eigen::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen::Block, -1, 1, true>; Src = Eigen::Solve, 1>, Eigen::Matrix >; Func = assign_op]’ 890 | Assignment::run(actualDst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:858:27: required from ‘void Eigen::internal::call_assignment(Dst&, const Src&, const Func&, typename enable_if<(! evaluator_assume_aliasing::value), void*>::type) [with Dst = Eigen::Block, -1, 1, true>; Src = Eigen::Solve, 1>, Eigen::Matrix >; Func = assign_op; typename enable_if<(! evaluator_assume_aliasing::value), void*>::type = void*; typename evaluator_traits::Shape = Eigen::DenseShape]’ 858 | call_assignment_no_alias(dst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:836:18: required from ‘void Eigen::internal::call_assignment(Dst&, const Src&) [with Dst = Eigen::Block, -1, 1, true>; Src = Eigen::Solve, 1>, Eigen::Matrix >]’ 836 | call_assignment(dst, src, internal::assign_op()); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Assign.h:66:28: required from ‘Derived& Eigen::MatrixBase::operator=(const Eigen::DenseBase&) [with OtherDerived = Eigen::Solve, 1>, Eigen::Matrix >; Derived = Eigen::Block, -1, 1, true>]’ 66 | internal::call_assignment(derived(), other.derived()); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../inst/include/RcppML/project.hpp:133:33: required from here 133 | h.col(i) = a_llt.solve(b); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:1071:54: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 1071 | PacketAlignment = unpacket_traits::alignment, | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h: In instantiation of ‘struct Eigen::internal::evaluator, 0, Eigen::OuterStride<> >, 1, -1, true>, 1, -1, false> >’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:100:8: required from ‘struct Eigen::internal::evaluator, 0, Eigen::OuterStride<> >, 1, -1, true>, 1, -1, false> >’ 100 | struct evaluator | ^~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:311:41: required from ‘struct Eigen::internal::unary_evaluator, 0, Eigen::OuterStride<> >, 1, -1, true>, 1, -1, false> >, Eigen::internal::IndexBased, double>’ 311 | CoeffReadCost = evaluator::CoeffReadCost, | ^~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:90:8: required from ‘struct Eigen::internal::evaluator, 0, Eigen::OuterStride<> >, 1, -1, true>, 1, -1, false> > >’ 90 | struct evaluator : public unary_evaluator | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:100:8: required from ‘struct Eigen::internal::evaluator, 0, Eigen::OuterStride<> >, 1, -1, true>, 1, -1, false> > >’ 100 | struct evaluator | ^~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:739:41: required from ‘struct Eigen::internal::binary_evaluator, const Eigen::Transpose, 0, Eigen::OuterStride<> >, 1, -1, true>, 1, -1, false> >, const Eigen::Map, 0, Eigen::Stride<0, 0> > >, Eigen::internal::IndexBased, Eigen::internal::IndexBased, double, double>’ 739 | CoeffReadCost = int(evaluator::CoeffReadCost) + int(evaluator::CoeffReadCost) + int(functor_traits::Cost), | ^~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:722:8: [ skipping 10 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Solve.h:147:26: required from ‘static void Eigen::internal::Assignment, Eigen::internal::assign_op, Eigen::internal::Dense2Dense>::run(DstXprType&, const SrcXprType&, const Eigen::internal::assign_op&) [with DstXprType = Eigen::Block, -1, 1, true>; DecType = Eigen::LLT, 1>; RhsType = Eigen::Matrix; Scalar = double; SrcXprType = Eigen::Solve, 1>, Eigen::Matrix >]’ 147 | src.dec()._solve_impl(src.rhs(), dst); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:890:49: required from ‘void Eigen::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen::Block, -1, 1, true>; Src = Eigen::Solve, 1>, Eigen::Matrix >; Func = assign_op]’ 890 | Assignment::run(actualDst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:858:27: required from ‘void Eigen::internal::call_assignment(Dst&, const Src&, const Func&, typename enable_if<(! evaluator_assume_aliasing::value), void*>::type) [with Dst = Eigen::Block, -1, 1, true>; Src = Eigen::Solve, 1>, Eigen::Matrix >; Func = assign_op; typename enable_if<(! evaluator_assume_aliasing::value), void*>::type = void*; typename evaluator_traits::Shape = Eigen::DenseShape]’ 858 | call_assignment_no_alias(dst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:836:18: required from ‘void Eigen::internal::call_assignment(Dst&, const Src&) [with Dst = Eigen::Block, -1, 1, true>; Src = Eigen::Solve, 1>, Eigen::Matrix >]’ 836 | call_assignment(dst, src, internal::assign_op()); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Assign.h:66:28: required from ‘Derived& Eigen::MatrixBase::operator=(const Eigen::DenseBase&) [with OtherDerived = Eigen::Solve, 1>, Eigen::Matrix >; Derived = Eigen::Block, -1, 1, true>]’ 66 | internal::call_assignment(derived(), other.derived()); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../inst/include/RcppML/project.hpp:133:33: required from here 133 | h.col(i) = a_llt.solve(b); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:1071:54: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 1071 | PacketAlignment = unpacket_traits::alignment, | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h: In instantiation of ‘struct Eigen::internal::evaluator, 2, 1, true> >’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:780:20: required from ‘void Eigen::internal::call_dense_assignment_loop(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen::Block, 2, 1, true>; SrcXprType = Eigen::CwiseBinaryOp, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Map, 2, Eigen::Stride<0, 0> > >; Functor = add_assign_op]’ 780 | DstEvaluatorType dstEvaluator(dst); | ^~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:954:31: required from ‘static void Eigen::internal::Assignment::run(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen::Block, 2, 1, true>; SrcXprType = Eigen::CwiseBinaryOp, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Map, 2, Eigen::Stride<0, 0> > >; Functor = Eigen::internal::add_assign_op; Weak = void]’ 954 | call_dense_assignment_loop(dst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:890:49: required from ‘void Eigen::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen::Block, 2, 1, true>; Src = Eigen::CwiseBinaryOp, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Map, 2, Eigen::Stride<0, 0> > >; Func = add_assign_op]’ 890 | Assignment::run(actualDst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:858:27: required from ‘void Eigen::internal::call_assignment(Dst&, const Src&, const Func&, typename enable_if<(! evaluator_assume_aliasing::value), void*>::type) [with Dst = Eigen::Block, 2, 1, true>; Src = Eigen::CwiseBinaryOp, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Map, 2, Eigen::Stride<0, 0> > >; Func = add_assign_op; typename enable_if<(! evaluator_assume_aliasing::value), void*>::type = void*; typename evaluator_traits::Shape = Eigen::DenseShape]’ 858 | call_assignment_no_alias(dst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CwiseBinaryOp.h:177:18: required from ‘Derived& Eigen::MatrixBase::operator+=(const Eigen::MatrixBase&) [with OtherDerived = Eigen::CwiseBinaryOp, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Map, 2, Eigen::Stride<0, 0> > >; Derived = Eigen::Block, 2, 1, true>]’ 177 | call_assignment(derived(), other.derived(), internal::add_assign_op()); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/GeneralProduct.h:296:25: [ skipping 4 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:148:43: required from ‘static void Eigen::internal::Assignment, Eigen::internal::assign_op, Eigen::internal::Dense2Dense, typename Eigen::internal::enable_if<((Options == Eigen::DefaultProduct) || (Options == Eigen::AliasFreeProduct))>::type>::run(DstXprType&, const SrcXprType&, const Eigen::internal::assign_op&) [with DstXprType = Eigen::Matrix; Lhs = Eigen::Matrix; Rhs = Eigen::Transpose >; int Options = 0; Scalar = double; SrcXprType = Eigen::Product, Eigen::Transpose >, 0>]’ 148 | generic_product_impl::evalTo(dst, src.lhs(), src.rhs()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:890:49: required from ‘void Eigen::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen::Matrix; Src = Eigen::Product, Eigen::Transpose >, 0>; Func = assign_op]’ 890 | Assignment::run(actualDst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:797:41: required from ‘Derived& Eigen::PlainObjectBase::_set_noalias(const Eigen::DenseBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; Derived = Eigen::Matrix]’ 797 | internal::call_assignment_no_alias(this->derived(), other.derived(), internal::assign_op()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:594:19: required from ‘Eigen::PlainObjectBase::PlainObjectBase(const Eigen::DenseBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; Derived = Eigen::Matrix]’ 594 | _set_noalias(other); | ~~~~~~~~~~~~^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Matrix.h:423:29: required from ‘Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::Matrix(const Eigen::EigenBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; _Scalar = double; int _Rows = 2; int _Cols = 2; int _Options = 0; int _MaxRows = 2; int _MaxCols = 2]’ 423 | : Base(other.derived()) | ^ ../inst/include/RcppML/project.hpp:106:41: required from here 106 | Eigen::Matrix2d a = w * w.transpose(); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:1071:54: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 1071 | PacketAlignment = unpacket_traits::alignment, | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, -1, -1, false>, 1, -1, false> >, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:481:7: required from ‘class Eigen::DenseCoeffsBase, -1, -1, false>, 1, -1, false> >, 2>’ 481 | class DenseCoeffsBase : public DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, -1, -1, false>, 1, -1, false> > >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, -1, -1, false>, 1, -1, false> > >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Transpose.h:118:37: required from ‘class Eigen::TransposeImpl, -1, -1, false>, 1, -1, false>, Eigen::Dense>’ 118 | template class TransposeImpl | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Transpose.h:52:37: required from ‘class Eigen::Transpose, -1, -1, false>, 1, -1, false> >’ 52 | template class Transpose | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Dot.h:50:23: [ skipping 9 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:344:23: required from ‘static Eigen::Index Eigen::internal::llt_inplace::blocked(MatrixType&) [with MatrixType = Eigen::Matrix; Scalar = double; Eigen::Index = long int]’ 344 | return unblocked(m); | ~~~~~~~~~^~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:408:68: required from ‘static bool Eigen::internal::LLT_Traits::inplace_decomposition(MatrixType&) [with MatrixType = Eigen::Matrix]’ 408 | { return llt_inplace::blocked(m)==-1; } | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:456:42: required from ‘Eigen::LLT<_MatrixType, _UpLo>& Eigen::LLT::compute(const Eigen::EigenBase&) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix; int _UpLo = 1]’ 456 | bool ok = Traits::inplace_decomposition(m_matrix); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:109:14: required from ‘Eigen::LLT::LLT(const Eigen::EigenBase&) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix; int _UpLo = 1]’ 109 | compute(matrix.derived()); | ~~~~~~~^~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:542:10: required from ‘const Eigen::LLT::PlainObject> Eigen::MatrixBase::llt() const [with Derived = Eigen::Matrix; typename Eigen::DenseBase::PlainObject = Eigen::Matrix]’ 542 | return LLT(derived()); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../inst/include/RcppML/project.hpp:123:51: required from here 123 | Eigen::LLT a_llt = a.llt(); | ~~~~~^~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, const Eigen::Transpose, -1, -1, false>, 1, -1, false> >, const Eigen::Block, 1, -1, false> >, -1, 1, true> >, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, const Eigen::Transpose, -1, -1, false>, 1, -1, false> >, const Eigen::Block, 1, -1, false> >, -1, 1, true> > >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, const Eigen::Transpose, -1, -1, false>, 1, -1, false> >, const Eigen::Block, 1, -1, false> >, -1, 1, true> > >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CwiseBinaryOp.h:148:7: required from ‘class Eigen::CwiseBinaryOpImpl, const Eigen::Transpose, -1, -1, false>, 1, -1, false> >, const Eigen::Block, 1, -1, false> >, -1, 1, true>, Eigen::Dense>’ 148 | class CwiseBinaryOpImpl | ^~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CwiseBinaryOp.h:77:7: required from ‘class Eigen::CwiseBinaryOp, const Eigen::Transpose, -1, -1, false>, 1, -1, false> >, const Eigen::Block, 1, -1, false> >, -1, 1, true> >’ 77 | class CwiseBinaryOp : | ^~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Dot.h:50:56: required from ‘static Eigen::internal::dot_nocheck::ResScalar Eigen::internal::dot_nocheck::run(const Eigen::MatrixBase&, const Eigen::MatrixBase&) [with T = Eigen::Block, -1, -1, false>, 1, -1, false>; U = Eigen::Block, 1, -1, false> >, -1, 1, true>; ResScalar = double]’ 50 | return a.transpose().template binaryExpr(b).sum(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Dot.h:84:58: [ skipping 8 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:344:23: required from ‘static Eigen::Index Eigen::internal::llt_inplace::blocked(MatrixType&) [with MatrixType = Eigen::Matrix; Scalar = double; Eigen::Index = long int]’ 344 | return unblocked(m); | ~~~~~~~~~^~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:408:68: required from ‘static bool Eigen::internal::LLT_Traits::inplace_decomposition(MatrixType&) [with MatrixType = Eigen::Matrix]’ 408 | { return llt_inplace::blocked(m)==-1; } | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:456:42: required from ‘Eigen::LLT<_MatrixType, _UpLo>& Eigen::LLT::compute(const Eigen::EigenBase&) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix; int _UpLo = 1]’ 456 | bool ok = Traits::inplace_decomposition(m_matrix); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:109:14: required from ‘Eigen::LLT::LLT(const Eigen::EigenBase&) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix; int _UpLo = 1]’ 109 | compute(matrix.derived()); | ~~~~~~~^~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:542:10: required from ‘const Eigen::LLT::PlainObject> Eigen::MatrixBase::llt() const [with Derived = Eigen::Matrix; typename Eigen::DenseBase::PlainObject = Eigen::Matrix]’ 542 | return LLT(derived()); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../inst/include/RcppML/project.hpp:123:51: required from here 123 | Eigen::LLT a_llt = a.llt(); | ~~~~~^~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, -1, -1, false>, -1, -1, false>, 1, -1, false> >, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:481:7: required from ‘class Eigen::DenseCoeffsBase, -1, -1, false>, -1, -1, false>, 1, -1, false> >, 2>’ 481 | class DenseCoeffsBase : public DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, -1, -1, false>, -1, -1, false>, 1, -1, false> > >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, -1, -1, false>, -1, -1, false>, 1, -1, false> > >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Transpose.h:118:37: required from ‘class Eigen::TransposeImpl, -1, -1, false>, -1, -1, false>, 1, -1, false>, Eigen::Dense>’ 118 | template class TransposeImpl | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Transpose.h:52:37: required from ‘class Eigen::Transpose, -1, -1, false>, -1, -1, false>, 1, -1, false> >’ 52 | template class Transpose | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Dot.h:50:23: [ skipping 9 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:363:24: required from ‘static Eigen::Index Eigen::internal::llt_inplace::blocked(MatrixType&) [with MatrixType = Eigen::Matrix; Scalar = double; Eigen::Index = long int]’ 363 | if((ret=unblocked(A11))>=0) return k+ret; | ~~~~~~~~~^~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:408:68: required from ‘static bool Eigen::internal::LLT_Traits::inplace_decomposition(MatrixType&) [with MatrixType = Eigen::Matrix]’ 408 | { return llt_inplace::blocked(m)==-1; } | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:456:42: required from ‘Eigen::LLT<_MatrixType, _UpLo>& Eigen::LLT::compute(const Eigen::EigenBase&) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix; int _UpLo = 1]’ 456 | bool ok = Traits::inplace_decomposition(m_matrix); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:109:14: required from ‘Eigen::LLT::LLT(const Eigen::EigenBase&) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix; int _UpLo = 1]’ 109 | compute(matrix.derived()); | ~~~~~~~^~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:542:10: required from ‘const Eigen::LLT::PlainObject> Eigen::MatrixBase::llt() const [with Derived = Eigen::Matrix; typename Eigen::DenseBase::PlainObject = Eigen::Matrix]’ 542 | return LLT(derived()); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../inst/include/RcppML/project.hpp:123:51: required from here 123 | Eigen::LLT a_llt = a.llt(); | ~~~~~^~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, const Eigen::Transpose, -1, -1, false>, -1, -1, false>, 1, -1, false> >, const Eigen::Block, -1, -1, false>, 1, -1, false> >, -1, 1, true> >, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase, const Eigen::Transpose, -1, -1, false>, -1, -1, false>, 1, -1, false> >, const Eigen::Block, -1, -1, false>, 1, -1, false> >, -1, 1, true> > >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase, const Eigen::Transpose, -1, -1, false>, -1, -1, false>, 1, -1, false> >, const Eigen::Block, -1, -1, false>, 1, -1, false> >, -1, 1, true> > >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CwiseBinaryOp.h:148:7: required from ‘class Eigen::CwiseBinaryOpImpl, const Eigen::Transpose, -1, -1, false>, -1, -1, false>, 1, -1, false> >, const Eigen::Block, -1, -1, false>, 1, -1, false> >, -1, 1, true>, Eigen::Dense>’ 148 | class CwiseBinaryOpImpl | ^~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CwiseBinaryOp.h:77:7: required from ‘class Eigen::CwiseBinaryOp, const Eigen::Transpose, -1, -1, false>, -1, -1, false>, 1, -1, false> >, const Eigen::Block, -1, -1, false>, 1, -1, false> >, -1, 1, true> >’ 77 | class CwiseBinaryOp : | ^~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Dot.h:50:56: required from ‘static Eigen::internal::dot_nocheck::ResScalar Eigen::internal::dot_nocheck::run(const Eigen::MatrixBase&, const Eigen::MatrixBase&) [with T = Eigen::Block, -1, -1, false>, -1, -1, false>, 1, -1, false>; U = Eigen::Block, -1, -1, false>, 1, -1, false> >, -1, 1, true>; ResScalar = double]’ 50 | return a.transpose().template binaryExpr(b).sum(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Dot.h:84:58: [ skipping 8 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:363:24: required from ‘static Eigen::Index Eigen::internal::llt_inplace::blocked(MatrixType&) [with MatrixType = Eigen::Matrix; Scalar = double; Eigen::Index = long int]’ 363 | if((ret=unblocked(A11))>=0) return k+ret; | ~~~~~~~~~^~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:408:68: required from ‘static bool Eigen::internal::LLT_Traits::inplace_decomposition(MatrixType&) [with MatrixType = Eigen::Matrix]’ 408 | { return llt_inplace::blocked(m)==-1; } | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:456:42: required from ‘Eigen::LLT<_MatrixType, _UpLo>& Eigen::LLT::compute(const Eigen::EigenBase&) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix; int _UpLo = 1]’ 456 | bool ok = Traits::inplace_decomposition(m_matrix); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:109:14: required from ‘Eigen::LLT::LLT(const Eigen::EigenBase&) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix; int _UpLo = 1]’ 109 | compute(matrix.derived()); | ~~~~~~~^~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:542:10: required from ‘const Eigen::LLT::PlainObject> Eigen::MatrixBase::llt() const [with Derived = Eigen::Matrix; typename Eigen::DenseBase::PlainObject = Eigen::Matrix]’ 542 | return LLT(derived()); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../inst/include/RcppML/project.hpp:123:51: required from here 123 | Eigen::LLT a_llt = a.llt(); | ~~~~~^~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h: In instantiation of ‘struct Eigen::internal::evaluator, -1, 1, true>, -1, 1, true> >’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:100:8: required from ‘struct Eigen::internal::evaluator, -1, 1, true>, -1, 1, true> >’ 100 | struct evaluator | ^~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:739:78: required from ‘struct Eigen::internal::binary_evaluator, const Eigen::Transpose, 1, -1, false> >, const Eigen::Block, -1, 1, true>, -1, 1, true> >, Eigen::internal::IndexBased, Eigen::internal::IndexBased, double, double>’ 739 | CoeffReadCost = int(evaluator::CoeffReadCost) + int(evaluator::CoeffReadCost) + int(functor_traits::Cost), | ^~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:722:8: required from ‘struct Eigen::internal::evaluator, const Eigen::Transpose, 1, -1, false> >, const Eigen::Block, -1, 1, true>, -1, 1, true> > >’ 722 | struct evaluator > | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Redux.h:357:7: required from ‘class Eigen::internal::redux_evaluator, const Eigen::Transpose, 1, -1, false> >, const Eigen::Block, -1, 1, true>, -1, 1, true> > >’ 357 | class redux_evaluator : public internal::evaluator<_XprType> | ^~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Redux.h:414:17: required from ‘typename Eigen::internal::traits::Scalar Eigen::DenseBase::redux(const Func&) const [with BinaryOp = Eigen::internal::scalar_sum_op; Derived = Eigen::CwiseBinaryOp, const Eigen::Transpose, 1, -1, false> >, const Eigen::Block, -1, 1, true>, -1, 1, true> >; typename Eigen::internal::traits::Scalar = double]’ 414 | ThisEvaluator thisEval(derived()); | ^~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Redux.h:463:25: [ skipping 8 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:797:41: required from ‘Derived& Eigen::PlainObjectBase::_set_noalias(const Eigen::DenseBase&) [with OtherDerived = Eigen::Product, Eigen::Block, -1, 1, true>, 0>; Derived = Eigen::Matrix]’ 797 | internal::call_assignment_no_alias(this->derived(), other.derived(), internal::assign_op()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:883:25: required from ‘void Eigen::PlainObjectBase::_init1(const Eigen::DenseBase&) [with T = Eigen::Product, Eigen::Block, -1, 1, true>, 0>; OtherDerived = Eigen::Product, Eigen::Block, -1, 1, true>, 0>; Derived = Eigen::Matrix]’ 883 | this->_set_noalias(other); | ~~~~~~~~~~~~~~~~~~^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Matrix.h:332:31: required from ‘Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::Matrix(const T&) [with T = Eigen::Product, Eigen::Block, -1, 1, true>, 0>; _Scalar = double; int _Rows = -1; int _Cols = 1; int _Options = 0; int _MaxRows = -1; int _MaxCols = 1]’ 332 | Base::template _init1(x); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:850:41: required from ‘void Eigen::internal::call_assignment(Dst&, const Src&, const Func&, typename enable_if::value, void*>::type) [with Dst = Eigen::Matrix; Src = Eigen::Product, Eigen::Block, -1, 1, true>, 0>; Func = add_assign_op; typename enable_if::value, void*>::type = void*; typename evaluator_traits::Shape = Eigen::DenseShape]’ 850 | typename plain_matrix_type::type tmp(src); | ^~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CwiseBinaryOp.h:177:18: required from ‘Derived& Eigen::MatrixBase::operator+=(const Eigen::MatrixBase&) [with OtherDerived = Eigen::Product, Eigen::Block, -1, 1, true>, 0>; Derived = Eigen::Matrix]’ 177 | call_assignment(derived(), other.derived(), internal::add_assign_op()); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../inst/include/RcppML/project.hpp:198:23: required from here 198 | b += w * A.col(i); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:1071:54: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 1071 | PacketAlignment = unpacket_traits::alignment, | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h: In instantiation of ‘struct Eigen::internal::evaluator, 1, 2, false> >’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:311:41: required from ‘struct Eigen::internal::unary_evaluator, 1, 2, false> >, Eigen::internal::IndexBased, double>’ 311 | CoeffReadCost = evaluator::CoeffReadCost, | ^~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:90:8: required from ‘struct Eigen::internal::evaluator, 1, 2, false> > >’ 90 | struct evaluator : public unary_evaluator | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:780:20: required from ‘void Eigen::internal::call_dense_assignment_loop(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen::Transpose, 1, 2, false> >; SrcXprType = Eigen::CwiseBinaryOp, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Map, 2, Eigen::Stride<0, 0> > >; Functor = add_assign_op]’ 780 | DstEvaluatorType dstEvaluator(dst); | ^~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:954:31: required from ‘static void Eigen::internal::Assignment::run(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen::Transpose, 1, 2, false> >; SrcXprType = Eigen::CwiseBinaryOp, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Map, 2, Eigen::Stride<0, 0> > >; Functor = Eigen::internal::add_assign_op; Weak = void]’ 954 | call_dense_assignment_loop(dst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:890:49: required from ‘void Eigen::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen::Transpose, 1, 2, false> >; Src = Eigen::CwiseBinaryOp, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Map, 2, Eigen::Stride<0, 0> > >; Func = add_assign_op]’ 890 | Assignment::run(actualDst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:858:27: [ skipping 7 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/ProductEvaluators.h:148:43: required from ‘static void Eigen::internal::Assignment, Eigen::internal::assign_op, Eigen::internal::Dense2Dense, typename Eigen::internal::enable_if<((Options == Eigen::DefaultProduct) || (Options == Eigen::AliasFreeProduct))>::type>::run(DstXprType&, const SrcXprType&, const Eigen::internal::assign_op&) [with DstXprType = Eigen::Matrix; Lhs = Eigen::Matrix; Rhs = Eigen::Transpose >; int Options = 0; Scalar = double; SrcXprType = Eigen::Product, Eigen::Transpose >, 0>]’ 148 | generic_product_impl::evalTo(dst, src.lhs(), src.rhs()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:890:49: required from ‘void Eigen::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen::Matrix; Src = Eigen::Product, Eigen::Transpose >, 0>; Func = assign_op]’ 890 | Assignment::run(actualDst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:797:41: required from ‘Derived& Eigen::PlainObjectBase::_set_noalias(const Eigen::DenseBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; Derived = Eigen::Matrix]’ 797 | internal::call_assignment_no_alias(this->derived(), other.derived(), internal::assign_op()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:594:19: required from ‘Eigen::PlainObjectBase::PlainObjectBase(const Eigen::DenseBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; Derived = Eigen::Matrix]’ 594 | _set_noalias(other); | ~~~~~~~~~~~~^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Matrix.h:423:29: required from ‘Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::Matrix(const Eigen::EigenBase&) [with OtherDerived = Eigen::Product, Eigen::Transpose >, 0>; _Scalar = double; int _Rows = 2; int _Cols = 2; int _Options = 0; int _MaxRows = 2; int _MaxCols = 2]’ 423 | : Base(other.derived()) | ^ ../inst/include/RcppML/project.hpp:106:41: required from here 106 | Eigen::Matrix2d a = w * w.transpose(); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:1071:54: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 1071 | PacketAlignment = unpacket_traits::alignment, | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘Eigen::Index Eigen::internal::first_default_aligned(const Eigen::DenseBase&) [with Derived = Eigen::CwiseBinaryOp, const Eigen::Transpose, 0, Eigen::OuterStride<> >, 1, -1, true>, 1, -1, false> >, const Eigen::Map, 0, Eigen::Stride<0, 0> > >; Eigen::Index = long int]’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Redux.h:243:63: required from ‘static Eigen::internal::redux_impl::Scalar Eigen::internal::redux_impl::run(const Evaluator&, const Func&, const XprType&) [with XprType = Eigen::CwiseBinaryOp, const Eigen::Transpose, 0, Eigen::OuterStride<> >, 1, -1, true>, 1, -1, false> >, const Eigen::Map, 0, Eigen::Stride<0, 0> > >; Func = Eigen::internal::scalar_sum_op; Evaluator = Eigen::internal::redux_evaluator, const Eigen::Transpose, 0, Eigen::OuterStride<> >, 1, -1, true>, 1, -1, false> >, const Eigen::Map, 0, Eigen::Stride<0, 0> > > >; Scalar = double]’ 243 | const Index alignedStart = internal::first_default_aligned(xpr); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Redux.h:418:56: required from ‘typename Eigen::internal::traits::Scalar Eigen::DenseBase::redux(const Func&) const [with BinaryOp = Eigen::internal::scalar_sum_op; Derived = Eigen::CwiseBinaryOp, const Eigen::Transpose, 0, Eigen::OuterStride<> >, 1, -1, true>, 1, -1, false> >, const Eigen::Map, 0, Eigen::Stride<0, 0> > >; typename Eigen::internal::traits::Scalar = double]’ 418 | return internal::redux_impl::run(thisEval, func, derived()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Redux.h:463:25: required from ‘typename Eigen::internal::traits::Scalar Eigen::DenseBase::sum() const [with Derived = Eigen::CwiseBinaryOp, const Eigen::Transpose, 0, Eigen::OuterStride<> >, 1, -1, true>, 1, -1, false> >, const Eigen::Map, 0, Eigen::Stride<0, 0> > >; typename Eigen::internal::traits::Scalar = double]’ 463 | return derived().redux(Eigen::internal::scalar_sum_op()); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/products/TriangularSolverVector.h:78:127: required from ‘static void Eigen::internal::triangular_solve_vector::run(Index, const LhsScalar*, Index, RhsScalar*) [with LhsScalar = double; RhsScalar = double; Index = long int; int Mode = 2; bool Conjugate = false]’ 78 | rhs[i] -= (cjLhs.row(i).segment(s,k).transpose().cwiseProduct(Map >(rhs+s,k))).sum(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/SolveTriangular.h:73:12: required from ‘static void Eigen::internal::triangular_solver_selector::run(const Lhs&, Rhs&) [with Lhs = const Eigen::Transpose >; Rhs = Eigen::Block, -1, 1, true>; int Side = 1; int Mode = 2]’ 71 | triangular_solve_vector | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 73 | ::run(actualLhs.cols(), actualLhs.data(), actualLhs.outerStride(), actualRhs); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/SolveTriangular.h:182:21: [ skipping 4 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Solve.h:147:26: required from ‘static void Eigen::internal::Assignment, Eigen::internal::assign_op, Eigen::internal::Dense2Dense>::run(DstXprType&, const SrcXprType&, const Eigen::internal::assign_op&) [with DstXprType = Eigen::Block, -1, 1, true>; DecType = Eigen::LLT, 1>; RhsType = Eigen::Matrix; Scalar = double; SrcXprType = Eigen::Solve, 1>, Eigen::Matrix >]’ 147 | src.dec()._solve_impl(src.rhs(), dst); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:890:49: required from ‘void Eigen::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen::Block, -1, 1, true>; Src = Eigen::Solve, 1>, Eigen::Matrix >; Func = assign_op]’ 890 | Assignment::run(actualDst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:858:27: required from ‘void Eigen::internal::call_assignment(Dst&, const Src&, const Func&, typename enable_if<(! evaluator_assume_aliasing::value), void*>::type) [with Dst = Eigen::Block, -1, 1, true>; Src = Eigen::Solve, 1>, Eigen::Matrix >; Func = assign_op; typename enable_if<(! evaluator_assume_aliasing::value), void*>::type = void*; typename evaluator_traits::Shape = Eigen::DenseShape]’ 858 | call_assignment_no_alias(dst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:836:18: required from ‘void Eigen::internal::call_assignment(Dst&, const Src&) [with Dst = Eigen::Block, -1, 1, true>; Src = Eigen::Solve, 1>, Eigen::Matrix >]’ 836 | call_assignment(dst, src, internal::assign_op()); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Assign.h:66:28: required from ‘Derived& Eigen::MatrixBase::operator=(const Eigen::DenseBase&) [with OtherDerived = Eigen::Solve, 1>, Eigen::Matrix >; Derived = Eigen::Block, -1, 1, true>]’ 66 | internal::call_assignment(derived(), other.derived()); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../inst/include/RcppML/project.hpp:133:33: required from here 133 | h.col(i) = a_llt.solve(b); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:654:74: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 654 | return internal::first_aligned::alignment),Derived>(m); | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h: In instantiation of ‘struct Eigen::internal::evaluator, -1, -1, false>, 1, -1, false> >’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:100:8: required from ‘struct Eigen::internal::evaluator, -1, -1, false>, 1, -1, false> >’ 100 | struct evaluator | ^~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:311:41: required from ‘struct Eigen::internal::unary_evaluator, -1, -1, false>, 1, -1, false> >, Eigen::internal::IndexBased, double>’ 311 | CoeffReadCost = evaluator::CoeffReadCost, | ^~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:90:8: required from ‘struct Eigen::internal::evaluator, -1, -1, false>, 1, -1, false> > >’ 90 | struct evaluator : public unary_evaluator | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:100:8: required from ‘struct Eigen::internal::evaluator, -1, -1, false>, 1, -1, false> > >’ 100 | struct evaluator | ^~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:739:41: required from ‘struct Eigen::internal::binary_evaluator, const Eigen::Transpose, -1, -1, false>, 1, -1, false> >, const Eigen::Block, 1, -1, false> >, -1, 1, true> >, Eigen::internal::IndexBased, Eigen::internal::IndexBased, double, double>’ 739 | CoeffReadCost = int(evaluator::CoeffReadCost) + int(evaluator::CoeffReadCost) + int(functor_traits::Cost), | ^~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:722:8: [ skipping 13 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:344:23: required from ‘static Eigen::Index Eigen::internal::llt_inplace::blocked(MatrixType&) [with MatrixType = Eigen::Matrix; Scalar = double; Eigen::Index = long int]’ 344 | return unblocked(m); | ~~~~~~~~~^~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:408:68: required from ‘static bool Eigen::internal::LLT_Traits::inplace_decomposition(MatrixType&) [with MatrixType = Eigen::Matrix]’ 408 | { return llt_inplace::blocked(m)==-1; } | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:456:42: required from ‘Eigen::LLT<_MatrixType, _UpLo>& Eigen::LLT::compute(const Eigen::EigenBase&) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix; int _UpLo = 1]’ 456 | bool ok = Traits::inplace_decomposition(m_matrix); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:109:14: required from ‘Eigen::LLT::LLT(const Eigen::EigenBase&) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix; int _UpLo = 1]’ 109 | compute(matrix.derived()); | ~~~~~~~^~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:542:10: required from ‘const Eigen::LLT::PlainObject> Eigen::MatrixBase::llt() const [with Derived = Eigen::Matrix; typename Eigen::DenseBase::PlainObject = Eigen::Matrix]’ 542 | return LLT(derived()); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../inst/include/RcppML/project.hpp:123:51: required from here 123 | Eigen::LLT a_llt = a.llt(); | ~~~~~^~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:1071:54: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 1071 | PacketAlignment = unpacket_traits::alignment, | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h: In instantiation of ‘struct Eigen::internal::evaluator, 1, -1, false> >, -1, 1, true> >’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:100:8: required from ‘struct Eigen::internal::evaluator, 1, -1, false> >, -1, 1, true> >’ 100 | struct evaluator | ^~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:739:78: required from ‘struct Eigen::internal::binary_evaluator, const Eigen::Transpose, -1, -1, false>, 1, -1, false> >, const Eigen::Block, 1, -1, false> >, -1, 1, true> >, Eigen::internal::IndexBased, Eigen::internal::IndexBased, double, double>’ 739 | CoeffReadCost = int(evaluator::CoeffReadCost) + int(evaluator::CoeffReadCost) + int(functor_traits::Cost), | ^~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:722:8: required from ‘struct Eigen::internal::evaluator, const Eigen::Transpose, -1, -1, false>, 1, -1, false> >, const Eigen::Block, 1, -1, false> >, -1, 1, true> > >’ 722 | struct evaluator > | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Redux.h:357:7: required from ‘class Eigen::internal::redux_evaluator, const Eigen::Transpose, -1, -1, false>, 1, -1, false> >, const Eigen::Block, 1, -1, false> >, -1, 1, true> > >’ 357 | class redux_evaluator : public internal::evaluator<_XprType> | ^~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Redux.h:414:17: required from ‘typename Eigen::internal::traits::Scalar Eigen::DenseBase::redux(const Func&) const [with BinaryOp = Eigen::internal::scalar_sum_op; Derived = Eigen::CwiseBinaryOp, const Eigen::Transpose, -1, -1, false>, 1, -1, false> >, const Eigen::Block, 1, -1, false> >, -1, 1, true> >; typename Eigen::internal::traits::Scalar = double]’ 414 | ThisEvaluator thisEval(derived()); | ^~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Redux.h:463:25: [ skipping 10 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:344:23: required from ‘static Eigen::Index Eigen::internal::llt_inplace::blocked(MatrixType&) [with MatrixType = Eigen::Matrix; Scalar = double; Eigen::Index = long int]’ 344 | return unblocked(m); | ~~~~~~~~~^~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:408:68: required from ‘static bool Eigen::internal::LLT_Traits::inplace_decomposition(MatrixType&) [with MatrixType = Eigen::Matrix]’ 408 | { return llt_inplace::blocked(m)==-1; } | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:456:42: required from ‘Eigen::LLT<_MatrixType, _UpLo>& Eigen::LLT::compute(const Eigen::EigenBase&) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix; int _UpLo = 1]’ 456 | bool ok = Traits::inplace_decomposition(m_matrix); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:109:14: required from ‘Eigen::LLT::LLT(const Eigen::EigenBase&) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix; int _UpLo = 1]’ 109 | compute(matrix.derived()); | ~~~~~~~^~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:542:10: required from ‘const Eigen::LLT::PlainObject> Eigen::MatrixBase::llt() const [with Derived = Eigen::Matrix; typename Eigen::DenseBase::PlainObject = Eigen::Matrix]’ 542 | return LLT(derived()); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../inst/include/RcppML/project.hpp:123:51: required from here 123 | Eigen::LLT a_llt = a.llt(); | ~~~~~^~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:1071:54: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 1071 | PacketAlignment = unpacket_traits::alignment, | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h: In instantiation of ‘struct Eigen::internal::evaluator, -1, -1, false>, -1, -1, false>, 1, -1, false> >’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:100:8: required from ‘struct Eigen::internal::evaluator, -1, -1, false>, -1, -1, false>, 1, -1, false> >’ 100 | struct evaluator | ^~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:311:41: required from ‘struct Eigen::internal::unary_evaluator, -1, -1, false>, -1, -1, false>, 1, -1, false> >, Eigen::internal::IndexBased, double>’ 311 | CoeffReadCost = evaluator::CoeffReadCost, | ^~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:90:8: required from ‘struct Eigen::internal::evaluator, -1, -1, false>, -1, -1, false>, 1, -1, false> > >’ 90 | struct evaluator : public unary_evaluator | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:100:8: required from ‘struct Eigen::internal::evaluator, -1, -1, false>, -1, -1, false>, 1, -1, false> > >’ 100 | struct evaluator | ^~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:739:41: required from ‘struct Eigen::internal::binary_evaluator, const Eigen::Transpose, -1, -1, false>, -1, -1, false>, 1, -1, false> >, const Eigen::Block, -1, -1, false>, 1, -1, false> >, -1, 1, true> >, Eigen::internal::IndexBased, Eigen::internal::IndexBased, double, double>’ 739 | CoeffReadCost = int(evaluator::CoeffReadCost) + int(evaluator::CoeffReadCost) + int(functor_traits::Cost), | ^~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:722:8: [ skipping 13 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:363:24: required from ‘static Eigen::Index Eigen::internal::llt_inplace::blocked(MatrixType&) [with MatrixType = Eigen::Matrix; Scalar = double; Eigen::Index = long int]’ 363 | if((ret=unblocked(A11))>=0) return k+ret; | ~~~~~~~~~^~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:408:68: required from ‘static bool Eigen::internal::LLT_Traits::inplace_decomposition(MatrixType&) [with MatrixType = Eigen::Matrix]’ 408 | { return llt_inplace::blocked(m)==-1; } | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:456:42: required from ‘Eigen::LLT<_MatrixType, _UpLo>& Eigen::LLT::compute(const Eigen::EigenBase&) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix; int _UpLo = 1]’ 456 | bool ok = Traits::inplace_decomposition(m_matrix); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:109:14: required from ‘Eigen::LLT::LLT(const Eigen::EigenBase&) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix; int _UpLo = 1]’ 109 | compute(matrix.derived()); | ~~~~~~~^~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:542:10: required from ‘const Eigen::LLT::PlainObject> Eigen::MatrixBase::llt() const [with Derived = Eigen::Matrix; typename Eigen::DenseBase::PlainObject = Eigen::Matrix]’ 542 | return LLT(derived()); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../inst/include/RcppML/project.hpp:123:51: required from here 123 | Eigen::LLT a_llt = a.llt(); | ~~~~~^~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:1071:54: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 1071 | PacketAlignment = unpacket_traits::alignment, | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h: In instantiation of ‘struct Eigen::internal::evaluator, -1, -1, false>, 1, -1, false> >, -1, 1, true> >’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:100:8: required from ‘struct Eigen::internal::evaluator, -1, -1, false>, 1, -1, false> >, -1, 1, true> >’ 100 | struct evaluator | ^~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:739:78: required from ‘struct Eigen::internal::binary_evaluator, const Eigen::Transpose, -1, -1, false>, -1, -1, false>, 1, -1, false> >, const Eigen::Block, -1, -1, false>, 1, -1, false> >, -1, 1, true> >, Eigen::internal::IndexBased, Eigen::internal::IndexBased, double, double>’ 739 | CoeffReadCost = int(evaluator::CoeffReadCost) + int(evaluator::CoeffReadCost) + int(functor_traits::Cost), | ^~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:722:8: required from ‘struct Eigen::internal::evaluator, const Eigen::Transpose, -1, -1, false>, -1, -1, false>, 1, -1, false> >, const Eigen::Block, -1, -1, false>, 1, -1, false> >, -1, 1, true> > >’ 722 | struct evaluator > | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Redux.h:357:7: required from ‘class Eigen::internal::redux_evaluator, const Eigen::Transpose, -1, -1, false>, -1, -1, false>, 1, -1, false> >, const Eigen::Block, -1, -1, false>, 1, -1, false> >, -1, 1, true> > >’ 357 | class redux_evaluator : public internal::evaluator<_XprType> | ^~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Redux.h:414:17: required from ‘typename Eigen::internal::traits::Scalar Eigen::DenseBase::redux(const Func&) const [with BinaryOp = Eigen::internal::scalar_sum_op; Derived = Eigen::CwiseBinaryOp, const Eigen::Transpose, -1, -1, false>, -1, -1, false>, 1, -1, false> >, const Eigen::Block, -1, -1, false>, 1, -1, false> >, -1, 1, true> >; typename Eigen::internal::traits::Scalar = double]’ 414 | ThisEvaluator thisEval(derived()); | ^~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Redux.h:463:25: [ skipping 10 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:363:24: required from ‘static Eigen::Index Eigen::internal::llt_inplace::blocked(MatrixType&) [with MatrixType = Eigen::Matrix; Scalar = double; Eigen::Index = long int]’ 363 | if((ret=unblocked(A11))>=0) return k+ret; | ~~~~~~~~~^~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:408:68: required from ‘static bool Eigen::internal::LLT_Traits::inplace_decomposition(MatrixType&) [with MatrixType = Eigen::Matrix]’ 408 | { return llt_inplace::blocked(m)==-1; } | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:456:42: required from ‘Eigen::LLT<_MatrixType, _UpLo>& Eigen::LLT::compute(const Eigen::EigenBase&) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix; int _UpLo = 1]’ 456 | bool ok = Traits::inplace_decomposition(m_matrix); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:109:14: required from ‘Eigen::LLT::LLT(const Eigen::EigenBase&) [with InputType = Eigen::Matrix; _MatrixType = Eigen::Matrix; int _UpLo = 1]’ 109 | compute(matrix.derived()); | ~~~~~~~^~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Cholesky/LLT.h:542:10: required from ‘const Eigen::LLT::PlainObject> Eigen::MatrixBase::llt() const [with Derived = Eigen::Matrix; typename Eigen::DenseBase::PlainObject = Eigen::Matrix]’ 542 | return LLT(derived()); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ ../inst/include/RcppML/project.hpp:123:51: required from here 123 | Eigen::LLT a_llt = a.llt(); | ~~~~~^~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:1071:54: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 1071 | PacketAlignment = unpacket_traits::alignment, | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h: In instantiation of ‘struct Eigen::internal::evaluator, 0, Eigen::OuterStride<> >, -1, 1, true> >’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:100:8: required from ‘struct Eigen::internal::evaluator, 0, Eigen::OuterStride<> >, -1, 1, true> >’ 100 | struct evaluator | ^~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:1043:41: required from ‘struct Eigen::internal::evaluator, 0, Eigen::OuterStride<> >, -1, 1, true>, -1, 1, false> >’ 1043 | CoeffReadCost = evaluator::CoeffReadCost, | ^~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:100:8: required from ‘struct Eigen::internal::evaluator, 0, Eigen::OuterStride<> >, -1, 1, true>, -1, 1, false> >’ 100 | struct evaluator | ^~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:739:78: required from ‘struct Eigen::internal::binary_evaluator, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Block, 0, Eigen::OuterStride<> >, -1, 1, true>, -1, 1, false> >, Eigen::internal::IndexBased, Eigen::internal::IndexBased, double, double>’ 739 | CoeffReadCost = int(evaluator::CoeffReadCost) + int(evaluator::CoeffReadCost) + int(functor_traits::Cost), | ^~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:722:8: required from ‘struct Eigen::internal::evaluator, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Block, 0, Eigen::OuterStride<> >, -1, 1, true>, -1, 1, false> > >’ 722 | struct evaluator > | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:774:20: [ skipping 11 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Solve.h:147:26: required from ‘static void Eigen::internal::Assignment, Eigen::internal::assign_op, Eigen::internal::Dense2Dense>::run(DstXprType&, const SrcXprType&, const Eigen::internal::assign_op&) [with DstXprType = Eigen::Block, -1, 1, true>; DecType = Eigen::LLT, 1>; RhsType = Eigen::Matrix; Scalar = double; SrcXprType = Eigen::Solve, 1>, Eigen::Matrix >]’ 147 | src.dec()._solve_impl(src.rhs(), dst); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:890:49: required from ‘void Eigen::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen::Block, -1, 1, true>; Src = Eigen::Solve, 1>, Eigen::Matrix >; Func = assign_op]’ 890 | Assignment::run(actualDst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:858:27: required from ‘void Eigen::internal::call_assignment(Dst&, const Src&, const Func&, typename enable_if<(! evaluator_assume_aliasing::value), void*>::type) [with Dst = Eigen::Block, -1, 1, true>; Src = Eigen::Solve, 1>, Eigen::Matrix >; Func = assign_op; typename enable_if<(! evaluator_assume_aliasing::value), void*>::type = void*; typename evaluator_traits::Shape = Eigen::DenseShape]’ 858 | call_assignment_no_alias(dst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:836:18: required from ‘void Eigen::internal::call_assignment(Dst&, const Src&) [with Dst = Eigen::Block, -1, 1, true>; Src = Eigen::Solve, 1>, Eigen::Matrix >]’ 836 | call_assignment(dst, src, internal::assign_op()); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Assign.h:66:28: required from ‘Derived& Eigen::MatrixBase::operator=(const Eigen::DenseBase&) [with OtherDerived = Eigen::Solve, 1>, Eigen::Matrix >; Derived = Eigen::Block, -1, 1, true>]’ 66 | internal::call_assignment(derived(), other.derived()); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../inst/include/RcppML/project.hpp:133:33: required from here 133 | h.col(i) = a_llt.solve(b); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:1071:54: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 1071 | PacketAlignment = unpacket_traits::alignment, | ^~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h: In instantiation of ‘struct Eigen::internal::evaluator, 0, Eigen::OuterStride<> >, -1, 1, true>, -1, 1, false> >’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:100:8: required from ‘struct Eigen::internal::evaluator, 0, Eigen::OuterStride<> >, -1, 1, true>, -1, 1, false> >’ 100 | struct evaluator | ^~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:739:78: required from ‘struct Eigen::internal::binary_evaluator, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Block, 0, Eigen::OuterStride<> >, -1, 1, true>, -1, 1, false> >, Eigen::internal::IndexBased, Eigen::internal::IndexBased, double, double>’ 739 | CoeffReadCost = int(evaluator::CoeffReadCost) + int(evaluator::CoeffReadCost) + int(functor_traits::Cost), | ^~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:722:8: required from ‘struct Eigen::internal::evaluator, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Block, 0, Eigen::OuterStride<> >, -1, 1, true>, -1, 1, false> > >’ 722 | struct evaluator > | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:774:20: required from ‘void Eigen::internal::call_dense_assignment_loop(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen::Map, 0, Eigen::Stride<0, 0> >; SrcXprType = Eigen::CwiseBinaryOp, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Block, 0, Eigen::OuterStride<> >, -1, 1, true>, -1, 1, false> >; Functor = sub_assign_op]’ 774 | SrcEvaluatorType srcEvaluator(src); | ^~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:954:31: required from ‘static void Eigen::internal::Assignment::run(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen::Map, 0, Eigen::Stride<0, 0> >; SrcXprType = Eigen::CwiseBinaryOp, const Eigen::CwiseNullaryOp, const Eigen::Matrix >, const Eigen::Block, 0, Eigen::OuterStride<> >, -1, 1, true>, -1, 1, false> >; Functor = Eigen::internal::sub_assign_op; Weak = void]’ 954 | call_dense_assignment_loop(dst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:890:49: [ skipping 9 instantiation contexts, use -ftemplate-backtrace-limit=0 to disable ] /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Solve.h:147:26: required from ‘static void Eigen::internal::Assignment, Eigen::internal::assign_op, Eigen::internal::Dense2Dense>::run(DstXprType&, const SrcXprType&, const Eigen::internal::assign_op&) [with DstXprType = Eigen::Block, -1, 1, true>; DecType = Eigen::LLT, 1>; RhsType = Eigen::Matrix; Scalar = double; SrcXprType = Eigen::Solve, 1>, Eigen::Matrix >]’ 147 | src.dec()._solve_impl(src.rhs(), dst); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:890:49: required from ‘void Eigen::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen::Block, -1, 1, true>; Src = Eigen::Solve, 1>, Eigen::Matrix >; Func = assign_op]’ 890 | Assignment::run(actualDst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:858:27: required from ‘void Eigen::internal::call_assignment(Dst&, const Src&, const Func&, typename enable_if<(! evaluator_assume_aliasing::value), void*>::type) [with Dst = Eigen::Block, -1, 1, true>; Src = Eigen::Solve, 1>, Eigen::Matrix >; Func = assign_op; typename enable_if<(! evaluator_assume_aliasing::value), void*>::type = void*; typename evaluator_traits::Shape = Eigen::DenseShape]’ 858 | call_assignment_no_alias(dst, src, func); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/AssignEvaluator.h:836:18: required from ‘void Eigen::internal::call_assignment(Dst&, const Src&) [with Dst = Eigen::Block, -1, 1, true>; Src = Eigen::Solve, 1>, Eigen::Matrix >]’ 836 | call_assignment(dst, src, internal::assign_op()); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Assign.h:66:28: required from ‘Derived& Eigen::MatrixBase::operator=(const Eigen::DenseBase&) [with OtherDerived = Eigen::Solve, 1>, Eigen::Matrix >; Derived = Eigen::Block, -1, 1, true>]’ 66 | internal::call_assignment(derived(), other.derived()); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../inst/include/RcppML/project.hpp:133:33: required from here 133 | h.col(i) = a_llt.solve(b); | ^ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/CoreEvaluators.h:1071:54: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 1071 | PacketAlignment = unpacket_traits::alignment, | ^~~~~~~~~ g++-14 -std=gnu++11 -shared -L/home/hornik/tmp/R-d-gcc-14/lib -Wl,-O1 -o RcppML.so RcppExports.o RcppFunctions.o -fopenmp -llapack -L/home/hornik/tmp/R-d-gcc-14/lib -lRblas -lgfortran -lm -lquadmath -L/home/hornik/tmp/R-d-gcc-14/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpuKIglG/R.INSTALL31348220b07e9a/RcppML/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-RcppML/00new/RcppML/libs ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (RcppML) begin installing package ‘gghalves’ * installing *source* package ‘lsei’ ... ** this is package ‘lsei’ version ‘1.3-0’ ** package ‘lsei’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C compiler: ‘gcc-14 (Debian 14.2.0-19) 14.2.0’ using Fortran compiler: ‘GNU Fortran (Debian 14.2.0-19) 14.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpV8iODJ/R.INSTALL3164e16d0b4ca/lsei/src' gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c init.c -o init.o gfortran-14 -fpic -g -O2 -Wall -pedantic -mtune=native -c lsei.f -o lsei.o gfortran-14 -fpic -g -O2 -Wall -pedantic -mtune=native -c pnnls.f -o pnnls.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c utils.c -o utils.o gcc-14 -std=gnu23 -shared -L/home/hornik/tmp/R-d-gcc-14/lib -Wl,-O1 -o lsei.so init.o lsei.o pnnls.o utils.o -lgfortran -lm -lquadmath -L/home/hornik/tmp/R-d-gcc-14/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpV8iODJ/R.INSTALL3164e16d0b4ca/lsei/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-lsei/00new/lsei/libs ** R ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (lsei) begin installing package ‘glmulti’ * installing *source* package ‘KEGGgraph’ ... ** this is package ‘KEGGgraph’ version ‘1.68.0’ ** using staged installation ** R ** data *** moving datasets to lazyload DB ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (KEGGgraph) begin installing package ‘iNEXT’ * installing *source* package ‘rhub’ ... ** this is package ‘rhub’ version ‘2.0.1’ ** package ‘rhub’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (rhub) begin installing package ‘indicspecies’ * installing *source* package ‘qualpalr’ ... ** this is package ‘qualpalr’ version ‘0.4.4’ ** package ‘qualpalr’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C++ compiler: ‘g++-14 (Debian 14.2.0-19) 14.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpwIrfmH/R.INSTALL315ac5332383e8/qualpalr/src' g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c RcppExports.cpp -o RcppExports.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c qualpal.cpp -o qualpal.o g++-14 -std=gnu++17 -shared -L/home/hornik/tmp/R-d-gcc-14/lib -Wl,-O1 -o qualpalr.so RcppExports.o qualpal.o -fopenmp -llapack -L/home/hornik/tmp/R-d-gcc-14/lib -lRblas -lgfortran -lm -lquadmath -L/home/hornik/tmp/R-d-gcc-14/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpwIrfmH/R.INSTALL315ac5332383e8/qualpalr/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-qualpalr/00new/qualpalr/libs ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (qualpalr) begin installing package ‘phyloseqGraphTest’ * installing *source* package ‘TxDb.Hsapiens.UCSC.hg19.knownGene’ ... ** this is package ‘TxDb.Hsapiens.UCSC.hg19.knownGene’ version ‘3.2.2’ ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (TxDb.Hsapiens.UCSC.hg19.knownGene) begin installing package ‘pkgnet’ * installing *source* package ‘gghalves’ ... ** this is package ‘gghalves’ version ‘0.1.4’ ** package ‘gghalves’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (gghalves) begin installing package ‘rotl’ * installing *source* package ‘ComplexUpset’ ... ** this is package ‘ComplexUpset’ version ‘1.3.3’ ** package ‘ComplexUpset’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (ComplexUpset) begin installing package ‘SRS’ * installing *source* package ‘glmulti’ ... ** this is package ‘glmulti’ version ‘1.0.8’ ** package ‘glmulti’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading in method for ‘getfit’ with signature ‘object="coxph"’: no definition for class “coxph” in method for ‘getfit’ with signature ‘object="coxph.null"’: no definition for class “coxph.null” ** help *** installing help indices ** building package indices ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (glmulti) begin installing package ‘treemapify’ * installing *source* package ‘TreeSummarizedExperiment’ ... ** this is package ‘TreeSummarizedExperiment’ version ‘2.16.1’ ** using staged installation ** R ** data *** moving datasets to lazyload DB ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (TreeSummarizedExperiment) begin installing package ‘venneuler’ * installing *source* package ‘indicspecies’ ... ** this is package ‘indicspecies’ version ‘1.8.0’ ** package ‘indicspecies’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** data ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (indicspecies) begin installing package ‘Boruta’ * installing *source* package ‘bumphunter’ ... ** this is package ‘bumphunter’ version ‘1.50.0’ ** using staged installation ** R ** data *** moving datasets to lazyload DB ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (bumphunter) begin installing package ‘switchBox’ * installing *source* package ‘org.Rn.eg.db’ ... ** this is package ‘org.Rn.eg.db’ version ‘3.21.0’ ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (org.Rn.eg.db) begin installing package ‘leukemiasEset’ * installing *source* package ‘CoordinateCleaner’ ... ** this is package ‘CoordinateCleaner’ version ‘3.0.1’ ** package ‘CoordinateCleaner’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** data *** moving datasets to lazyload DB ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (CoordinateCleaner) begin installing package ‘castor’ * installing *source* package ‘Boruta’ ... ** this is package ‘Boruta’ version ‘8.0.0’ ** package ‘Boruta’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** data ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (Boruta) begin installing package ‘muscle’ * installing *source* package ‘venneuler’ ... ** this is package ‘venneuler’ version ‘1.1-4’ ** package ‘venneuler’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (venneuler) begin installing package ‘relaimpo’ * installing *source* package ‘rotl’ ... ** this is package ‘rotl’ version ‘3.1.0’ ** package ‘rotl’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (rotl) begin installing package ‘voronoiTreemap’ * installing *source* package ‘leukemiasEset’ ... ** this is package ‘leukemiasEset’ version ‘1.44.0’ ** using staged installation ** data ** help *** installing help indices ** building package indices ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (leukemiasEset) begin installing package ‘r.proxy’ * installing *source* package ‘treemapify’ ... ** this is package ‘treemapify’ version ‘2.5.6’ ** package ‘treemapify’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** data *** moving datasets to lazyload DB ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (treemapify) begin installing package ‘fabia’ * installing *source* package ‘r.proxy’ ... ** this is package ‘r.proxy’ version ‘0.1.3’ ** package ‘r.proxy’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (r.proxy) begin installing package ‘iBBiG’ * installing *source* package ‘NNS’ ... ** this is package ‘NNS’ version ‘11.3’ ** package ‘NNS’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C++ compiler: ‘g++-14 (Debian 14.2.0-19) 14.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/Rtmp80JC2A/R.INSTALL3152e615c4db51/NNS/src' g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c RcppExports.cpp -o RcppExports.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c fast_lm.cpp -o fast_lm.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c nns_rcpp.cpp -o nns_rcpp.o In file included from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/tbb/tbb.h:32, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/RcppParallel/TBB.h:10, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/RcppParallel.h:24, from nns_rcpp.cpp:4: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/tbb/atomic.h: In instantiation of ‘tbb::atomic& tbb::internal::as_atomic(T&) [with T = long unsigned int]’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/tbb/tbb_thread.h:251:29: required from here 251 | return as_atomic(location.my_id).compare_and_swap(value.my_id, comparand.my_id); | ~~~~~~~~~^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/tbb/atomic.h:544:12: warning: casting ‘long unsigned int’ to ‘tbb::atomic&’ does not use ‘constexpr tbb::atomic::atomic(long unsigned int)’ [-Wcast-user-defined] 544 | return (atomic&)t; | ^~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/tbb/atomic.h: In instantiation of ‘tbb::atomic& tbb::internal::as_atomic(T&) [with T = tbb::interface5::internal::hash_map_base::bucket*]’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/tbb/concurrent_hash_map.h:291:31: required from here 291 | && as_atomic(my_table[new_seg]).compare_and_swap(is_allocating, NULL) == NULL ) | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/tbb/atomic.h:544:12: warning: casting ‘tbb::interface5::internal::hash_map_base::bucket*’ to ‘tbb::atomic&’ does not use ‘constexpr tbb::atomic::atomic(T*) [with T = tbb::interface5::internal::hash_map_base::bucket]’ [-Wcast-user-defined] 544 | return (atomic&)t; | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c partial_moments.cpp -o partial_moments.o In file included from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/tbb/tbb.h:32, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/RcppParallel/TBB.h:10, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/RcppParallel.h:24, from partial_moments.cpp:3: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/tbb/atomic.h: In instantiation of ‘tbb::atomic& tbb::internal::as_atomic(T&) [with T = long unsigned int]’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/tbb/tbb_thread.h:251:29: required from here 251 | return as_atomic(location.my_id).compare_and_swap(value.my_id, comparand.my_id); | ~~~~~~~~~^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/tbb/atomic.h:544:12: warning: casting ‘long unsigned int’ to ‘tbb::atomic&’ does not use ‘constexpr tbb::atomic::atomic(long unsigned int)’ [-Wcast-user-defined] 544 | return (atomic&)t; | ^~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/tbb/atomic.h: In instantiation of ‘tbb::atomic& tbb::internal::as_atomic(T&) [with T = tbb::interface5::internal::hash_map_base::bucket*]’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/tbb/concurrent_hash_map.h:291:31: required from here 291 | && as_atomic(my_table[new_seg]).compare_and_swap(is_allocating, NULL) == NULL ) | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/tbb/atomic.h:544:12: warning: casting ‘tbb::interface5::internal::hash_map_base::bucket*’ to ‘tbb::atomic&’ does not use ‘constexpr tbb::atomic::atomic(T*) [with T = tbb::interface5::internal::hash_map_base::bucket]’ [-Wcast-user-defined] 544 | return (atomic&)t; | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c partial_moments_rcpp.cpp -o partial_moments_rcpp.o In file included from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/tbb/tbb.h:32, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/RcppParallel/TBB.h:10, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/RcppParallel.h:24, from partial_moments_rcpp.cpp:3: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/tbb/atomic.h: In instantiation of ‘tbb::atomic& tbb::internal::as_atomic(T&) [with T = long unsigned int]’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/tbb/tbb_thread.h:251:29: required from here 251 | return as_atomic(location.my_id).compare_and_swap(value.my_id, comparand.my_id); | ~~~~~~~~~^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/tbb/atomic.h:544:12: warning: casting ‘long unsigned int’ to ‘tbb::atomic&’ does not use ‘constexpr tbb::atomic::atomic(long unsigned int)’ [-Wcast-user-defined] 544 | return (atomic&)t; | ^~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/tbb/atomic.h: In instantiation of ‘tbb::atomic& tbb::internal::as_atomic(T&) [with T = tbb::interface5::internal::hash_map_base::bucket*]’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/tbb/concurrent_hash_map.h:291:31: required from here 291 | && as_atomic(my_table[new_seg]).compare_and_swap(is_allocating, NULL) == NULL ) | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/tbb/atomic.h:544:12: warning: casting ‘tbb::interface5::internal::hash_map_base::bucket*’ to ‘tbb::atomic&’ does not use ‘constexpr tbb::atomic::atomic(T*) [with T = tbb::interface5::internal::hash_map_base::bucket]’ [-Wcast-user-defined] 544 | return (atomic&)t; | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -shared -L/home/hornik/tmp/R-d-gcc-14/lib -Wl,-O1 -o NNS.so RcppExports.o fast_lm.o nns_rcpp.o partial_moments.o partial_moments_rcpp.o -L/home/hornik/tmp/R-d-gcc-14/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/Rtmp80JC2A/R.INSTALL3152e615c4db51/NNS/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-NNS/00new/NNS/libs ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (NNS) begin installing package ‘BicARE’ * installing *source* package ‘pkgnet’ ... ** this is package ‘pkgnet’ version ‘0.5.0’ ** package ‘pkgnet’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (pkgnet) begin installing package ‘s4vd’ * installing *source* package ‘SRS’ ... ** this is package ‘SRS’ version ‘0.2.3’ ** package ‘SRS’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (SRS) begin installing package ‘BiBitR’ * installing *source* package ‘switchBox’ ... ** this is package ‘switchBox’ version ‘1.44.0’ ** using staged installation ** libs using C compiler: ‘gcc-14 (Debian 14.2.0-19) 14.2.0’ using C++ compiler: ‘g++-14 (Debian 14.2.0-19) 14.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/Rtmp8niEPd/R.INSTALL316d4b523322f/switchBox/src' g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c CalculateSignedScoreCore.cc -o CalculateSignedScoreCore.o CalculateSignedScoreCore.cc: In function ‘void CalculateSignedScoreCore(int*, int*, double*, int*, double*, int*, double*, double*, double*, double*, double*, double*, double*)’: CalculateSignedScoreCore.cc:36:26: warning: variable ‘pairsNo’ set but not used [-Wunused-but-set-variable] 36 | int i,j,l,countplace,pairsNo; | ^~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c CalculateSignedScoreCoreTieHandler.cc -o CalculateSignedScoreCoreTieHandler.o CalculateSignedScoreCoreTieHandler.cc: In function ‘void CalculateSignedScoreCoreTieHandler(int*, int*, double*, int*, double*, int*, double*, double*, double*, double*)’: CalculateSignedScoreCoreTieHandler.cc:49:12: warning: unused variable ‘score1’ [-Wunused-variable] 49 | double score1, score2, type; | ^~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c CalculateSignedScoreRestrictedPairsCore.cc -o CalculateSignedScoreRestrictedPairsCore.o CalculateSignedScoreRestrictedPairsCore.cc: In function ‘void CalculateSignedScoreRestrictedPairsCore(int*, int*, double*, int*, double*, int*, int*, int*, int*, double*, double*, double*)’: CalculateSignedScoreRestrictedPairsCore.cc:22:25: warning: variable ‘countplace’ set but not used [-Wunused-but-set-variable] 22 | int i,l,countplace,pairsNo; | ^~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c CalculateSignedScoreRestrictedPairsCoreTieHandler.cc -o CalculateSignedScoreRestrictedPairsCoreTieHandler.o CalculateSignedScoreRestrictedPairsCoreTieHandler.cc: In function ‘void CalculateSignedScoreRestrictedPairsCoreTieHandler(int*, int*, double*, int*, double*, int*, int*, int*, int*, double*, double*, double*, double*)’: CalculateSignedScoreRestrictedPairsCoreTieHandler.cc:25:25: warning: unused variable ‘countplace’ [-Wunused-variable] 25 | int i,l,countplace,pairsNo; | ^~~~~~~~~~ CalculateSignedScoreRestrictedPairsCoreTieHandler.cc:35:24: warning: unused variable ‘score1’ [-Wunused-variable] 35 | double score1, score2, type; | ^~~~~~ gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c rinit.c -o rinit.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c vect2compC.cc -o vect2compC.o g++-14 -std=gnu++17 -shared -L/home/hornik/tmp/R-d-gcc-14/lib -Wl,-O1 -o switchBox.so CalculateSignedScoreCore.o CalculateSignedScoreCoreTieHandler.o CalculateSignedScoreRestrictedPairsCore.o CalculateSignedScoreRestrictedPairsCoreTieHandler.o rinit.o vect2compC.o -L/home/hornik/tmp/R-d-gcc-14/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/Rtmp8niEPd/R.INSTALL316d4b523322f/switchBox/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-switchBox/00new/switchBox/libs ** R ** data ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (switchBox) begin installing package ‘rqubic’ * installing *source* package ‘voronoiTreemap’ ... ** this is package ‘voronoiTreemap’ version ‘0.2.0’ ** package ‘voronoiTreemap’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** data *** moving datasets to lazyload DB ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (voronoiTreemap) begin installing package ‘modules’ * installing *source* package ‘BiocNeighbors’ ... ** this is package ‘BiocNeighbors’ version ‘2.2.0’ ** using staged installation ** libs using C++ compiler: ‘g++-14 (Debian 14.2.0-19) 14.2.0’ using C++17 make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpbAMUp2/R.INSTALL3134492dea441b/BiocNeighbors/src' g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I../inst/include -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/assorthead/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c RcppExports.cpp -o RcppExports.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I../inst/include -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/assorthead/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c annoy.cpp -o annoy.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I../inst/include -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/assorthead/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c exhaustive.cpp -o exhaustive.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I../inst/include -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/assorthead/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c find_mutual_nns.cpp -o find_mutual_nns.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I../inst/include -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/assorthead/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c generics.cpp -o generics.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I../inst/include -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/assorthead/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c hnsw.cpp -o hnsw.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I../inst/include -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/assorthead/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c kmknn.cpp -o kmknn.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I../inst/include -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/assorthead/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c vptree.cpp -o vptree.o g++-14 -std=gnu++17 -shared -L/home/hornik/tmp/R-d-gcc-14/lib -Wl,-O1 -o BiocNeighbors.so RcppExports.o annoy.o exhaustive.o find_mutual_nns.o generics.o hnsw.o kmknn.o vptree.o -L/home/hornik/tmp/R-d-gcc-14/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpbAMUp2/R.INSTALL3134492dea441b/BiocNeighbors/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-BiocNeighbors/00new/BiocNeighbors/libs ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (BiocNeighbors) begin installing package ‘ddalpha’ * installing *source* package ‘modules’ ... ** this is package ‘modules’ version ‘0.13.0’ ** package ‘modules’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (modules) begin installing package ‘qs2’ * installing *source* package ‘TxDb.Mmusculus.UCSC.mm10.knownGene’ ... ** this is package ‘TxDb.Mmusculus.UCSC.mm10.knownGene’ version ‘3.10.0’ ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (TxDb.Mmusculus.UCSC.mm10.knownGene) begin installing package ‘MAST’ * installing *source* package ‘Gmedian’ ... ** this is package ‘Gmedian’ version ‘1.2.7’ ** package ‘Gmedian’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C++ compiler: ‘g++-14 (Debian 14.2.0-19) 14.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/Rtmp8z509c/R.INSTALL315a4960688d75/Gmedian/src' g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RSpectra/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c Gmedian.cpp -o Gmedian.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RSpectra/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c RcppExports.cpp -o RcppExports.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RSpectra/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c Weiszfeld.cpp -o Weiszfeld.o g++-14 -std=gnu++17 -shared -L/home/hornik/tmp/R-d-gcc-14/lib -Wl,-O1 -o Gmedian.so Gmedian.o RcppExports.o Weiszfeld.o -L/home/hornik/tmp/R-d-gcc-14/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/Rtmp8z509c/R.INSTALL315a4960688d75/Gmedian/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-Gmedian/00new/Gmedian/libs ** R ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (Gmedian) begin installing package ‘dashboardthemes’ * installing *source* package ‘iNEXT’ ... ** this is package ‘iNEXT’ version ‘3.0.1’ ** package ‘iNEXT’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C++ compiler: ‘g++-14 (Debian 14.2.0-19) 14.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/Rtmp4DNNBb/R.INSTALL316ad86fd6586d/iNEXT/src' g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c RcppExports.cpp -o RcppExports.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c subfuns.cpp -o subfuns.o g++-14 -std=gnu++17 -shared -L/home/hornik/tmp/R-d-gcc-14/lib -Wl,-O1 -o iNEXT.so RcppExports.o subfuns.o -L/home/hornik/tmp/R-d-gcc-14/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/Rtmp4DNNBb/R.INSTALL316ad86fd6586d/iNEXT/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-iNEXT/00new/iNEXT/libs ** R ** data ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (iNEXT) begin installing package ‘dearseq’ * installing *source* package ‘ANCOMBC’ ... ** this is package ‘ANCOMBC’ version ‘2.10.1’ ** using staged installation ** R ** data ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (ANCOMBC) begin installing package ‘kimisc’ * installing *source* package ‘SharedObject’ ... ** this is package ‘SharedObject’ version ‘1.22.0’ ** using staged installation checking for gcc... gcc-14 -std=gnu23 checking whether the C compiler works... yes checking for C compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... no checking for suffix of object files... o checking whether we are using the GNU C compiler... yes checking whether gcc-14 -std=gnu23 accepts -g... yes checking for gcc-14 -std=gnu23 option to accept ISO C89... none needed checking for shm_open in -lrt... yes configure: creating ./config.status config.status: creating src/Makevars ** libs using C++ compiler: ‘g++-14 (Debian 14.2.0-19) 14.2.0’ using C++11 make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpuIHXS0/R.INSTALL315ba766e979c1/SharedObject/src' g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c C_interface.cpp -o C_interface.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c RcppExports.cpp -o RcppExports.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c altrep.cpp -o altrep.o altrep.cpp: In function ‘SEXPREC* createSharedStringFromSource(SEXP, bool, SEXP)’: altrep.cpp:146:69: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘long unsigned int’ [-Wformat=] 146 | Rf_error("Something is wrong with the unit size: %llu\n", unitSize); | ~~~^ ~~~~~~~~ | | | | | long unsigned int | long long unsigned int | %lu altrep.cpp: In function ‘SEXPREC* unshareString(SEXP, SEXP)’: altrep.cpp:241:98: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘size_t’ {aka ‘long unsigned int’} [-Wformat=] 241 | Rf_error("Unknown unit size in the unshareString function, unit size: %llu", (uint64_t)unitSize); | ~~~^ ~~~~~~~~~~~~~~~~~~ | | | | | size_t {aka long unsigned int} | long long unsigned int | %lu g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c altrepRegistration.cpp -o altrepRegistration.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c numericAltrepOperations.cpp -o numericAltrepOperations.o numericAltrepOperations.cpp: In function ‘Rboolean sharedVector_Inspect(SEXP, int, int, int, void (*)(SEXP, int, int, int))’: numericAltrepOperations.cpp:13:27: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘R_xlen_t’ {aka ‘long int’} [-Wformat=] 13 | Rprintf(" (len=%llu, type=%d, COW=%d, SC=%d, SS=%d) shared object ID:%s\n", Rf_xlength(x), TYPEOF(x), | ~~~^ ~~~~~~~~~~~~~ | | | | long long unsigned int R_xlen_t {aka long int} | %lu g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c sharedMemory.cpp -o sharedMemory.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c sharedObjectClass.cpp -o sharedObjectClass.o sharedObjectClass.cpp: In function ‘void validate_shared_memory(std::string, boost::interprocess::shared_memory_object*)’: sharedObjectClass.cpp:73:14: warning: comparison of integer expressions of different signedness: ‘boost::interprocess::offset_t’ {aka ‘long int’} and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 73 | if (size > free_size) | ~~~~~^~~~~~~~~~~ sharedObjectClass.cpp:93:62: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 3 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 93 | "Testing shared memory failed, key: %s, size: %lluB.\n" | ~~~^ | | | long long unsigned int | %lu ...... 96 | key.c_str(), (uint64_t)size); | ~~~~~~~~~~~~~~ | | | uint64_t {aka long unsigned int} In function ‘uint64_t get_size(boost::interprocess::shared_memory_object*)’, inlined from ‘void SharedObjectClass::openSharedMemoryHandle()’ at sharedObjectClass.cpp:121:20: sharedObjectClass.cpp:29:12: warning: ‘size’ may be used uninitialized [-Wmaybe-uninitialized] 29 | return size; | ^~~~ sharedObjectClass.cpp: In member function ‘void SharedObjectClass::openSharedMemoryHandle()’: sharedObjectClass.cpp:27:14: note: ‘size’ was declared here 27 | offset_t size; | ^~~~ In function ‘uint64_t get_size(boost::interprocess::shared_memory_object*)’, inlined from ‘size_t SharedObjectClass::getSharedMemorySize()’ at sharedObjectClass.cpp:148:28: sharedObjectClass.cpp:29:12: warning: ‘size’ may be used uninitialized [-Wmaybe-uninitialized] 29 | return size; | ^~~~ sharedObjectClass.cpp: In member function ‘size_t SharedObjectClass::getSharedMemorySize()’: sharedObjectClass.cpp:27:14: note: ‘size’ was declared here 27 | offset_t size; | ^~~~ In function ‘uint64_t get_size(boost::interprocess::shared_memory_object*)’, inlined from ‘size_t SharedObjectClass::getSharedMemorySize()’ at sharedObjectClass.cpp:141:24: sharedObjectClass.cpp:29:12: warning: ‘size’ may be used uninitialized [-Wmaybe-uninitialized] 29 | return size; | ^~~~ sharedObjectClass.cpp: In member function ‘size_t SharedObjectClass::getSharedMemorySize()’: sharedObjectClass.cpp:27:14: note: ‘size’ was declared here 27 | offset_t size; | ^~~~ In function ‘uint64_t get_size(boost::interprocess::shared_memory_object*)’, inlined from ‘void SharedObjectClass::allocateSharedMemory()’ at sharedObjectClass.cpp:228:20: sharedObjectClass.cpp:29:12: warning: ‘size’ may be used uninitialized [-Wmaybe-uninitialized] 29 | return size; | ^~~~ sharedObjectClass.cpp: In member function ‘void SharedObjectClass::allocateSharedMemory()’: sharedObjectClass.cpp:27:14: note: ‘size’ was declared here 27 | offset_t size; | ^~~~ g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c stringAltrepOperations.cpp -o stringAltrepOperations.o stringAltrepOperations.cpp: In function ‘Rboolean sharedString_Inspect(SEXP, int, int, int, void (*)(SEXP, int, int, int))’: stringAltrepOperations.cpp:13:23: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘R_xlen_t’ {aka ‘long int’} [-Wformat=] 13 | Rprintf(" (len=%llu, COW=%d) shared string object\n", Rf_xlength(x), | ~~~^ ~~~~~~~~~~~~~ | | | | long long unsigned int R_xlen_t {aka long int} | %lu g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c utils.cpp -o utils.o g++-14 -std=gnu++11 -shared -L/home/hornik/tmp/R-d-gcc-14/lib -Wl,-O1 -o SharedObject.so C_interface.o RcppExports.o altrep.o altrepRegistration.o numericAltrepOperations.o sharedMemory.o sharedObjectClass.o stringAltrepOperations.o utils.o -lrt -L/home/hornik/tmp/R-d-gcc-14/lib -lR mkdir -p ../inst/include&&\ mkdir -p ../inst/include/SharedObject&&\ mkdir -p ../inst/usrlib ar -crv SharedObject.a C_interface.o RcppExports.o altrep.o altrepRegistration.o numericAltrepOperations.o sharedMemory.o sharedObjectClass.o stringAltrepOperations.o utils.o a - C_interface.o a - RcppExports.o a - altrep.o a - altrepRegistration.o a - numericAltrepOperations.o a - sharedMemory.o a - sharedObjectClass.o a - stringAltrepOperations.o a - utils.o cp "sharedMemory.h" "../inst/include/SharedObject/"&&\ cp SharedObject.a "../inst/usrlib/" make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpuIHXS0/R.INSTALL315ba766e979c1/SharedObject/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-SharedObject/00new/SharedObject/libs ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (SharedObject) begin installing package ‘knitcitations’ * installing *source* package ‘dashboardthemes’ ... ** this is package ‘dashboardthemes’ version ‘1.1.6’ ** package ‘dashboardthemes’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (dashboardthemes) begin installing package ‘BiocManager’ * installing *source* package ‘TxDb.Hsapiens.UCSC.hg38.knownGene’ ... ** this is package ‘TxDb.Hsapiens.UCSC.hg38.knownGene’ version ‘3.21.0’ ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (TxDb.Hsapiens.UCSC.hg38.knownGene) begin installing package ‘future’ * installing *source* package ‘kimisc’ ... ** this is package ‘kimisc’ version ‘1.0.0’ ** package ‘kimisc’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (kimisc) begin installing package ‘pheatmap’ * installing *source* package ‘Category’ ... ** this is package ‘Category’ version ‘2.74.0’ ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (Category) begin installing package ‘siggenes’ * installing *source* package ‘iBBiG’ ... ** this is package ‘iBBiG’ version ‘1.52.0’ ** using staged installation ** libs using C compiler: ‘gcc-14 (Debian 14.2.0-19) 14.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/Rtmpavhk5m/R.INSTALL3170dd2522db92/iBBiG/src' gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c R_init_iBBiG.c -o R_init_iBBiG.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c iBBiG.c -o iBBiG.o gcc-14 -std=gnu23 -shared -L/home/hornik/tmp/R-d-gcc-14/lib -Wl,-O1 -o iBBiG.so R_init_iBBiG.o iBBiG.o -L/home/hornik/tmp/R-d-gcc-14/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/Rtmpavhk5m/R.INSTALL3170dd2522db92/iBBiG/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-iBBiG/00new/iBBiG/libs ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (iBBiG) begin installing package ‘FDb.InfiniumMethylation.hg19’ * installing *source* package ‘BiocManager’ ... ** this is package ‘BiocManager’ version ‘1.30.26’ ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (BiocManager) begin installing package ‘WikidataR’ * installing *source* package ‘relaimpo’ ... ** this is package ‘relaimpo’ version ‘2.2-7’ ** package ‘relaimpo’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (relaimpo) begin installing package ‘aws’ * installing *source* package ‘s4vd’ ... ** this is package ‘s4vd’ version ‘1.1-1’ ** package ‘s4vd’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** data ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (s4vd) begin installing package ‘oligoClasses’ * installing *source* package ‘BiBitR’ ... ** this is package ‘BiBitR’ version ‘0.3.1’ ** package ‘BiBitR’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (BiBitR) begin installing package ‘mzR’ * installing *source* package ‘fabia’ ... ** this is package ‘fabia’ version ‘2.54.0’ ** using staged installation ** libs using C compiler: ‘gcc-14 (Debian 14.2.0-19) 14.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpYhFpDG/R.INSTALL316fc825ca0ebd/fabia/src' gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c fabiac.c -o fabiac.o fabiac.c: In function ‘readSpfabicResult’: fabiac.c:3588:17: warning: argument 1 null where non-null expected [-Wnonnull] 3588 | fclose (pFile); | ^~~~~~~~~~~~~~ In file included from fabiac.c:2: /usr/include/stdio.h:184:12: note: in a call to function ‘fclose’ declared ‘nonnull’ 184 | extern int fclose (FILE *__stream) __nonnull ((1)); | ^~~~~~ gcc-14 -std=gnu23 -shared -L/home/hornik/tmp/R-d-gcc-14/lib -Wl,-O1 -o fabia.so fabiac.o -L/home/hornik/tmp/R-d-gcc-14/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpYhFpDG/R.INSTALL316fc825ca0ebd/fabia/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-fabia/00new/fabia/libs ** R ** demo ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (fabia) begin installing package ‘MsFeatures’ * installing *source* package ‘knitcitations’ ... ** this is package ‘knitcitations’ version ‘1.0.12’ ** package ‘knitcitations’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (knitcitations) begin installing package ‘MetaboCoreUtils’ * installing *source* package ‘phyloseqGraphTest’ ... ** this is package ‘phyloseqGraphTest’ version ‘0.1.1’ ** package ‘phyloseqGraphTest’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (phyloseqGraphTest) begin installing package ‘mzID’ * installing *source* package ‘rqubic’ ... ** this is package ‘rqubic’ version ‘1.54.0’ ** using staged installation ** libs using C compiler: ‘gcc-14 (Debian 14.2.0-19) 14.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpDf5QOk/R.INSTALL3171731cbd7dcd/rqubic/src' gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c bicluster.c -o bicluster.o bicluster.c: In function ‘seed_intersect_r’: bicluster.c:354:11: warning: suggest parentheses around assignment used as truth value [-Wparentheses] 354 | if (flag=ss) (*m_cnt)++; | ^~~~ gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c discretize.c -o discretize.o In file included from discretize.c:9: rqubic.h:62:20: warning: ‘MINCOL_ATT_NAME’ defined but not used [-Wunused-variable] 62 | static const char *MINCOL_ATT_NAME="minimumCol"; | ^~~~~~~~~~~~~~~ rqubic.h:61:20: warning: ‘EDGELIST_ATT_NAME’ defined but not used [-Wunused-variable] 61 | static const char *EDGELIST_ATT_NAME="edgelist"; | ^~~~~~~~~~~~~~~~~ gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c fib.c -o fib.o fib.c: In function ‘fh_makekeyheap’: fib.c:170:22: warning: overflow in conversion from ‘int’ to ‘signed char:1’ changes value from ‘1’ to ‘-1’ [-Woverflow] 170 | n->fh_keys = 1; | ^ In file included from fib.c:35: rqubic.h: At top level: rqubic.h:62:20: warning: ‘MINCOL_ATT_NAME’ defined but not used [-Wunused-variable] 62 | static const char *MINCOL_ATT_NAME="minimumCol"; | ^~~~~~~~~~~~~~~ rqubic.h:61:20: warning: ‘EDGELIST_ATT_NAME’ defined but not used [-Wunused-variable] 61 | static const char *EDGELIST_ATT_NAME="edgelist"; | ^~~~~~~~~~~~~~~~~ gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c graph.c -o graph.o In function ‘compare_edges’, inlined from ‘fh_insert_fixed’ at graph.c:41:9, inlined from ‘generate_sorted_seeds’ at graph.c:147:7: graph.c:31:13: warning: array subscript ‘struct Edge[0]’ is partly outside array bounds of ‘struct Edge[0]’ [-Warray-bounds=] 31 | const int score_a = ((pEdge)a)->score; | ^~~~~~~ graph.c: In function ‘generate_sorted_seeds’: graph.c:131:9: note: object ‘_cur_min’ of size 8 131 | pEdge _cur_min = &__cur_min; | ^~~~~~~~ gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c rqubic.c -o rqubic.o In file included from rqubic.c:5: rqubic.h:62:20: warning: ‘MINCOL_ATT_NAME’ defined but not used [-Wunused-variable] 62 | static const char *MINCOL_ATT_NAME="minimumCol"; | ^~~~~~~~~~~~~~~ rqubic.h:61:20: warning: ‘EDGELIST_ATT_NAME’ defined but not used [-Wunused-variable] 61 | static const char *EDGELIST_ATT_NAME="edgelist"; | ^~~~~~~~~~~~~~~~~ gcc-14 -std=gnu23 -shared -L/home/hornik/tmp/R-d-gcc-14/lib -Wl,-O1 -o rqubic.so bicluster.o discretize.o fib.o graph.o rqubic.o -L/home/hornik/tmp/R-d-gcc-14/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpDf5QOk/R.INSTALL3171731cbd7dcd/rqubic/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-rqubic/00new/rqubic/libs ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (rqubic) begin installing package ‘illuminaio’ * installing *source* package ‘pheatmap’ ... ** this is package ‘pheatmap’ version ‘1.0.13’ ** package ‘pheatmap’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (pheatmap) begin installing package ‘ritis’ * installing *source* package ‘illuminaio’ ... ** this is package ‘illuminaio’ version ‘0.50.0’ ** using staged installation ** libs using C compiler: ‘gcc-14 (Debian 14.2.0-19) 14.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpjRTPxv/R.INSTALL317b3e5f866972/illuminaio/src' gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c 000.init.c -o 000.init.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c des.c -o des.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c local_des.c -o local_des.o gcc-14 -std=gnu23 -shared -L/home/hornik/tmp/R-d-gcc-14/lib -Wl,-O1 -o illuminaio.so 000.init.o des.o local_des.o -L/home/hornik/tmp/R-d-gcc-14/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpjRTPxv/R.INSTALL317b3e5f866972/illuminaio/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-illuminaio/00new/illuminaio/libs ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (illuminaio) begin installing package ‘MultiAssayExperiment’ * installing *source* package ‘WikidataR’ ... ** this is package ‘WikidataR’ version ‘2.3.3’ ** package ‘WikidataR’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (WikidataR) begin installing package ‘bluster’ * installing *source* package ‘ritis’ ... ** this is package ‘ritis’ version ‘1.0.0’ ** package ‘ritis’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** data *** moving datasets to lazyload DB ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (ritis) begin installing package ‘rbiom’ * installing *source* package ‘dearseq’ ... ** this is package ‘dearseq’ version ‘1.20.0’ ** using staged installation ** R ** data ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (dearseq) begin installing package ‘BatchJobs’ * installing *source* package ‘mzID’ ... ** this is package ‘mzID’ version ‘1.46.0’ ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (mzID) begin installing package ‘ggpattern’ * installing *source* package ‘future’ ... ** this is package ‘future’ version ‘1.58.0’ ** package ‘future’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** demo ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (future) begin installing package ‘ROntoTools’ * installing *source* package ‘MetaboCoreUtils’ ... ** this is package ‘MetaboCoreUtils’ version ‘1.16.1’ ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (MetaboCoreUtils) begin installing package ‘biocViews’ * installing *source* package ‘BicARE’ ... ** this is package ‘BicARE’ version ‘1.66.0’ ** using staged installation ** libs using C compiler: ‘gcc-14 (Debian 14.2.0-19) 14.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpRulbSb/R.INSTALL3171082c1594f5/BicARE/src' gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c BicARE.c -o BicARE.o BicARE.c: In function ‘floc’: BicARE.c:439:12: warning: unused variable ‘invk’ [-Wunused-variable] 439 | double invk = 1/(double)*k; | ^~~~ gcc-14 -std=gnu23 -shared -L/home/hornik/tmp/R-d-gcc-14/lib -Wl,-O1 -o BicARE.so BicARE.o -L/home/hornik/tmp/R-d-gcc-14/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpRulbSb/R.INSTALL3171082c1594f5/BicARE/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-BicARE/00new/BicARE/libs ** R ** data ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (BicARE) begin installing package ‘AnnoProbe’ * installing *source* package ‘siggenes’ ... ** this is package ‘siggenes’ version ‘1.82.0’ ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (siggenes) begin installing package ‘galah’ * installing *source* package ‘ggpattern’ ... ** this is package ‘ggpattern’ version ‘1.1.4’ ** package ‘ggpattern’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (ggpattern) begin installing package ‘taxadb’ * installing *source* package ‘BatchJobs’ ... ** this is package ‘BatchJobs’ version ‘1.9’ ** package ‘BatchJobs’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (BatchJobs) begin installing package ‘jointseg’ * installing *source* package ‘InteractionSet’ ... ** this is package ‘InteractionSet’ version ‘1.36.1’ ** using staged installation ** libs using C++ compiler: ‘g++-14 (Debian 14.2.0-19) 14.2.0’ using C++11 make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpbLRCVT/R.INSTALL315bc140c38bc6/InteractionSet/src' g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c box_bounds.cpp -o box_bounds.o box_bounds.cpp: In function ‘SEXPREC* get_box_bounds(SEXP, SEXP, SEXP, SEXP, SEXP, SEXP)’: box_bounds.cpp:10:13: warning: comparison of integer expressions of different signedness: ‘const size_t’ {aka ‘const long unsigned int’} and ‘R_xlen_t’ {aka ‘long int’} [-Wsign-compare] 10 | if (npts!=Adex.size()) { | ~~~~^~~~~~~~~~~~~ g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c detect_overlaps.cpp -o detect_overlaps.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c init.cpp -o init.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c link_overlaps.cpp -o link_overlaps.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c overlap_utils.cpp -o overlap_utils.o g++-14 -std=gnu++11 -shared -L/home/hornik/tmp/R-d-gcc-14/lib -Wl,-O1 -o InteractionSet.so box_bounds.o detect_overlaps.o init.o link_overlaps.o overlap_utils.o -L/home/hornik/tmp/R-d-gcc-14/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpbLRCVT/R.INSTALL315bc140c38bc6/InteractionSet/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-InteractionSet/00new/InteractionSet/libs ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (InteractionSet) begin installing package ‘ShortRead’ * installing *source* package ‘biocViews’ ... ** this is package ‘biocViews’ version ‘1.76.0’ ** using staged installation ** R ** data ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (biocViews) begin installing package ‘tmod’ * installing *source* package ‘jointseg’ ... ** this is package ‘jointseg’ version ‘1.0.3’ ** package ‘jointseg’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C compiler: ‘gcc-14 (Debian 14.2.0-19) 14.2.0’ using C++ compiler: ‘g++-14 (Debian 14.2.0-19) 14.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/RtmphEoVFF/R.INSTALL31806922c23ee6/jointseg/src' g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c Heap.cpp -o Heap.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c Node.cpp -o Node.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c Rwrappers.cc -o Rwrappers.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c colibri.cc -o colibri.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c init.c -o init.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c liste.cc -o liste.o g++-14 -std=gnu++17 -shared -L/home/hornik/tmp/R-d-gcc-14/lib -Wl,-O1 -o jointseg.so Heap.o Node.o Rwrappers.o colibri.o init.o liste.o -L/home/hornik/tmp/R-d-gcc-14/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmphEoVFF/R.INSTALL31806922c23ee6/jointseg/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-jointseg/00new/jointseg/libs ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (jointseg) begin installing package ‘AnnotationHub’ * installing *source* package ‘taxadb’ ... ** this is package ‘taxadb’ version ‘0.2.1’ ** package ‘taxadb’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (taxadb) begin installing package ‘ensembldb’ * installing *source* package ‘galah’ ... ** this is package ‘galah’ version ‘2.1.1’ ** package ‘galah’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (galah) begin installing package ‘gutenbergr’ * installing *source* package ‘aws’ ... ** this is package ‘aws’ version ‘2.5-6’ ** package ‘aws’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C compiler: ‘gcc-14 (Debian 14.2.0-19) 14.2.0’ using Fortran compiler: ‘GNU Fortran (Debian 14.2.0-19) 14.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpceklzW/R.INSTALL317a2f5e13c47b/aws/src' gfortran-14 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c ICIsmooth.f -o ICIsmooth.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c Rentries.c -o Rentries.o gfortran-14 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c awslp.f -o awslp.o gfortran-14 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c awswghts.f -o awswghts.o gfortran-14 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c caws.f -o caws.o gfortran-14 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c cawsmask.f -o cawsmask.o gfortran-14 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c esiglike.f -o esiglike.o gfortran-14 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c estimateComplexSigma.f -o estimateComplexSigma.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c init.c -o init.o gfortran-14 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c misc.f -o misc.o gfortran-14 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c nlmeans.f -o nlmeans.o gfortran-14 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c pcaws.f -o pcaws.o gfortran-14 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c segment.f -o segment.o gfortran-14 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c smooth3d.f -o smooth3d.o gfortran-14 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c smse3.f -o smse3.o gfortran-14 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c varest.f -o varest.o gcc-14 -std=gnu23 -shared -L/home/hornik/tmp/R-d-gcc-14/lib -Wl,-O1 -o aws.so ICIsmooth.o Rentries.o awslp.o awswghts.o caws.o cawsmask.o esiglike.o estimateComplexSigma.o init.o misc.o nlmeans.o pcaws.o segment.o smooth3d.o smse3.o varest.o -fopenmp -llapack -L/home/hornik/tmp/R-d-gcc-14/lib -lRblas -lgfortran -lm -lquadmath -lgfortran -lm -lquadmath -L/home/hornik/tmp/R-d-gcc-14/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpceklzW/R.INSTALL317a2f5e13c47b/aws/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-aws/00new/aws/libs ** R ** demo ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (aws) begin installing package ‘affy’ * installing *source* package ‘scuttle’ ... ** this is package ‘scuttle’ version ‘1.18.0’ ** using staged installation ** libs using C++ compiler: ‘g++-14 (Debian 14.2.0-19) 14.2.0’ using C++11 make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpuDt8pS/R.INSTALL31348e15be1024/scuttle/src' g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I../inst/include/ -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c RcppExports.cpp -o RcppExports.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I../inst/include/ -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c cumulative_prop.cpp -o cumulative_prop.o In file included from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/lin_matrix.h:12, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/read_lin_block.h:11, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/beachmat.h:24, from cumulative_prop.cpp:2: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h: In instantiation of ‘beachmat::SparseArraySeed_reader::SparseArraySeed_reader(Rcpp::RObject) [with V = Rcpp::Vector<13>; TIT = const int*; Rcpp::RObject = Rcpp::RObject_Impl]’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/lin_matrix.h:561:46: required from ‘beachmat::lin_SparseArraySeed::lin_SparseArraySeed(Rcpp::RObject) [with V = Rcpp::Vector<13>; TIT = const int*; Rcpp::RObject = Rcpp::RObject_Impl]’ 561 | lin_SparseArraySeed(Rcpp::RObject mat) : reader(mat) { | ^~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/read_lin_block.h:36:39: required from ‘std::unique_ptr beachmat::read_lin_sparse_block_raw(Rcpp::RObject) [with M = lin_matrix; Rcpp::RObject = Rcpp::RObject_Impl]’ 36 | return std::unique_ptr(new integer_SparseArraySeed(block)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/read_lin_block.h:65:57: required from here 65 | auto ptr = read_lin_sparse_block_raw(block); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h:535:17: warning: comparison of integer expressions of different signedness: ‘const size_t’ {aka ‘const long unsigned int’} and ‘R_xlen_t’ {aka ‘long int’} [-Wsign-compare] 535 | if (nnz != x.size()) { | ~~~~^~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h:551:45: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const size_t’ {aka ‘const long unsigned int’} [-Wsign-compare] 551 | if (lastR <= 0 || lastR > NR || lastC <= 0 || lastC > NC) { | ~~~~~~^~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h:551:73: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const size_t’ {aka ‘const long unsigned int’} [-Wsign-compare] 551 | if (lastR <= 0 || lastR > NR || lastC <= 0 || lastC > NC) { | ~~~~~~^~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h:593:35: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const size_t’ {aka ‘const long unsigned int’} [-Wsign-compare] 593 | for (int v = 0; v < nnz; ++v, ++rowIt, ++colIt, ++xIt) { | ~~^~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h: In instantiation of ‘beachmat::SparseArraySeed_reader::SparseArraySeed_reader(Rcpp::RObject) [with V = Rcpp::Vector<14, Rcpp::PreserveStorage>; TIT = const double*; Rcpp::RObject = Rcpp::RObject_Impl]’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/lin_matrix.h:561:46: required from ‘beachmat::lin_SparseArraySeed::lin_SparseArraySeed(Rcpp::RObject) [with V = Rcpp::Vector<14, Rcpp::PreserveStorage>; TIT = const double*; Rcpp::RObject = Rcpp::RObject_Impl]’ 561 | lin_SparseArraySeed(Rcpp::RObject mat) : reader(mat) { | ^~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/read_lin_block.h:38:39: required from ‘std::unique_ptr beachmat::read_lin_sparse_block_raw(Rcpp::RObject) [with M = lin_matrix; Rcpp::RObject = Rcpp::RObject_Impl]’ 38 | return std::unique_ptr(new double_SparseArraySeed(block)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/read_lin_block.h:65:57: required from here 65 | auto ptr = read_lin_sparse_block_raw(block); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h:535:17: warning: comparison of integer expressions of different signedness: ‘const size_t’ {aka ‘const long unsigned int’} and ‘R_xlen_t’ {aka ‘long int’} [-Wsign-compare] 535 | if (nnz != x.size()) { | ~~~~^~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h:551:45: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const size_t’ {aka ‘const long unsigned int’} [-Wsign-compare] 551 | if (lastR <= 0 || lastR > NR || lastC <= 0 || lastC > NC) { | ~~~~~~^~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h:551:73: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const size_t’ {aka ‘const long unsigned int’} [-Wsign-compare] 551 | if (lastR <= 0 || lastR > NR || lastC <= 0 || lastC > NC) { | ~~~~~~^~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h:593:35: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const size_t’ {aka ‘const long unsigned int’} [-Wsign-compare] 593 | for (int v = 0; v < nnz; ++v, ++rowIt, ++colIt, ++xIt) { | ~~^~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h: In instantiation of ‘beachmat::SparseArraySeed_reader::SparseArraySeed_reader(Rcpp::RObject) [with V = Rcpp::Vector<10, Rcpp::PreserveStorage>; TIT = const int*; Rcpp::RObject = Rcpp::RObject_Impl]’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/lin_matrix.h:561:46: required from ‘beachmat::lin_SparseArraySeed::lin_SparseArraySeed(Rcpp::RObject) [with V = Rcpp::Vector<10, Rcpp::PreserveStorage>; TIT = const int*; Rcpp::RObject = Rcpp::RObject_Impl]’ 561 | lin_SparseArraySeed(Rcpp::RObject mat) : reader(mat) { | ^~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/read_lin_block.h:40:39: required from ‘std::unique_ptr beachmat::read_lin_sparse_block_raw(Rcpp::RObject) [with M = lin_matrix; Rcpp::RObject = Rcpp::RObject_Impl]’ 40 | return std::unique_ptr(new logical_SparseArraySeed(block)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/read_lin_block.h:65:57: required from here 65 | auto ptr = read_lin_sparse_block_raw(block); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h:535:17: warning: comparison of integer expressions of different signedness: ‘const size_t’ {aka ‘const long unsigned int’} and ‘R_xlen_t’ {aka ‘long int’} [-Wsign-compare] 535 | if (nnz != x.size()) { | ~~~~^~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h:551:45: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const size_t’ {aka ‘const long unsigned int’} [-Wsign-compare] 551 | if (lastR <= 0 || lastR > NR || lastC <= 0 || lastC > NC) { | ~~~~~~^~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h:551:73: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const size_t’ {aka ‘const long unsigned int’} [-Wsign-compare] 551 | if (lastR <= 0 || lastR > NR || lastC <= 0 || lastC > NC) { | ~~~~~~^~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h:593:35: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const size_t’ {aka ‘const long unsigned int’} [-Wsign-compare] 593 | for (int v = 0; v < nnz; ++v, ++rowIt, ++colIt, ++xIt) { | ~~^~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h: In instantiation of ‘beachmat::sparse_index beachmat::Csparse_core::get_row(size_t, ALT, I*, size_t, size_t) [with OUT = const int*; ALT = int*; TIT = const double*; I = int; P = long unsigned int; size_t = long unsigned int]’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h:650:42: required from ‘beachmat::sparse_index beachmat::SparseArraySeed_reader::get_row(size_t, ALT, int*, size_t, size_t) [with OUT = const int*; ALT = int*; V = Rcpp::Vector<14, Rcpp::PreserveStorage>; TIT = const double*; size_t = long unsigned int]’ 650 | return core.template get_row(r, work_x, work_i, first, last); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/lin_matrix.h:596:51: required from ‘beachmat::sparse_index beachmat::lin_SparseArraySeed::get_row(size_t, int*, int*, size_t, size_t) [with V = Rcpp::Vector<14, Rcpp::PreserveStorage>; TIT = const double*; size_t = long unsigned int]’ 596 | return reader.template get_row(r, work_x, work_i, first, last); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/lin_matrix.h:595:35: required from here 595 | sparse_index get_row(size_t r, int* work_x, int* work_i, size_t first, size_t last) { | ^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h:250:22: warning: comparison of integer expressions of different signedness: ‘const int’ and ‘const long unsigned int’ [-Wsign-compare] 250 | if (idex != *pIt && static_cast(i[idex]) == r) { | ~~~~~^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h: In instantiation of ‘beachmat::sparse_index beachmat::Csparse_core::get_row(size_t, ALT, I*, size_t, size_t) [with OUT = const double*; ALT = double*; TIT = const double*; I = int; P = long unsigned int; size_t = long unsigned int]’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h:650:42: required from ‘beachmat::sparse_index beachmat::SparseArraySeed_reader::get_row(size_t, ALT, int*, size_t, size_t) [with OUT = const double*; ALT = double*; V = Rcpp::Vector<14, Rcpp::PreserveStorage>; TIT = const double*; size_t = long unsigned int]’ 650 | return core.template get_row(r, work_x, work_i, first, last); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/lin_matrix.h:602:54: required from ‘beachmat::sparse_index beachmat::lin_SparseArraySeed::get_row(size_t, double*, int*, size_t, size_t) [with V = Rcpp::Vector<14, Rcpp::PreserveStorage>; TIT = const double*; size_t = long unsigned int]’ 602 | return reader.template get_row(r, work_x, work_i, first, last); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/lin_matrix.h:601:38: required from here 601 | sparse_index get_row(size_t r, double* work_x, int* work_i, size_t first, size_t last) { | ^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h:250:22: warning: comparison of integer expressions of different signedness: ‘const int’ and ‘const long unsigned int’ [-Wsign-compare] 250 | if (idex != *pIt && static_cast(i[idex]) == r) { | ~~~~~^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h: In instantiation of ‘beachmat::sparse_index beachmat::Csparse_core::get_row(size_t, ALT, I*, size_t, size_t) [with OUT = const int*; ALT = int*; TIT = const int*; I = int; P = long unsigned int; size_t = long unsigned int]’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h:650:42: required from ‘beachmat::sparse_index beachmat::SparseArraySeed_reader::get_row(size_t, ALT, int*, size_t, size_t) [with OUT = const int*; ALT = int*; V = Rcpp::Vector<10, Rcpp::PreserveStorage>; TIT = const int*; size_t = long unsigned int]’ 650 | return core.template get_row(r, work_x, work_i, first, last); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/lin_matrix.h:596:51: required from ‘beachmat::sparse_index beachmat::lin_SparseArraySeed::get_row(size_t, int*, int*, size_t, size_t) [with V = Rcpp::Vector<10, Rcpp::PreserveStorage>; TIT = const int*; size_t = long unsigned int]’ 596 | return reader.template get_row(r, work_x, work_i, first, last); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/lin_matrix.h:595:35: required from here 595 | sparse_index get_row(size_t r, int* work_x, int* work_i, size_t first, size_t last) { | ^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h:250:22: warning: comparison of integer expressions of different signedness: ‘const int’ and ‘const long unsigned int’ [-Wsign-compare] 250 | if (idex != *pIt && static_cast(i[idex]) == r) { | ~~~~~^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h: In instantiation of ‘beachmat::sparse_index beachmat::Csparse_core::get_row(size_t, ALT, I*, size_t, size_t) [with OUT = const double*; ALT = double*; TIT = const int*; I = int; P = long unsigned int; size_t = long unsigned int]’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h:650:42: required from ‘beachmat::sparse_index beachmat::SparseArraySeed_reader::get_row(size_t, ALT, int*, size_t, size_t) [with OUT = const double*; ALT = double*; V = Rcpp::Vector<10, Rcpp::PreserveStorage>; TIT = const int*; size_t = long unsigned int]’ 650 | return core.template get_row(r, work_x, work_i, first, last); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/lin_matrix.h:602:54: required from ‘beachmat::sparse_index beachmat::lin_SparseArraySeed::get_row(size_t, double*, int*, size_t, size_t) [with V = Rcpp::Vector<10, Rcpp::PreserveStorage>; TIT = const int*; size_t = long unsigned int]’ 602 | return reader.template get_row(r, work_x, work_i, first, last); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/lin_matrix.h:601:38: required from here 601 | sparse_index get_row(size_t r, double* work_x, int* work_i, size_t first, size_t last) { | ^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h:250:22: warning: comparison of integer expressions of different signedness: ‘const int’ and ‘const long unsigned int’ [-Wsign-compare] 250 | if (idex != *pIt && static_cast(i[idex]) == r) { | ~~~~~^~~~~~~ g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I../inst/include/ -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c downsample_counts.cpp -o downsample_counts.o In file included from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/lin_matrix.h:12, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/read_lin_block.h:11, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/beachmat.h:24, from downsample_counts.cpp:2: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h: In instantiation of ‘beachmat::SparseArraySeed_reader::SparseArraySeed_reader(Rcpp::RObject) [with V = Rcpp::Vector<13>; TIT = const int*; Rcpp::RObject = Rcpp::RObject_Impl]’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/lin_matrix.h:561:46: required from ‘beachmat::lin_SparseArraySeed::lin_SparseArraySeed(Rcpp::RObject) [with V = Rcpp::Vector<13>; TIT = const int*; Rcpp::RObject = Rcpp::RObject_Impl]’ 561 | lin_SparseArraySeed(Rcpp::RObject mat) : reader(mat) { | ^~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/read_lin_block.h:36:39: required from ‘std::unique_ptr beachmat::read_lin_sparse_block_raw(Rcpp::RObject) [with M = lin_matrix; Rcpp::RObject = Rcpp::RObject_Impl]’ 36 | return std::unique_ptr(new integer_SparseArraySeed(block)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/read_lin_block.h:65:57: required from here 65 | auto ptr = read_lin_sparse_block_raw(block); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h:535:17: warning: comparison of integer expressions of different signedness: ‘const size_t’ {aka ‘const long unsigned int’} and ‘R_xlen_t’ {aka ‘long int’} [-Wsign-compare] 535 | if (nnz != x.size()) { | ~~~~^~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h:551:45: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const size_t’ {aka ‘const long unsigned int’} [-Wsign-compare] 551 | if (lastR <= 0 || lastR > NR || lastC <= 0 || lastC > NC) { | ~~~~~~^~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h:551:73: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const size_t’ {aka ‘const long unsigned int’} [-Wsign-compare] 551 | if (lastR <= 0 || lastR > NR || lastC <= 0 || lastC > NC) { | ~~~~~~^~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h:593:35: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const size_t’ {aka ‘const long unsigned int’} [-Wsign-compare] 593 | for (int v = 0; v < nnz; ++v, ++rowIt, ++colIt, ++xIt) { | ~~^~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h: In instantiation of ‘beachmat::SparseArraySeed_reader::SparseArraySeed_reader(Rcpp::RObject) [with V = Rcpp::Vector<14, Rcpp::PreserveStorage>; TIT = const double*; Rcpp::RObject = Rcpp::RObject_Impl]’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/lin_matrix.h:561:46: required from ‘beachmat::lin_SparseArraySeed::lin_SparseArraySeed(Rcpp::RObject) [with V = Rcpp::Vector<14, Rcpp::PreserveStorage>; TIT = const double*; Rcpp::RObject = Rcpp::RObject_Impl]’ 561 | lin_SparseArraySeed(Rcpp::RObject mat) : reader(mat) { | ^~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/read_lin_block.h:38:39: required from ‘std::unique_ptr beachmat::read_lin_sparse_block_raw(Rcpp::RObject) [with M = lin_matrix; Rcpp::RObject = Rcpp::RObject_Impl]’ 38 | return std::unique_ptr(new double_SparseArraySeed(block)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/read_lin_block.h:65:57: required from here 65 | auto ptr = read_lin_sparse_block_raw(block); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h:535:17: warning: comparison of integer expressions of different signedness: ‘const size_t’ {aka ‘const long unsigned int’} and ‘R_xlen_t’ {aka ‘long int’} [-Wsign-compare] 535 | if (nnz != x.size()) { | ~~~~^~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h:551:45: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const size_t’ {aka ‘const long unsigned int’} [-Wsign-compare] 551 | if (lastR <= 0 || lastR > NR || lastC <= 0 || lastC > NC) { | ~~~~~~^~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h:551:73: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const size_t’ {aka ‘const long unsigned int’} [-Wsign-compare] 551 | if (lastR <= 0 || lastR > NR || lastC <= 0 || lastC > NC) { | ~~~~~~^~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h:593:35: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const size_t’ {aka ‘const long unsigned int’} [-Wsign-compare] 593 | for (int v = 0; v < nnz; ++v, ++rowIt, ++colIt, ++xIt) { | ~~^~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h: In instantiation of ‘beachmat::SparseArraySeed_reader::SparseArraySeed_reader(Rcpp::RObject) [with V = Rcpp::Vector<10, Rcpp::PreserveStorage>; TIT = const int*; Rcpp::RObject = Rcpp::RObject_Impl]’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/lin_matrix.h:561:46: required from ‘beachmat::lin_SparseArraySeed::lin_SparseArraySeed(Rcpp::RObject) [with V = Rcpp::Vector<10, Rcpp::PreserveStorage>; TIT = const int*; Rcpp::RObject = Rcpp::RObject_Impl]’ 561 | lin_SparseArraySeed(Rcpp::RObject mat) : reader(mat) { | ^~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/read_lin_block.h:40:39: required from ‘std::unique_ptr beachmat::read_lin_sparse_block_raw(Rcpp::RObject) [with M = lin_matrix; Rcpp::RObject = Rcpp::RObject_Impl]’ 40 | return std::unique_ptr(new logical_SparseArraySeed(block)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/read_lin_block.h:65:57: required from here 65 | auto ptr = read_lin_sparse_block_raw(block); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h:535:17: warning: comparison of integer expressions of different signedness: ‘const size_t’ {aka ‘const long unsigned int’} and ‘R_xlen_t’ {aka ‘long int’} [-Wsign-compare] 535 | if (nnz != x.size()) { | ~~~~^~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h:551:45: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const size_t’ {aka ‘const long unsigned int’} [-Wsign-compare] 551 | if (lastR <= 0 || lastR > NR || lastC <= 0 || lastC > NC) { | ~~~~~~^~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h:551:73: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const size_t’ {aka ‘const long unsigned int’} [-Wsign-compare] 551 | if (lastR <= 0 || lastR > NR || lastC <= 0 || lastC > NC) { | ~~~~~~^~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h:593:35: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const size_t’ {aka ‘const long unsigned int’} [-Wsign-compare] 593 | for (int v = 0; v < nnz; ++v, ++rowIt, ++colIt, ++xIt) { | ~~^~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h: In instantiation of ‘beachmat::sparse_index beachmat::Csparse_core::get_row(size_t, ALT, I*, size_t, size_t) [with OUT = const int*; ALT = int*; TIT = const double*; I = int; P = long unsigned int; size_t = long unsigned int]’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h:650:42: required from ‘beachmat::sparse_index beachmat::SparseArraySeed_reader::get_row(size_t, ALT, int*, size_t, size_t) [with OUT = const int*; ALT = int*; V = Rcpp::Vector<14, Rcpp::PreserveStorage>; TIT = const double*; size_t = long unsigned int]’ 650 | return core.template get_row(r, work_x, work_i, first, last); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/lin_matrix.h:596:51: required from ‘beachmat::sparse_index beachmat::lin_SparseArraySeed::get_row(size_t, int*, int*, size_t, size_t) [with V = Rcpp::Vector<14, Rcpp::PreserveStorage>; TIT = const double*; size_t = long unsigned int]’ 596 | return reader.template get_row(r, work_x, work_i, first, last); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/lin_matrix.h:595:35: required from here 595 | sparse_index get_row(size_t r, int* work_x, int* work_i, size_t first, size_t last) { | ^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h:250:22: warning: comparison of integer expressions of different signedness: ‘const int’ and ‘const long unsigned int’ [-Wsign-compare] 250 | if (idex != *pIt && static_cast(i[idex]) == r) { | ~~~~~^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h: In instantiation of ‘beachmat::sparse_index beachmat::Csparse_core::get_row(size_t, ALT, I*, size_t, size_t) [with OUT = const double*; ALT = double*; TIT = const double*; I = int; P = long unsigned int; size_t = long unsigned int]’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h:650:42: required from ‘beachmat::sparse_index beachmat::SparseArraySeed_reader::get_row(size_t, ALT, int*, size_t, size_t) [with OUT = const double*; ALT = double*; V = Rcpp::Vector<14, Rcpp::PreserveStorage>; TIT = const double*; size_t = long unsigned int]’ 650 | return core.template get_row(r, work_x, work_i, first, last); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/lin_matrix.h:602:54: required from ‘beachmat::sparse_index beachmat::lin_SparseArraySeed::get_row(size_t, double*, int*, size_t, size_t) [with V = Rcpp::Vector<14, Rcpp::PreserveStorage>; TIT = const double*; size_t = long unsigned int]’ 602 | return reader.template get_row(r, work_x, work_i, first, last); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/lin_matrix.h:601:38: required from here 601 | sparse_index get_row(size_t r, double* work_x, int* work_i, size_t first, size_t last) { | ^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h:250:22: warning: comparison of integer expressions of different signedness: ‘const int’ and ‘const long unsigned int’ [-Wsign-compare] 250 | if (idex != *pIt && static_cast(i[idex]) == r) { | ~~~~~^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h: In instantiation of ‘beachmat::sparse_index beachmat::Csparse_core::get_row(size_t, ALT, I*, size_t, size_t) [with OUT = const int*; ALT = int*; TIT = const int*; I = int; P = long unsigned int; size_t = long unsigned int]’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h:650:42: required from ‘beachmat::sparse_index beachmat::SparseArraySeed_reader::get_row(size_t, ALT, int*, size_t, size_t) [with OUT = const int*; ALT = int*; V = Rcpp::Vector<10, Rcpp::PreserveStorage>; TIT = const int*; size_t = long unsigned int]’ 650 | return core.template get_row(r, work_x, work_i, first, last); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/lin_matrix.h:596:51: required from ‘beachmat::sparse_index beachmat::lin_SparseArraySeed::get_row(size_t, int*, int*, size_t, size_t) [with V = Rcpp::Vector<10, Rcpp::PreserveStorage>; TIT = const int*; size_t = long unsigned int]’ 596 | return reader.template get_row(r, work_x, work_i, first, last); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/lin_matrix.h:595:35: required from here 595 | sparse_index get_row(size_t r, int* work_x, int* work_i, size_t first, size_t last) { | ^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h:250:22: warning: comparison of integer expressions of different signedness: ‘const int’ and ‘const long unsigned int’ [-Wsign-compare] 250 | if (idex != *pIt && static_cast(i[idex]) == r) { | ~~~~~^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h: In instantiation of ‘beachmat::sparse_index beachmat::Csparse_core::get_row(size_t, ALT, I*, size_t, size_t) [with OUT = const double*; ALT = double*; TIT = const int*; I = int; P = long unsigned int; size_t = long unsigned int]’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h:650:42: required from ‘beachmat::sparse_index beachmat::SparseArraySeed_reader::get_row(size_t, ALT, int*, size_t, size_t) [with OUT = const double*; ALT = double*; V = Rcpp::Vector<10, Rcpp::PreserveStorage>; TIT = const int*; size_t = long unsigned int]’ 650 | return core.template get_row(r, work_x, work_i, first, last); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/lin_matrix.h:602:54: required from ‘beachmat::sparse_index beachmat::lin_SparseArraySeed::get_row(size_t, double*, int*, size_t, size_t) [with V = Rcpp::Vector<10, Rcpp::PreserveStorage>; TIT = const int*; size_t = long unsigned int]’ 602 | return reader.template get_row(r, work_x, work_i, first, last); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/lin_matrix.h:601:38: required from here 601 | sparse_index get_row(size_t r, double* work_x, int* work_i, size_t first, size_t last) { | ^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h:250:22: warning: comparison of integer expressions of different signedness: ‘const int’ and ‘const long unsigned int’ [-Wsign-compare] 250 | if (idex != *pIt && static_cast(i[idex]) == r) { | ~~~~~^~~~~~~ g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I../inst/include/ -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c fit_linear_model.cpp -o fit_linear_model.o In file included from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/lin_matrix.h:12, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/read_lin_block.h:11, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/beachmat.h:24, from fit_linear_model.cpp:2: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h: In instantiation of ‘beachmat::SparseArraySeed_reader::SparseArraySeed_reader(Rcpp::RObject) [with V = Rcpp::Vector<13>; TIT = const int*; Rcpp::RObject = Rcpp::RObject_Impl]’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/lin_matrix.h:561:46: required from ‘beachmat::lin_SparseArraySeed::lin_SparseArraySeed(Rcpp::RObject) [with V = Rcpp::Vector<13>; TIT = const int*; Rcpp::RObject = Rcpp::RObject_Impl]’ 561 | lin_SparseArraySeed(Rcpp::RObject mat) : reader(mat) { | ^~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/read_lin_block.h:36:39: required from ‘std::unique_ptr beachmat::read_lin_sparse_block_raw(Rcpp::RObject) [with M = lin_matrix; Rcpp::RObject = Rcpp::RObject_Impl]’ 36 | return std::unique_ptr(new integer_SparseArraySeed(block)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/read_lin_block.h:65:57: required from here 65 | auto ptr = read_lin_sparse_block_raw(block); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h:535:17: warning: comparison of integer expressions of different signedness: ‘const size_t’ {aka ‘const long unsigned int’} and ‘R_xlen_t’ {aka ‘long int’} [-Wsign-compare] 535 | if (nnz != x.size()) { | ~~~~^~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h:551:45: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const size_t’ {aka ‘const long unsigned int’} [-Wsign-compare] 551 | if (lastR <= 0 || lastR > NR || lastC <= 0 || lastC > NC) { | ~~~~~~^~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h:551:73: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const size_t’ {aka ‘const long unsigned int’} [-Wsign-compare] 551 | if (lastR <= 0 || lastR > NR || lastC <= 0 || lastC > NC) { | ~~~~~~^~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h:593:35: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const size_t’ {aka ‘const long unsigned int’} [-Wsign-compare] 593 | for (int v = 0; v < nnz; ++v, ++rowIt, ++colIt, ++xIt) { | ~~^~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h: In instantiation of ‘beachmat::SparseArraySeed_reader::SparseArraySeed_reader(Rcpp::RObject) [with V = Rcpp::Vector<14, Rcpp::PreserveStorage>; TIT = const double*; Rcpp::RObject = Rcpp::RObject_Impl]’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/lin_matrix.h:561:46: required from ‘beachmat::lin_SparseArraySeed::lin_SparseArraySeed(Rcpp::RObject) [with V = Rcpp::Vector<14, Rcpp::PreserveStorage>; TIT = const double*; Rcpp::RObject = Rcpp::RObject_Impl]’ 561 | lin_SparseArraySeed(Rcpp::RObject mat) : reader(mat) { | ^~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/read_lin_block.h:38:39: required from ‘std::unique_ptr beachmat::read_lin_sparse_block_raw(Rcpp::RObject) [with M = lin_matrix; Rcpp::RObject = Rcpp::RObject_Impl]’ 38 | return std::unique_ptr(new double_SparseArraySeed(block)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/read_lin_block.h:65:57: required from here 65 | auto ptr = read_lin_sparse_block_raw(block); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h:535:17: warning: comparison of integer expressions of different signedness: ‘const size_t’ {aka ‘const long unsigned int’} and ‘R_xlen_t’ {aka ‘long int’} [-Wsign-compare] 535 | if (nnz != x.size()) { | ~~~~^~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h:551:45: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const size_t’ {aka ‘const long unsigned int’} [-Wsign-compare] 551 | if (lastR <= 0 || lastR > NR || lastC <= 0 || lastC > NC) { | ~~~~~~^~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h:551:73: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const size_t’ {aka ‘const long unsigned int’} [-Wsign-compare] 551 | if (lastR <= 0 || lastR > NR || lastC <= 0 || lastC > NC) { | ~~~~~~^~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h:593:35: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const size_t’ {aka ‘const long unsigned int’} [-Wsign-compare] 593 | for (int v = 0; v < nnz; ++v, ++rowIt, ++colIt, ++xIt) { | ~~^~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h: In instantiation of ‘beachmat::SparseArraySeed_reader::SparseArraySeed_reader(Rcpp::RObject) [with V = Rcpp::Vector<10, Rcpp::PreserveStorage>; TIT = const int*; Rcpp::RObject = Rcpp::RObject_Impl]’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/lin_matrix.h:561:46: required from ‘beachmat::lin_SparseArraySeed::lin_SparseArraySeed(Rcpp::RObject) [with V = Rcpp::Vector<10, Rcpp::PreserveStorage>; TIT = const int*; Rcpp::RObject = Rcpp::RObject_Impl]’ 561 | lin_SparseArraySeed(Rcpp::RObject mat) : reader(mat) { | ^~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/read_lin_block.h:40:39: required from ‘std::unique_ptr beachmat::read_lin_sparse_block_raw(Rcpp::RObject) [with M = lin_matrix; Rcpp::RObject = Rcpp::RObject_Impl]’ 40 | return std::unique_ptr(new logical_SparseArraySeed(block)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/read_lin_block.h:65:57: required from here 65 | auto ptr = read_lin_sparse_block_raw(block); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h:535:17: warning: comparison of integer expressions of different signedness: ‘const size_t’ {aka ‘const long unsigned int’} and ‘R_xlen_t’ {aka ‘long int’} [-Wsign-compare] 535 | if (nnz != x.size()) { | ~~~~^~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h:551:45: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const size_t’ {aka ‘const long unsigned int’} [-Wsign-compare] 551 | if (lastR <= 0 || lastR > NR || lastC <= 0 || lastC > NC) { | ~~~~~~^~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h:551:73: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const size_t’ {aka ‘const long unsigned int’} [-Wsign-compare] 551 | if (lastR <= 0 || lastR > NR || lastC <= 0 || lastC > NC) { | ~~~~~~^~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h:593:35: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const size_t’ {aka ‘const long unsigned int’} [-Wsign-compare] 593 | for (int v = 0; v < nnz; ++v, ++rowIt, ++colIt, ++xIt) { | ~~^~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h: In instantiation of ‘beachmat::sparse_index beachmat::Csparse_core::get_row(size_t, ALT, I*, size_t, size_t) [with OUT = const int*; ALT = int*; TIT = const double*; I = int; P = long unsigned int; size_t = long unsigned int]’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h:650:42: required from ‘beachmat::sparse_index beachmat::SparseArraySeed_reader::get_row(size_t, ALT, int*, size_t, size_t) [with OUT = const int*; ALT = int*; V = Rcpp::Vector<14, Rcpp::PreserveStorage>; TIT = const double*; size_t = long unsigned int]’ 650 | return core.template get_row(r, work_x, work_i, first, last); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/lin_matrix.h:596:51: required from ‘beachmat::sparse_index beachmat::lin_SparseArraySeed::get_row(size_t, int*, int*, size_t, size_t) [with V = Rcpp::Vector<14, Rcpp::PreserveStorage>; TIT = const double*; size_t = long unsigned int]’ 596 | return reader.template get_row(r, work_x, work_i, first, last); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/lin_matrix.h:595:35: required from here 595 | sparse_index get_row(size_t r, int* work_x, int* work_i, size_t first, size_t last) { | ^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h:250:22: warning: comparison of integer expressions of different signedness: ‘const int’ and ‘const long unsigned int’ [-Wsign-compare] 250 | if (idex != *pIt && static_cast(i[idex]) == r) { | ~~~~~^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h: In instantiation of ‘beachmat::sparse_index beachmat::Csparse_core::get_row(size_t, ALT, I*, size_t, size_t) [with OUT = const double*; ALT = double*; TIT = const double*; I = int; P = long unsigned int; size_t = long unsigned int]’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h:650:42: required from ‘beachmat::sparse_index beachmat::SparseArraySeed_reader::get_row(size_t, ALT, int*, size_t, size_t) [with OUT = const double*; ALT = double*; V = Rcpp::Vector<14, Rcpp::PreserveStorage>; TIT = const double*; size_t = long unsigned int]’ 650 | return core.template get_row(r, work_x, work_i, first, last); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/lin_matrix.h:602:54: required from ‘beachmat::sparse_index beachmat::lin_SparseArraySeed::get_row(size_t, double*, int*, size_t, size_t) [with V = Rcpp::Vector<14, Rcpp::PreserveStorage>; TIT = const double*; size_t = long unsigned int]’ 602 | return reader.template get_row(r, work_x, work_i, first, last); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/lin_matrix.h:601:38: required from here 601 | sparse_index get_row(size_t r, double* work_x, int* work_i, size_t first, size_t last) { | ^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h:250:22: warning: comparison of integer expressions of different signedness: ‘const int’ and ‘const long unsigned int’ [-Wsign-compare] 250 | if (idex != *pIt && static_cast(i[idex]) == r) { | ~~~~~^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h: In instantiation of ‘beachmat::sparse_index beachmat::Csparse_core::get_row(size_t, ALT, I*, size_t, size_t) [with OUT = const int*; ALT = int*; TIT = const int*; I = int; P = long unsigned int; size_t = long unsigned int]’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h:650:42: required from ‘beachmat::sparse_index beachmat::SparseArraySeed_reader::get_row(size_t, ALT, int*, size_t, size_t) [with OUT = const int*; ALT = int*; V = Rcpp::Vector<10, Rcpp::PreserveStorage>; TIT = const int*; size_t = long unsigned int]’ 650 | return core.template get_row(r, work_x, work_i, first, last); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/lin_matrix.h:596:51: required from ‘beachmat::sparse_index beachmat::lin_SparseArraySeed::get_row(size_t, int*, int*, size_t, size_t) [with V = Rcpp::Vector<10, Rcpp::PreserveStorage>; TIT = const int*; size_t = long unsigned int]’ 596 | return reader.template get_row(r, work_x, work_i, first, last); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/lin_matrix.h:595:35: required from here 595 | sparse_index get_row(size_t r, int* work_x, int* work_i, size_t first, size_t last) { | ^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h:250:22: warning: comparison of integer expressions of different signedness: ‘const int’ and ‘const long unsigned int’ [-Wsign-compare] 250 | if (idex != *pIt && static_cast(i[idex]) == r) { | ~~~~~^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h: In instantiation of ‘beachmat::sparse_index beachmat::Csparse_core::get_row(size_t, ALT, I*, size_t, size_t) [with OUT = const double*; ALT = double*; TIT = const int*; I = int; P = long unsigned int; size_t = long unsigned int]’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h:650:42: required from ‘beachmat::sparse_index beachmat::SparseArraySeed_reader::get_row(size_t, ALT, int*, size_t, size_t) [with OUT = const double*; ALT = double*; V = Rcpp::Vector<10, Rcpp::PreserveStorage>; TIT = const int*; size_t = long unsigned int]’ 650 | return core.template get_row(r, work_x, work_i, first, last); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/lin_matrix.h:602:54: required from ‘beachmat::sparse_index beachmat::lin_SparseArraySeed::get_row(size_t, double*, int*, size_t, size_t) [with V = Rcpp::Vector<10, Rcpp::PreserveStorage>; TIT = const int*; size_t = long unsigned int]’ 602 | return reader.template get_row(r, work_x, work_i, first, last); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/lin_matrix.h:601:38: required from here 601 | sparse_index get_row(size_t r, double* work_x, int* work_i, size_t first, size_t last) { | ^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h:250:22: warning: comparison of integer expressions of different signedness: ‘const int’ and ‘const long unsigned int’ [-Wsign-compare] 250 | if (idex != *pIt && static_cast(i[idex]) == r) { | ~~~~~^~~~~~~ g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I../inst/include/ -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c pool_size_factors.cpp -o pool_size_factors.o pool_size_factors.cpp: In function ‘Rcpp::List pool_size_factors(Rcpp::RObject, Rcpp::NumericVector, Rcpp::IntegerVector, Rcpp::IntegerVector)’: pool_size_factors.cpp:56:15: warning: comparison of integer expressions of different signedness: ‘const size_t’ {aka ‘const long unsigned int’} and ‘R_xlen_t’ {aka ‘long int’} [-Wsign-compare] 56 | if (ngenes!=pseudo_cell.size()) { | ~~~~~~^~~~~~~~~~~~~~~~~~~~ pool_size_factors.cpp:61:22: warning: comparison of integer expressions of different signedness: ‘R_xlen_t’ {aka ‘long int’} and ‘long unsigned int’ [-Wsign-compare] 61 | if (order.size() < ncells*2-1) { | ~~~~~~~~~~~~~^~~~~~~~~~~~ pool_size_factors.cpp:170:37: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 170 | for (auto i=0; i::SparseArraySeed_reader(Rcpp::RObject) [with V = Rcpp::Vector<13>; TIT = const int*; Rcpp::RObject = Rcpp::RObject_Impl]’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/lin_matrix.h:561:46: required from ‘beachmat::lin_SparseArraySeed::lin_SparseArraySeed(Rcpp::RObject) [with V = Rcpp::Vector<13>; TIT = const int*; Rcpp::RObject = Rcpp::RObject_Impl]’ 561 | lin_SparseArraySeed(Rcpp::RObject mat) : reader(mat) { | ^~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/read_lin_block.h:36:39: required from ‘std::unique_ptr beachmat::read_lin_sparse_block_raw(Rcpp::RObject) [with M = lin_matrix; Rcpp::RObject = Rcpp::RObject_Impl]’ 36 | return std::unique_ptr(new integer_SparseArraySeed(block)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/read_lin_block.h:65:57: required from here 65 | auto ptr = read_lin_sparse_block_raw(block); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h:535:17: warning: comparison of integer expressions of different signedness: ‘const size_t’ {aka ‘const long unsigned int’} and ‘R_xlen_t’ {aka ‘long int’} [-Wsign-compare] 535 | if (nnz != x.size()) { | ~~~~^~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h:551:45: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const size_t’ {aka ‘const long unsigned int’} [-Wsign-compare] 551 | if (lastR <= 0 || lastR > NR || lastC <= 0 || lastC > NC) { | ~~~~~~^~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h:551:73: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const size_t’ {aka ‘const long unsigned int’} [-Wsign-compare] 551 | if (lastR <= 0 || lastR > NR || lastC <= 0 || lastC > NC) { | ~~~~~~^~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h:593:35: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const size_t’ {aka ‘const long unsigned int’} [-Wsign-compare] 593 | for (int v = 0; v < nnz; ++v, ++rowIt, ++colIt, ++xIt) { | ~~^~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h: In instantiation of ‘beachmat::SparseArraySeed_reader::SparseArraySeed_reader(Rcpp::RObject) [with V = Rcpp::Vector<14, Rcpp::PreserveStorage>; TIT = const double*; Rcpp::RObject = Rcpp::RObject_Impl]’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/lin_matrix.h:561:46: required from ‘beachmat::lin_SparseArraySeed::lin_SparseArraySeed(Rcpp::RObject) [with V = Rcpp::Vector<14, Rcpp::PreserveStorage>; TIT = const double*; Rcpp::RObject = Rcpp::RObject_Impl]’ 561 | lin_SparseArraySeed(Rcpp::RObject mat) : reader(mat) { | ^~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/read_lin_block.h:38:39: required from ‘std::unique_ptr beachmat::read_lin_sparse_block_raw(Rcpp::RObject) [with M = lin_matrix; Rcpp::RObject = Rcpp::RObject_Impl]’ 38 | return std::unique_ptr(new double_SparseArraySeed(block)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/read_lin_block.h:65:57: required from here 65 | auto ptr = read_lin_sparse_block_raw(block); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h:535:17: warning: comparison of integer expressions of different signedness: ‘const size_t’ {aka ‘const long unsigned int’} and ‘R_xlen_t’ {aka ‘long int’} [-Wsign-compare] 535 | if (nnz != x.size()) { | ~~~~^~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h:551:45: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const size_t’ {aka ‘const long unsigned int’} [-Wsign-compare] 551 | if (lastR <= 0 || lastR > NR || lastC <= 0 || lastC > NC) { | ~~~~~~^~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h:551:73: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const size_t’ {aka ‘const long unsigned int’} [-Wsign-compare] 551 | if (lastR <= 0 || lastR > NR || lastC <= 0 || lastC > NC) { | ~~~~~~^~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h:593:35: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const size_t’ {aka ‘const long unsigned int’} [-Wsign-compare] 593 | for (int v = 0; v < nnz; ++v, ++rowIt, ++colIt, ++xIt) { | ~~^~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h: In instantiation of ‘beachmat::SparseArraySeed_reader::SparseArraySeed_reader(Rcpp::RObject) [with V = Rcpp::Vector<10, Rcpp::PreserveStorage>; TIT = const int*; Rcpp::RObject = Rcpp::RObject_Impl]’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/lin_matrix.h:561:46: required from ‘beachmat::lin_SparseArraySeed::lin_SparseArraySeed(Rcpp::RObject) [with V = Rcpp::Vector<10, Rcpp::PreserveStorage>; TIT = const int*; Rcpp::RObject = Rcpp::RObject_Impl]’ 561 | lin_SparseArraySeed(Rcpp::RObject mat) : reader(mat) { | ^~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/read_lin_block.h:40:39: required from ‘std::unique_ptr beachmat::read_lin_sparse_block_raw(Rcpp::RObject) [with M = lin_matrix; Rcpp::RObject = Rcpp::RObject_Impl]’ 40 | return std::unique_ptr(new logical_SparseArraySeed(block)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/read_lin_block.h:65:57: required from here 65 | auto ptr = read_lin_sparse_block_raw(block); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h:535:17: warning: comparison of integer expressions of different signedness: ‘const size_t’ {aka ‘const long unsigned int’} and ‘R_xlen_t’ {aka ‘long int’} [-Wsign-compare] 535 | if (nnz != x.size()) { | ~~~~^~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h:551:45: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const size_t’ {aka ‘const long unsigned int’} [-Wsign-compare] 551 | if (lastR <= 0 || lastR > NR || lastC <= 0 || lastC > NC) { | ~~~~~~^~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h:551:73: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const size_t’ {aka ‘const long unsigned int’} [-Wsign-compare] 551 | if (lastR <= 0 || lastR > NR || lastC <= 0 || lastC > NC) { | ~~~~~~^~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h:593:35: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const size_t’ {aka ‘const long unsigned int’} [-Wsign-compare] 593 | for (int v = 0; v < nnz; ++v, ++rowIt, ++colIt, ++xIt) { | ~~^~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h: In instantiation of ‘beachmat::sparse_index beachmat::Csparse_core::get_row(size_t, ALT, I*, size_t, size_t) [with OUT = const int*; ALT = int*; TIT = const double*; I = int; P = long unsigned int; size_t = long unsigned int]’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h:650:42: required from ‘beachmat::sparse_index beachmat::SparseArraySeed_reader::get_row(size_t, ALT, int*, size_t, size_t) [with OUT = const int*; ALT = int*; V = Rcpp::Vector<14, Rcpp::PreserveStorage>; TIT = const double*; size_t = long unsigned int]’ 650 | return core.template get_row(r, work_x, work_i, first, last); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/lin_matrix.h:596:51: required from ‘beachmat::sparse_index beachmat::lin_SparseArraySeed::get_row(size_t, int*, int*, size_t, size_t) [with V = Rcpp::Vector<14, Rcpp::PreserveStorage>; TIT = const double*; size_t = long unsigned int]’ 596 | return reader.template get_row(r, work_x, work_i, first, last); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/lin_matrix.h:595:35: required from here 595 | sparse_index get_row(size_t r, int* work_x, int* work_i, size_t first, size_t last) { | ^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h:250:22: warning: comparison of integer expressions of different signedness: ‘const int’ and ‘const long unsigned int’ [-Wsign-compare] 250 | if (idex != *pIt && static_cast(i[idex]) == r) { | ~~~~~^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h: In instantiation of ‘beachmat::sparse_index beachmat::Csparse_core::get_row(size_t, ALT, I*, size_t, size_t) [with OUT = const double*; ALT = double*; TIT = const double*; I = int; P = long unsigned int; size_t = long unsigned int]’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h:650:42: required from ‘beachmat::sparse_index beachmat::SparseArraySeed_reader::get_row(size_t, ALT, int*, size_t, size_t) [with OUT = const double*; ALT = double*; V = Rcpp::Vector<14, Rcpp::PreserveStorage>; TIT = const double*; size_t = long unsigned int]’ 650 | return core.template get_row(r, work_x, work_i, first, last); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/lin_matrix.h:602:54: required from ‘beachmat::sparse_index beachmat::lin_SparseArraySeed::get_row(size_t, double*, int*, size_t, size_t) [with V = Rcpp::Vector<14, Rcpp::PreserveStorage>; TIT = const double*; size_t = long unsigned int]’ 602 | return reader.template get_row(r, work_x, work_i, first, last); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/lin_matrix.h:601:38: required from here 601 | sparse_index get_row(size_t r, double* work_x, int* work_i, size_t first, size_t last) { | ^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h:250:22: warning: comparison of integer expressions of different signedness: ‘const int’ and ‘const long unsigned int’ [-Wsign-compare] 250 | if (idex != *pIt && static_cast(i[idex]) == r) { | ~~~~~^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h: In instantiation of ‘beachmat::sparse_index beachmat::Csparse_core::get_row(size_t, ALT, I*, size_t, size_t) [with OUT = const int*; ALT = int*; TIT = const int*; I = int; P = long unsigned int; size_t = long unsigned int]’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h:650:42: required from ‘beachmat::sparse_index beachmat::SparseArraySeed_reader::get_row(size_t, ALT, int*, size_t, size_t) [with OUT = const int*; ALT = int*; V = Rcpp::Vector<10, Rcpp::PreserveStorage>; TIT = const int*; size_t = long unsigned int]’ 650 | return core.template get_row(r, work_x, work_i, first, last); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/lin_matrix.h:596:51: required from ‘beachmat::sparse_index beachmat::lin_SparseArraySeed::get_row(size_t, int*, int*, size_t, size_t) [with V = Rcpp::Vector<10, Rcpp::PreserveStorage>; TIT = const int*; size_t = long unsigned int]’ 596 | return reader.template get_row(r, work_x, work_i, first, last); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/lin_matrix.h:595:35: required from here 595 | sparse_index get_row(size_t r, int* work_x, int* work_i, size_t first, size_t last) { | ^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h:250:22: warning: comparison of integer expressions of different signedness: ‘const int’ and ‘const long unsigned int’ [-Wsign-compare] 250 | if (idex != *pIt && static_cast(i[idex]) == r) { | ~~~~~^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h: In instantiation of ‘beachmat::sparse_index beachmat::Csparse_core::get_row(size_t, ALT, I*, size_t, size_t) [with OUT = const double*; ALT = double*; TIT = const int*; I = int; P = long unsigned int; size_t = long unsigned int]’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h:650:42: required from ‘beachmat::sparse_index beachmat::SparseArraySeed_reader::get_row(size_t, ALT, int*, size_t, size_t) [with OUT = const double*; ALT = double*; V = Rcpp::Vector<10, Rcpp::PreserveStorage>; TIT = const int*; size_t = long unsigned int]’ 650 | return core.template get_row(r, work_x, work_i, first, last); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/lin_matrix.h:602:54: required from ‘beachmat::sparse_index beachmat::lin_SparseArraySeed::get_row(size_t, double*, int*, size_t, size_t) [with V = Rcpp::Vector<10, Rcpp::PreserveStorage>; TIT = const int*; size_t = long unsigned int]’ 602 | return reader.template get_row(r, work_x, work_i, first, last); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/lin_matrix.h:601:38: required from here 601 | sparse_index get_row(size_t r, double* work_x, int* work_i, size_t first, size_t last) { | ^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h:250:22: warning: comparison of integer expressions of different signedness: ‘const int’ and ‘const long unsigned int’ [-Wsign-compare] 250 | if (idex != *pIt && static_cast(i[idex]) == r) { | ~~~~~^~~~~~~ g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I../inst/include/ -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c sparse_summarize.cpp -o sparse_summarize.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I../inst/include/ -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c sum_counts.cpp -o sum_counts.o In file included from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/lin_matrix.h:12, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/read_lin_block.h:11, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/beachmat.h:24, from sum_counts.cpp:2: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h: In instantiation of ‘beachmat::SparseArraySeed_reader::SparseArraySeed_reader(Rcpp::RObject) [with V = Rcpp::Vector<13>; TIT = const int*; Rcpp::RObject = Rcpp::RObject_Impl]’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/lin_matrix.h:561:46: required from ‘beachmat::lin_SparseArraySeed::lin_SparseArraySeed(Rcpp::RObject) [with V = Rcpp::Vector<13>; TIT = const int*; Rcpp::RObject = Rcpp::RObject_Impl]’ 561 | lin_SparseArraySeed(Rcpp::RObject mat) : reader(mat) { | ^~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/read_lin_block.h:36:39: required from ‘std::unique_ptr beachmat::read_lin_sparse_block_raw(Rcpp::RObject) [with M = lin_matrix; Rcpp::RObject = Rcpp::RObject_Impl]’ 36 | return std::unique_ptr(new integer_SparseArraySeed(block)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/read_lin_block.h:65:57: required from here 65 | auto ptr = read_lin_sparse_block_raw(block); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h:535:17: warning: comparison of integer expressions of different signedness: ‘const size_t’ {aka ‘const long unsigned int’} and ‘R_xlen_t’ {aka ‘long int’} [-Wsign-compare] 535 | if (nnz != x.size()) { | ~~~~^~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h:551:45: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const size_t’ {aka ‘const long unsigned int’} [-Wsign-compare] 551 | if (lastR <= 0 || lastR > NR || lastC <= 0 || lastC > NC) { | ~~~~~~^~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h:551:73: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const size_t’ {aka ‘const long unsigned int’} [-Wsign-compare] 551 | if (lastR <= 0 || lastR > NR || lastC <= 0 || lastC > NC) { | ~~~~~~^~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h:593:35: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const size_t’ {aka ‘const long unsigned int’} [-Wsign-compare] 593 | for (int v = 0; v < nnz; ++v, ++rowIt, ++colIt, ++xIt) { | ~~^~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h: In instantiation of ‘beachmat::SparseArraySeed_reader::SparseArraySeed_reader(Rcpp::RObject) [with V = Rcpp::Vector<14, Rcpp::PreserveStorage>; TIT = const double*; Rcpp::RObject = Rcpp::RObject_Impl]’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/lin_matrix.h:561:46: required from ‘beachmat::lin_SparseArraySeed::lin_SparseArraySeed(Rcpp::RObject) [with V = Rcpp::Vector<14, Rcpp::PreserveStorage>; TIT = const double*; Rcpp::RObject = Rcpp::RObject_Impl]’ 561 | lin_SparseArraySeed(Rcpp::RObject mat) : reader(mat) { | ^~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/read_lin_block.h:38:39: required from ‘std::unique_ptr beachmat::read_lin_sparse_block_raw(Rcpp::RObject) [with M = lin_matrix; Rcpp::RObject = Rcpp::RObject_Impl]’ 38 | return std::unique_ptr(new double_SparseArraySeed(block)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/read_lin_block.h:65:57: required from here 65 | auto ptr = read_lin_sparse_block_raw(block); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h:535:17: warning: comparison of integer expressions of different signedness: ‘const size_t’ {aka ‘const long unsigned int’} and ‘R_xlen_t’ {aka ‘long int’} [-Wsign-compare] 535 | if (nnz != x.size()) { | ~~~~^~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h:551:45: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const size_t’ {aka ‘const long unsigned int’} [-Wsign-compare] 551 | if (lastR <= 0 || lastR > NR || lastC <= 0 || lastC > NC) { | ~~~~~~^~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h:551:73: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const size_t’ {aka ‘const long unsigned int’} [-Wsign-compare] 551 | if (lastR <= 0 || lastR > NR || lastC <= 0 || lastC > NC) { | ~~~~~~^~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h:593:35: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const size_t’ {aka ‘const long unsigned int’} [-Wsign-compare] 593 | for (int v = 0; v < nnz; ++v, ++rowIt, ++colIt, ++xIt) { | ~~^~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h: In instantiation of ‘beachmat::SparseArraySeed_reader::SparseArraySeed_reader(Rcpp::RObject) [with V = Rcpp::Vector<10, Rcpp::PreserveStorage>; TIT = const int*; Rcpp::RObject = Rcpp::RObject_Impl]’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/lin_matrix.h:561:46: required from ‘beachmat::lin_SparseArraySeed::lin_SparseArraySeed(Rcpp::RObject) [with V = Rcpp::Vector<10, Rcpp::PreserveStorage>; TIT = const int*; Rcpp::RObject = Rcpp::RObject_Impl]’ 561 | lin_SparseArraySeed(Rcpp::RObject mat) : reader(mat) { | ^~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/read_lin_block.h:40:39: required from ‘std::unique_ptr beachmat::read_lin_sparse_block_raw(Rcpp::RObject) [with M = lin_matrix; Rcpp::RObject = Rcpp::RObject_Impl]’ 40 | return std::unique_ptr(new logical_SparseArraySeed(block)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/read_lin_block.h:65:57: required from here 65 | auto ptr = read_lin_sparse_block_raw(block); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h:535:17: warning: comparison of integer expressions of different signedness: ‘const size_t’ {aka ‘const long unsigned int’} and ‘R_xlen_t’ {aka ‘long int’} [-Wsign-compare] 535 | if (nnz != x.size()) { | ~~~~^~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h:551:45: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const size_t’ {aka ‘const long unsigned int’} [-Wsign-compare] 551 | if (lastR <= 0 || lastR > NR || lastC <= 0 || lastC > NC) { | ~~~~~~^~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h:551:73: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const size_t’ {aka ‘const long unsigned int’} [-Wsign-compare] 551 | if (lastR <= 0 || lastR > NR || lastC <= 0 || lastC > NC) { | ~~~~~~^~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h:593:35: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const size_t’ {aka ‘const long unsigned int’} [-Wsign-compare] 593 | for (int v = 0; v < nnz; ++v, ++rowIt, ++colIt, ++xIt) { | ~~^~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h: In instantiation of ‘beachmat::sparse_index beachmat::Csparse_core::get_row(size_t, ALT, I*, size_t, size_t) [with OUT = const int*; ALT = int*; TIT = const double*; I = int; P = long unsigned int; size_t = long unsigned int]’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h:650:42: required from ‘beachmat::sparse_index beachmat::SparseArraySeed_reader::get_row(size_t, ALT, int*, size_t, size_t) [with OUT = const int*; ALT = int*; V = Rcpp::Vector<14, Rcpp::PreserveStorage>; TIT = const double*; size_t = long unsigned int]’ 650 | return core.template get_row(r, work_x, work_i, first, last); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/lin_matrix.h:596:51: required from ‘beachmat::sparse_index beachmat::lin_SparseArraySeed::get_row(size_t, int*, int*, size_t, size_t) [with V = Rcpp::Vector<14, Rcpp::PreserveStorage>; TIT = const double*; size_t = long unsigned int]’ 596 | return reader.template get_row(r, work_x, work_i, first, last); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/lin_matrix.h:595:35: required from here 595 | sparse_index get_row(size_t r, int* work_x, int* work_i, size_t first, size_t last) { | ^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h:250:22: warning: comparison of integer expressions of different signedness: ‘const int’ and ‘const long unsigned int’ [-Wsign-compare] 250 | if (idex != *pIt && static_cast(i[idex]) == r) { | ~~~~~^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h: In instantiation of ‘beachmat::sparse_index beachmat::Csparse_core::get_row(size_t, ALT, I*, size_t, size_t) [with OUT = const double*; ALT = double*; TIT = const double*; I = int; P = long unsigned int; size_t = long unsigned int]’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h:650:42: required from ‘beachmat::sparse_index beachmat::SparseArraySeed_reader::get_row(size_t, ALT, int*, size_t, size_t) [with OUT = const double*; ALT = double*; V = Rcpp::Vector<14, Rcpp::PreserveStorage>; TIT = const double*; size_t = long unsigned int]’ 650 | return core.template get_row(r, work_x, work_i, first, last); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/lin_matrix.h:602:54: required from ‘beachmat::sparse_index beachmat::lin_SparseArraySeed::get_row(size_t, double*, int*, size_t, size_t) [with V = Rcpp::Vector<14, Rcpp::PreserveStorage>; TIT = const double*; size_t = long unsigned int]’ 602 | return reader.template get_row(r, work_x, work_i, first, last); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/lin_matrix.h:601:38: required from here 601 | sparse_index get_row(size_t r, double* work_x, int* work_i, size_t first, size_t last) { | ^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h:250:22: warning: comparison of integer expressions of different signedness: ‘const int’ and ‘const long unsigned int’ [-Wsign-compare] 250 | if (idex != *pIt && static_cast(i[idex]) == r) { | ~~~~~^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h: In instantiation of ‘beachmat::sparse_index beachmat::Csparse_core::get_row(size_t, ALT, I*, size_t, size_t) [with OUT = const int*; ALT = int*; TIT = const int*; I = int; P = long unsigned int; size_t = long unsigned int]’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h:650:42: required from ‘beachmat::sparse_index beachmat::SparseArraySeed_reader::get_row(size_t, ALT, int*, size_t, size_t) [with OUT = const int*; ALT = int*; V = Rcpp::Vector<10, Rcpp::PreserveStorage>; TIT = const int*; size_t = long unsigned int]’ 650 | return core.template get_row(r, work_x, work_i, first, last); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/lin_matrix.h:596:51: required from ‘beachmat::sparse_index beachmat::lin_SparseArraySeed::get_row(size_t, int*, int*, size_t, size_t) [with V = Rcpp::Vector<10, Rcpp::PreserveStorage>; TIT = const int*; size_t = long unsigned int]’ 596 | return reader.template get_row(r, work_x, work_i, first, last); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/lin_matrix.h:595:35: required from here 595 | sparse_index get_row(size_t r, int* work_x, int* work_i, size_t first, size_t last) { | ^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h:250:22: warning: comparison of integer expressions of different signedness: ‘const int’ and ‘const long unsigned int’ [-Wsign-compare] 250 | if (idex != *pIt && static_cast(i[idex]) == r) { | ~~~~~^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h: In instantiation of ‘beachmat::sparse_index beachmat::Csparse_core::get_row(size_t, ALT, I*, size_t, size_t) [with OUT = const double*; ALT = double*; TIT = const int*; I = int; P = long unsigned int; size_t = long unsigned int]’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h:650:42: required from ‘beachmat::sparse_index beachmat::SparseArraySeed_reader::get_row(size_t, ALT, int*, size_t, size_t) [with OUT = const double*; ALT = double*; V = Rcpp::Vector<10, Rcpp::PreserveStorage>; TIT = const int*; size_t = long unsigned int]’ 650 | return core.template get_row(r, work_x, work_i, first, last); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/lin_matrix.h:602:54: required from ‘beachmat::sparse_index beachmat::lin_SparseArraySeed::get_row(size_t, double*, int*, size_t, size_t) [with V = Rcpp::Vector<10, Rcpp::PreserveStorage>; TIT = const int*; size_t = long unsigned int]’ 602 | return reader.template get_row(r, work_x, work_i, first, last); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/lin_matrix.h:601:38: required from here 601 | sparse_index get_row(size_t r, double* work_x, int* work_i, size_t first, size_t last) { | ^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include/beachmat3/Csparse_reader.h:250:22: warning: comparison of integer expressions of different signedness: ‘const int’ and ‘const long unsigned int’ [-Wsign-compare] 250 | if (idex != *pIt && static_cast(i[idex]) == r) { | ~~~~~^~~~~~~ g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I../inst/include/ -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/beachmat/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c utils.cpp -o utils.o g++-14 -std=gnu++11 -shared -L/home/hornik/tmp/R-d-gcc-14/lib -Wl,-O1 -o scuttle.so RcppExports.o cumulative_prop.o downsample_counts.o fit_linear_model.o pool_size_factors.o sparse_summarize.o sum_counts.o utils.o -llapack -L/home/hornik/tmp/R-d-gcc-14/lib -lRblas -lgfortran -lm -lquadmath -L/home/hornik/tmp/R-d-gcc-14/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpuDt8pS/R.INSTALL31348e15be1024/scuttle/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-scuttle/00new/scuttle/libs ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (scuttle) begin installing package ‘GOstats’ * installing *source* package ‘ROntoTools’ ... ** this is package ‘ROntoTools’ version ‘2.36.0’ ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (ROntoTools) begin installing package ‘ggstatsplot’ * installing *source* package ‘qs2’ ... ** this is package ‘qs2’ version ‘0.1.5’ ** package ‘qs2’ successfully unpacked and MD5 sums checked ** using staged installation checking for pkg-config... /usr/bin/pkg-config checking whether the C++ compiler works... yes checking for C++ compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... no checking for suffix of object files... o checking whether we are using the GNU C++ compiler... yes checking whether g++-14 -std=gnu++17 accepts -g... yes C++ compiler: g++-14 -std=gnu++17 zstd 1.5.7 library detected -- skipping zstd compilation Fixed blocksize Not using TBB configure: creating ./config.status config.status: creating src/Makevars ** libs using C++ compiler: ‘g++-14 (Debian 14.2.0-19) 14.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpZMj17b/R.INSTALL3172d85cfd1c84/qs2/src' g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -DRCPP_USE_UNWIND_PROTECT -DRCPP_NO_RTTI -DRCPP_NO_SUGAR -I../inst/include -I. -DIS_UTF8_LOCALE=1 -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/stringfish/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -DRCPP_PARALLEL_USE_TBB=0 -fpic -g -O2 -Wall -pedantic -mtune=native -c RcppExports.cpp -o RcppExports.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -DRCPP_USE_UNWIND_PROTECT -DRCPP_NO_RTTI -DRCPP_NO_SUGAR -I../inst/include -I. -DIS_UTF8_LOCALE=1 -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/stringfish/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -DRCPP_PARALLEL_USE_TBB=0 -fpic -g -O2 -Wall -pedantic -mtune=native -c qx_functions.cpp -o qx_functions.o g++-14 -std=gnu++17 -shared -L/home/hornik/tmp/R-d-gcc-14/lib -Wl,-O1 -o qs2.so RcppExports.o qx_functions.o -L. -lzstd -L/home/hornik/tmp/R-d-gcc-14/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpZMj17b/R.INSTALL3172d85cfd1c84/qs2/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-qs2/00new/qs2/libs ** R ** data *** moving datasets to lazyload DB ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (qs2) begin installing package ‘maftools’ * installing *source* package ‘AnnoProbe’ ... ** this is package ‘AnnoProbe’ version ‘0.1.7’ ** package ‘AnnoProbe’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** data *** moving datasets to lazyload DB ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (AnnoProbe) begin installing package ‘mvSLOUCH’ * installing *source* package ‘rbiom’ ... ** this is package ‘rbiom’ version ‘2.2.0’ ** package ‘rbiom’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C compiler: ‘gcc-14 (Debian 14.2.0-19) 14.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/Rtmp40wKiu/R.INSTALL317d5149c57379/rbiom/src' gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c alpha_div.c -o alpha_div.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c beta_div.c -o beta_div.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c get.c -o get.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c init.c -o init.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c pthreads.c -o pthreads.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c rarefy.c -o rarefy.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c read_tree.c -o read_tree.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c unifrac.c -o unifrac.o gcc-14 -std=gnu23 -shared -L/home/hornik/tmp/R-d-gcc-14/lib -Wl,-O1 -o rbiom.so alpha_div.o beta_div.o get.o init.o pthreads.o rarefy.o read_tree.o unifrac.o -L/home/hornik/tmp/R-d-gcc-14/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/Rtmp40wKiu/R.INSTALL317d5149c57379/rbiom/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-rbiom/00new/rbiom/libs ** R ** data *** moving datasets to lazyload DB ** exec ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (rbiom) begin installing package ‘eulerr’ * installing *source* package ‘MsFeatures’ ... ** this is package ‘MsFeatures’ version ‘1.16.0’ ** using staged installation ** R ** data ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (MsFeatures) begin installing package ‘revtools’ * installing *source* package ‘tmod’ ... ** this is package ‘tmod’ version ‘0.50.13’ ** package ‘tmod’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** data ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (tmod) begin installing package ‘mapedit’ * installing *source* package ‘ggstatsplot’ ... ** this is package ‘ggstatsplot’ version ‘0.13.1’ ** package ‘ggstatsplot’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** data *** moving datasets to lazyload DB ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (ggstatsplot) begin installing package ‘superbiclust’ * installing *source* package ‘affy’ ... ** this is package ‘affy’ version ‘1.86.0’ ** using staged installation creating cache ./config.cache checking how to run the C preprocessor... gcc-14 -std=gnu23 -E checking for main in -lz... yes checking for zlib.h... yes checking if zlib version >= 1.1.3... yes updating cache ./config.cache creating ./config.status creating src/Makevars ** libs using C compiler: ‘gcc-14 (Debian 14.2.0-19) 14.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpCHCVEh/R.INSTALL31860c1c8653fe/affy/src' gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -DHAVE_ZLIB=1 -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/preprocessCore/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c chipbackground.c -o chipbackground.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -DHAVE_ZLIB=1 -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/preprocessCore/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c getall_locations.c -o getall_locations.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -DHAVE_ZLIB=1 -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/preprocessCore/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c mas5calls.c -o mas5calls.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -DHAVE_ZLIB=1 -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/preprocessCore/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c rma2.c -o rma2.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -DHAVE_ZLIB=1 -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/preprocessCore/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c rma_common.c -o rma_common.o gcc-14 -std=gnu23 -shared -L/home/hornik/tmp/R-d-gcc-14/lib -Wl,-O1 -o affy.so chipbackground.o getall_locations.o mas5calls.o rma2.o rma_common.o -lz -L/home/hornik/tmp/R-d-gcc-14/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpCHCVEh/R.INSTALL31860c1c8653fe/affy/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-affy/00new/affy/libs ** R ** data ** demo ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (affy) begin installing package ‘BcDiag’ * installing *source* package ‘bluster’ ... ** this is package ‘bluster’ version ‘1.18.0’ ** using staged installation ** libs using C++ compiler: ‘g++-14 (Debian 14.2.0-19) 14.2.0’ using C++17 make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpLy0lf1/R.INSTALL317cc465521bb7/bluster/src' g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/assorthead/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c RcppExports.cpp -o RcppExports.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/assorthead/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c build_snn.cpp -o build_snn.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/assorthead/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c sum_neighbor_weights.cpp -o sum_neighbor_weights.o g++-14 -std=gnu++17 -shared -L/home/hornik/tmp/R-d-gcc-14/lib -Wl,-O1 -o bluster.so RcppExports.o build_snn.o sum_neighbor_weights.o -L/home/hornik/tmp/R-d-gcc-14/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpLy0lf1/R.INSTALL317cc465521bb7/bluster/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-bluster/00new/bluster/libs ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (bluster) begin installing package ‘metap’ * installing *source* package ‘BcDiag’ ... ** this is package ‘BcDiag’ version ‘1.0.10’ ** package ‘BcDiag’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** data ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (BcDiag) begin installing package ‘minfi’ * installing *source* package ‘VariantAnnotation’ ... ** this is package ‘VariantAnnotation’ version ‘1.54.1’ ** using staged installation ** libs using C compiler: ‘gcc-14 (Debian 14.2.0-19) 14.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/RtmplDR7Gt/R.INSTALL31483335087939/VariantAnnotation/src' gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/S4Vectors/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/IRanges/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/XVector/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Biostrings/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhtslib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c Biostrings_stubs.c -o Biostrings_stubs.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/S4Vectors/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/IRanges/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/XVector/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Biostrings/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhtslib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c IRanges_stubs.c -o IRanges_stubs.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/S4Vectors/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/IRanges/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/XVector/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Biostrings/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhtslib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c R_init_VariantAnnotation.c -o R_init_VariantAnnotation.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/S4Vectors/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/IRanges/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/XVector/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Biostrings/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhtslib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c XVector_stubs.c -o XVector_stubs.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/S4Vectors/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/IRanges/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/XVector/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Biostrings/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhtslib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c dna_hash.c -o dna_hash.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/S4Vectors/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/IRanges/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/XVector/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Biostrings/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhtslib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c rle.c -o rle.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/S4Vectors/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/IRanges/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/XVector/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Biostrings/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhtslib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c strhash.c -o strhash.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/S4Vectors/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/IRanges/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/XVector/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Biostrings/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhtslib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c utilities.c -o utilities.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/S4Vectors/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/IRanges/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/XVector/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Biostrings/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhtslib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c vcffile.c -o vcffile.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/S4Vectors/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/IRanges/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/XVector/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Biostrings/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhtslib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c vcftype.c -o vcftype.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/S4Vectors/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/IRanges/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/XVector/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Biostrings/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhtslib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c writevcf.c -o writevcf.o gcc-14 -std=gnu23 -shared -L/home/hornik/tmp/R-d-gcc-14/lib -Wl,-O1 -o VariantAnnotation.so Biostrings_stubs.o IRanges_stubs.o R_init_VariantAnnotation.o XVector_stubs.o dna_hash.o rle.o strhash.o utilities.o vcffile.o vcftype.o writevcf.o /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhtslib/usrlib/libhts.a -lcurl -lbz2 -llzma -lz -L/home/hornik/tmp/R-d-gcc-14/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmplDR7Gt/R.INSTALL31483335087939/VariantAnnotation/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-VariantAnnotation/00new/VariantAnnotation/libs ** R ** inst ** byte-compile and prepare package for lazy loading Creating a new generic function for ‘tabulate’ in package ‘VariantAnnotation’ ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (VariantAnnotation) begin installing package ‘Spectra’ * installing *source* package ‘revtools’ ... ** this is package ‘revtools’ version ‘0.4.1’ ** package ‘revtools’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (revtools) begin installing package ‘vsn’ * installing *source* package ‘oligoClasses’ ... ** this is package ‘oligoClasses’ version ‘1.70.0’ ** using staged installation ** R ** data ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (oligoClasses) begin installing package ‘wikitaxa’ * installing *source* package ‘gutenbergr’ ... ** this is package ‘gutenbergr’ version ‘0.3.0’ ** package ‘gutenbergr’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** data *** moving datasets to lazyload DB ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (gutenbergr) begin installing package ‘GLAD’ * installing *source* package ‘affxparser’ ... ** this is package ‘affxparser’ version ‘1.80.0’ ** using staged installation ** libs using C compiler: ‘gcc-14 (Debian 14.2.0-19) 14.2.0’ using C++ compiler: ‘g++-14 (Debian 14.2.0-19) 14.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpraPRcS/R.INSTALL31348523be26ef/affxparser/src' rm -f fusion/calvin_files/data/src/CDFData.o fusion/calvin_files/data/src/CDFProbeGroupInformation.o fusion/calvin_files/data/src/CDFProbeInformation.o fusion/calvin_files/data/src/CDFProbeSetInformation.o fusion/calvin_files/data/src/CDFQCProbeInformation.o fusion/calvin_files/data/src/CDFQCProbeSetInformation.o fusion/calvin_files/data/src/CELData.o fusion/calvin_files/data/src/CHPBackgroundZone.o fusion/calvin_files/data/src/CHPData.o fusion/calvin_files/data/src/CHPExpressionEntry.o fusion/calvin_files/data/src/CHPMultiDataData.o fusion/calvin_files/data/src/CHPTilingData.o fusion/calvin_files/data/src/CHPQuantificationData.o fusion/calvin_files/data/src/CHPQuantificationDetectionData.o fusion/calvin_files/data/src/CHPGenotypeEntry.o fusion/calvin_files/data/src/CHPUniversalEntry.o fusion/calvin_files/data/src/ColumnInfo.o fusion/calvin_files/data/src/DataGroup.o fusion/calvin_files/data/src/DataGroupHeader.o fusion/calvin_files/data/src/DataSet.o fusion/calvin_files/data/src/DataSetHeader.o fusion/calvin_files/data/src/FileHeader.o fusion/calvin_files/data/src/GenericData.o fusion/calvin_files/data/src/GenericDataHeader.o fusion/calvin_files/exception/src/ExceptionBase.o fusion/calvin_files/fusion/src/CalvinAdapter/CalvinCELDataAdapter.o fusion/calvin_files/fusion/src/CalvinAdapter/CalvinCHPDataAdapter.o fusion/calvin_files/fusion/src/FusionBPMAPData.o fusion/calvin_files/fusion/src/FusionCDFData.o fusion/calvin_files/fusion/src/FusionCDFQCProbeSetNames.o fusion/calvin_files/fusion/src/FusionCELData.o fusion/calvin_files/fusion/src/FusionCHPData.o fusion/calvin_files/fusion/src/FusionProbeSetResults.o fusion/calvin_files/fusion/src/GCOSAdapter/GCOSCELDataAdapter.o fusion/calvin_files/fusion/src/GCOSAdapter/GCOSCHPDataAdapter.o fusion/calvin_files/fusion/src/FusionCHPLegacyData.o fusion/calvin_files/fusion/src/FusionCHPMultiDataAccessor.o fusion/calvin_files/fusion/src/FusionCHPMultiDataData.o fusion/calvin_files/fusion/src/FusionCHPTilingData.o fusion/calvin_files/fusion/src/FusionCHPGenericData.o fusion/calvin_files/fusion/src/FusionCHPQuantificationData.o fusion/calvin_files/fusion/src/FusionCHPQuantificationDetectionData.o fusion/calvin_files/parameter/src/ParameterNameValueType.o fusion/calvin_files/parsers/src/CDFFileReader.o fusion/calvin_files/parsers/src/CelFileReader.o fusion/calvin_files/parsers/src/CHPFileReader.o fusion/calvin_files/parsers/src/CHPMultiDataFileReader.o fusion/calvin_files/parsers/src/CHPTilingFileReader.o fusion/calvin_files/parsers/src/CHPQuantificationFileReader.o fusion/calvin_files/parsers/src/CHPQuantificationDetectionFileReader.o fusion/calvin_files/parsers/src/DataGroupHeaderReader.o fusion/calvin_files/parsers/src/DataGroupReader.o fusion/calvin_files/parsers/src/DataSetHeaderReader.o fusion/calvin_files/parsers/src/DataSetReader.o fusion/calvin_files/parsers/src/FileHeaderReader.o fusion/calvin_files/parsers/src/FileInput.o fusion/calvin_files/parsers/src/GenericDataHeaderReader.o fusion/calvin_files/parsers/src/GenericFileReader.o fusion/calvin_files/utils/src/AffymetrixGuid.o fusion/calvin_files/utils/src/DateTime.o fusion/calvin_files/utils/src/FileUtils.o fusion/calvin_files/utils/src/StringUtils.o fusion/calvin_files/utils/src/checksum.o fusion/file/BPMAPFileData.o fusion/file/BPMAPFileWriter.o fusion/file/CDFFileData.o fusion/file/CELFileData.o fusion/file/CHPFileData.o fusion/file/FileIO.o fusion/file/FileWriter.o fusion/file/TsvFile/ClfFile.o fusion/file/TsvFile/PgfFile.o fusion/file/TsvFile/TsvFile.o fusion/util/AffxByteArray.o fusion/util/AffxConv.o fusion/util/MsgStream.o fusion/util/Util.o fusion/util/Err.o fusion/util/Fs.o fusion/util/Verbose.o fusion/util/RowFile.o fusion/util/TableFile.o fusion/util/Convert.o R_affx_cel_parser.o R_affx_cdf_parser.o R_affx_cdf_extras.o R_affx_bpmap_parser.o R_affx_clf_pgf_parser.o R_affx_chp_parser.o 000.init.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-sign-compare -O0 -c fusion/calvin_files/data/src/CDFData.cpp -o fusion/calvin_files/data/src/CDFData.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-sign-compare -O0 -c fusion/calvin_files/data/src/CDFProbeGroupInformation.cpp -o fusion/calvin_files/data/src/CDFProbeGroupInformation.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-sign-compare -O0 -c fusion/calvin_files/data/src/CDFProbeInformation.cpp -o fusion/calvin_files/data/src/CDFProbeInformation.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-sign-compare -O0 -c fusion/calvin_files/data/src/CDFProbeSetInformation.cpp -o fusion/calvin_files/data/src/CDFProbeSetInformation.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-sign-compare -O0 -c fusion/calvin_files/data/src/CDFQCProbeInformation.cpp -o fusion/calvin_files/data/src/CDFQCProbeInformation.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-sign-compare -O0 -c fusion/calvin_files/data/src/CDFQCProbeSetInformation.cpp -o fusion/calvin_files/data/src/CDFQCProbeSetInformation.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-sign-compare -O0 -c fusion/calvin_files/data/src/CELData.cpp -o fusion/calvin_files/data/src/CELData.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-sign-compare -O0 -c fusion/calvin_files/data/src/CHPBackgroundZone.cpp -o fusion/calvin_files/data/src/CHPBackgroundZone.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-sign-compare -O0 -c fusion/calvin_files/data/src/CHPData.cpp -o fusion/calvin_files/data/src/CHPData.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-sign-compare -O0 -c fusion/calvin_files/data/src/CHPExpressionEntry.cpp -o fusion/calvin_files/data/src/CHPExpressionEntry.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-sign-compare -O0 -c fusion/calvin_files/data/src/CHPMultiDataData.cpp -o fusion/calvin_files/data/src/CHPMultiDataData.o fusion/calvin_files/data/src/CHPMultiDataData.cpp: In member function ‘void affymetrix_calvin_io::CHPMultiDataData::SetEntryCount(affymetrix_calvin_io::MultiDataType, int32_t, int32_t, const std::vector&, const std::wstring&)’: fusion/calvin_files/data/src/CHPMultiDataData.cpp:427:5: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] 427 | else | ^~~~ fusion/calvin_files/data/src/CHPMultiDataData.cpp:429:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘else’ 429 | DataGroupHeader* dgHdr = GetDataGroupHeader(dataTypeGroupNames[dataType]); | ^~~~~~~~~~~~~~~ fusion/calvin_files/data/src/CHPMultiDataData.cpp: In member function ‘void affymetrix_calvin_io::CHPMultiDataData::SetEntryCount(affymetrix_calvin_io::MultiDataType, int32_t, int, int, int, const std::wstring&)’: fusion/calvin_files/data/src/CHPMultiDataData.cpp:457:5: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] 457 | else | ^~~~ fusion/calvin_files/data/src/CHPMultiDataData.cpp:459:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘else’ 459 | DataGroupHeader* dgHdr = GetDataGroupHeader(dataTypeGroupNames[dataType]); | ^~~~~~~~~~~~~~~ fusion/calvin_files/data/src/CHPMultiDataData.cpp: In member function ‘void affymetrix_calvin_io::CHPMultiDataData::SetEntryCount(affymetrix_calvin_io::MultiDataType, int32_t, int, int, int, int, const std::wstring&)’: fusion/calvin_files/data/src/CHPMultiDataData.cpp:482:5: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] 482 | else | ^~~~ fusion/calvin_files/data/src/CHPMultiDataData.cpp:484:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘else’ 484 | DataGroupHeader* dgHdr = GetDataGroupHeader(dataTypeGroupNames[dataType]); | ^~~~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-sign-compare -O0 -c fusion/calvin_files/data/src/CHPTilingData.cpp -o fusion/calvin_files/data/src/CHPTilingData.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-sign-compare -O0 -c fusion/calvin_files/data/src/CHPQuantificationData.cpp -o fusion/calvin_files/data/src/CHPQuantificationData.o fusion/calvin_files/data/src/CHPQuantificationData.cpp: In member function ‘void affymetrix_calvin_io::CHPQuantificationData::AddColumns(affymetrix_calvin_io::DataSetHeader&, bool)’: fusion/calvin_files/data/src/CHPQuantificationData.cpp:144:5: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] 144 | else | ^~~~ fusion/calvin_files/data/src/CHPQuantificationData.cpp:146:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘else’ 146 | hdr.AddFloatColumn(QUANTIFICATION_QUANTIFICATION_NAME); | ^~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-sign-compare -O0 -c fusion/calvin_files/data/src/CHPQuantificationDetectionData.cpp -o fusion/calvin_files/data/src/CHPQuantificationDetectionData.o fusion/calvin_files/data/src/CHPQuantificationDetectionData.cpp: In member function ‘void affymetrix_calvin_io::CHPQuantificationDetectionData::AddColumns(affymetrix_calvin_io::DataSetHeader&, bool)’: fusion/calvin_files/data/src/CHPQuantificationDetectionData.cpp:151:5: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] 151 | else | ^~~~ fusion/calvin_files/data/src/CHPQuantificationDetectionData.cpp:153:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘else’ 153 | hdr.AddFloatColumn(QUANTIFICATION_DETECTION_QUANTIFICATION_NAME); | ^~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-sign-compare -O0 -c fusion/calvin_files/data/src/CHPGenotypeEntry.cpp -o fusion/calvin_files/data/src/CHPGenotypeEntry.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-sign-compare -O0 -c fusion/calvin_files/data/src/CHPUniversalEntry.cpp -o fusion/calvin_files/data/src/CHPUniversalEntry.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-sign-compare -O0 -c fusion/calvin_files/data/src/ColumnInfo.cpp -o fusion/calvin_files/data/src/ColumnInfo.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-sign-compare -O0 -c fusion/calvin_files/data/src/DataGroup.cpp -o fusion/calvin_files/data/src/DataGroup.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-sign-compare -O0 -c fusion/calvin_files/data/src/DataGroupHeader.cpp -o fusion/calvin_files/data/src/DataGroupHeader.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-sign-compare -O0 -c fusion/calvin_files/data/src/DataSet.cpp -o fusion/calvin_files/data/src/DataSet.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-sign-compare -O0 -c fusion/calvin_files/data/src/DataSetHeader.cpp -o fusion/calvin_files/data/src/DataSetHeader.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-sign-compare -O0 -c fusion/calvin_files/data/src/FileHeader.cpp -o fusion/calvin_files/data/src/FileHeader.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-sign-compare -O0 -c fusion/calvin_files/data/src/GenericData.cpp -o fusion/calvin_files/data/src/GenericData.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-sign-compare -O0 -c fusion/calvin_files/data/src/GenericDataHeader.cpp -o fusion/calvin_files/data/src/GenericDataHeader.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-sign-compare -O0 -c fusion/calvin_files/exception/src/ExceptionBase.cpp -o fusion/calvin_files/exception/src/ExceptionBase.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-sign-compare -O0 -c fusion/calvin_files/fusion/src/CalvinAdapter/CalvinCELDataAdapter.cpp -o fusion/calvin_files/fusion/src/CalvinAdapter/CalvinCELDataAdapter.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-sign-compare -O0 -c fusion/calvin_files/fusion/src/CalvinAdapter/CalvinCHPDataAdapter.cpp -o fusion/calvin_files/fusion/src/CalvinAdapter/CalvinCHPDataAdapter.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-sign-compare -O0 -c fusion/calvin_files/fusion/src/FusionBPMAPData.cpp -o fusion/calvin_files/fusion/src/FusionBPMAPData.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-sign-compare -O0 -c fusion/calvin_files/fusion/src/FusionCDFData.cpp -o fusion/calvin_files/fusion/src/FusionCDFData.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-sign-compare -O0 -c fusion/calvin_files/fusion/src/FusionCDFQCProbeSetNames.cpp -o fusion/calvin_files/fusion/src/FusionCDFQCProbeSetNames.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-sign-compare -O0 -c fusion/calvin_files/fusion/src/FusionCELData.cpp -o fusion/calvin_files/fusion/src/FusionCELData.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-sign-compare -O0 -c fusion/calvin_files/fusion/src/FusionCHPData.cpp -o fusion/calvin_files/fusion/src/FusionCHPData.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-sign-compare -O0 -c fusion/calvin_files/fusion/src/FusionProbeSetResults.cpp -o fusion/calvin_files/fusion/src/FusionProbeSetResults.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-sign-compare -O0 -c fusion/calvin_files/fusion/src/GCOSAdapter/GCOSCELDataAdapter.cpp -o fusion/calvin_files/fusion/src/GCOSAdapter/GCOSCELDataAdapter.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-sign-compare -O0 -c fusion/calvin_files/fusion/src/GCOSAdapter/GCOSCHPDataAdapter.cpp -o fusion/calvin_files/fusion/src/GCOSAdapter/GCOSCHPDataAdapter.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-sign-compare -O0 -c fusion/calvin_files/fusion/src/FusionCHPLegacyData.cpp -o fusion/calvin_files/fusion/src/FusionCHPLegacyData.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-sign-compare -O0 -c fusion/calvin_files/fusion/src/FusionCHPMultiDataAccessor.cpp -o fusion/calvin_files/fusion/src/FusionCHPMultiDataAccessor.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-sign-compare -O0 -c fusion/calvin_files/fusion/src/FusionCHPMultiDataData.cpp -o fusion/calvin_files/fusion/src/FusionCHPMultiDataData.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-sign-compare -O0 -c fusion/calvin_files/fusion/src/FusionCHPTilingData.cpp -o fusion/calvin_files/fusion/src/FusionCHPTilingData.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-sign-compare -O0 -c fusion/calvin_files/fusion/src/FusionCHPGenericData.cpp -o fusion/calvin_files/fusion/src/FusionCHPGenericData.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-sign-compare -O0 -c fusion/calvin_files/fusion/src/FusionCHPQuantificationData.cpp -o fusion/calvin_files/fusion/src/FusionCHPQuantificationData.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-sign-compare -O0 -c fusion/calvin_files/fusion/src/FusionCHPQuantificationDetectionData.cpp -o fusion/calvin_files/fusion/src/FusionCHPQuantificationDetectionData.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-sign-compare -O0 -c fusion/calvin_files/parameter/src/ParameterNameValueType.cpp -o fusion/calvin_files/parameter/src/ParameterNameValueType.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-sign-compare -O0 -c fusion/calvin_files/parsers/src/CDFFileReader.cpp -o fusion/calvin_files/parsers/src/CDFFileReader.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-sign-compare -O0 -c fusion/calvin_files/parsers/src/CelFileReader.cpp -o fusion/calvin_files/parsers/src/CelFileReader.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-sign-compare -O0 -c fusion/calvin_files/parsers/src/CHPFileReader.cpp -o fusion/calvin_files/parsers/src/CHPFileReader.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-sign-compare -O0 -c fusion/calvin_files/parsers/src/CHPMultiDataFileReader.cpp -o fusion/calvin_files/parsers/src/CHPMultiDataFileReader.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-sign-compare -O0 -c fusion/calvin_files/parsers/src/CHPTilingFileReader.cpp -o fusion/calvin_files/parsers/src/CHPTilingFileReader.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-sign-compare -O0 -c fusion/calvin_files/parsers/src/CHPQuantificationFileReader.cpp -o fusion/calvin_files/parsers/src/CHPQuantificationFileReader.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-sign-compare -O0 -c fusion/calvin_files/parsers/src/CHPQuantificationDetectionFileReader.cpp -o fusion/calvin_files/parsers/src/CHPQuantificationDetectionFileReader.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-sign-compare -O0 -c fusion/calvin_files/parsers/src/DataGroupHeaderReader.cpp -o fusion/calvin_files/parsers/src/DataGroupHeaderReader.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-sign-compare -O0 -c fusion/calvin_files/parsers/src/DataGroupReader.cpp -o fusion/calvin_files/parsers/src/DataGroupReader.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-sign-compare -O0 -c fusion/calvin_files/parsers/src/DataSetHeaderReader.cpp -o fusion/calvin_files/parsers/src/DataSetHeaderReader.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-sign-compare -O0 -c fusion/calvin_files/parsers/src/DataSetReader.cpp -o fusion/calvin_files/parsers/src/DataSetReader.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-sign-compare -O0 -c fusion/calvin_files/parsers/src/FileHeaderReader.cpp -o fusion/calvin_files/parsers/src/FileHeaderReader.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-sign-compare -O0 -c fusion/calvin_files/parsers/src/FileInput.cpp -o fusion/calvin_files/parsers/src/FileInput.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-sign-compare -O0 -c fusion/calvin_files/parsers/src/GenericDataHeaderReader.cpp -o fusion/calvin_files/parsers/src/GenericDataHeaderReader.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-sign-compare -O0 -c fusion/calvin_files/parsers/src/GenericFileReader.cpp -o fusion/calvin_files/parsers/src/GenericFileReader.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-sign-compare -O0 -c fusion/calvin_files/utils/src/AffymetrixGuid.cpp -o fusion/calvin_files/utils/src/AffymetrixGuid.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-sign-compare -O0 -c fusion/calvin_files/utils/src/DateTime.cpp -o fusion/calvin_files/utils/src/DateTime.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-sign-compare -O0 -c fusion/calvin_files/utils/src/FileUtils.cpp -o fusion/calvin_files/utils/src/FileUtils.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-sign-compare -O0 -c fusion/calvin_files/utils/src/StringUtils.cpp -o fusion/calvin_files/utils/src/StringUtils.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-sign-compare -O0 -c fusion/calvin_files/utils/src/checksum.cpp -o fusion/calvin_files/utils/src/checksum.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-sign-compare -O0 -c fusion/file/BPMAPFileData.cpp -o fusion/file/BPMAPFileData.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-sign-compare -O0 -c fusion/file/BPMAPFileWriter.cpp -o fusion/file/BPMAPFileWriter.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-sign-compare -O0 -c fusion/file/CDFFileData.cpp -o fusion/file/CDFFileData.o fusion/file/CDFFileData.cpp: In member function ‘bool affxcdf::CCDFFileData::ReadTextFormat()’: fusion/file/CDFFileData.cpp:858:10: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 858 | else if ( strncmp( subStr, CDFVERSION6, strlen(CDFVERSION6)) == 0) | ^~ fusion/file/CDFFileData.cpp:861:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 861 | if (m_Header.m_Version >= 6) | ^~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-sign-compare -O0 -c fusion/file/CELFileData.cpp -o fusion/file/CELFileData.o fusion/file/CELFileData.cpp: In member function ‘float affxcel::CCELFileData::GetIntensity(int)’: fusion/file/CELFileData.cpp:2409:41: warning: taking address of packed member of ‘affxcel::_CELFileEntryType’ may result in an unaligned pointer value [-Waddress-of-packed-member] 2409 | fIntensity=MmGetFloat_I(&m_pEntries[index].Intensity); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ fusion/file/CELFileData.cpp:2414:41: warning: taking address of packed member of ‘affxcel::_CELFileEntryType’ may result in an unaligned pointer value [-Waddress-of-packed-member] 2414 | fIntensity=MmGetFloat_I(&(m_pEntries[index].Intensity)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fusion/file/CELFileData.cpp:2419:42: warning: taking address of packed member of ‘affxcel::_CELFileTranscriptomeEntryType’ may result in an unaligned pointer value [-Waddress-of-packed-member] 2419 | fIntensity=MmGetUInt16_N(&(m_pTransciptomeEntries[index].Intensity)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fusion/file/CELFileData.cpp: In member function ‘int affxcel::CCELFileData::GetIntensities(int, std::vector&)’: fusion/file/CELFileData.cpp:2445:37: warning: taking address of packed member of ‘affxcel::_CELFileEntryType’ may result in an unaligned pointer value [-Waddress-of-packed-member] 2445 | intensities[idx]=MmGetFloat_I(&m_pEntries[idx].Intensity); | ^~~~~~~~~~~~~~~~~~~~~~~~~~ fusion/file/CELFileData.cpp:2451:37: warning: taking address of packed member of ‘affxcel::_CELFileEntryType’ may result in an unaligned pointer value [-Waddress-of-packed-member] 2451 | intensities[idx]=MmGetFloat_I(&m_pEntries[idx].Intensity); | ^~~~~~~~~~~~~~~~~~~~~~~~~~ fusion/file/CELFileData.cpp:2457:38: warning: taking address of packed member of ‘affxcel::_CELFileTranscriptomeEntryType’ may result in an unaligned pointer value [-Waddress-of-packed-member] 2457 | intensities[idx]=MmGetUInt16_N(&m_pTransciptomeEntries[idx].Intensity); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fusion/file/CELFileData.cpp: In member function ‘float affxcel::CCELFileData::GetStdv(int)’: fusion/file/CELFileData.cpp:2506:37: warning: taking address of packed member of ‘affxcel::_CELFileEntryType’ may result in an unaligned pointer value [-Waddress-of-packed-member] 2506 | fStdev=MmGetFloat_I(&m_pEntries[index].Stdv); | ^~~~~~~~~~~~~~~~~~~~~~~ fusion/file/CELFileData.cpp:2509:37: warning: taking address of packed member of ‘affxcel::_CELFileEntryType’ may result in an unaligned pointer value [-Waddress-of-packed-member] 2509 | fStdev=MmGetFloat_I(&(m_pEntries[index].Stdv)); | ^~~~~~~~~~~~~~~~~~~~~~~~~ fusion/file/CELFileData.cpp:2512:38: warning: taking address of packed member of ‘affxcel::_CELFileTranscriptomeEntryType’ may result in an unaligned pointer value [-Waddress-of-packed-member] 2512 | fStdev=MmGetUInt16_N(&(m_pTransciptomeEntries[index].Stdv)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fusion/file/CELFileData.cpp: In member function ‘short int affxcel::CCELFileData::GetPixels(int)’: fusion/file/CELFileData.cpp:2551:38: warning: taking address of packed member of ‘affxcel::_CELFileEntryType’ may result in an unaligned pointer value [-Waddress-of-packed-member] 2551 | sPixels=MmGetInt16_I(&m_pEntries[index].Pixels); | ^~~~~~~~~~~~~~~~~~~~~~~~~ fusion/file/CELFileData.cpp:2554:38: warning: taking address of packed member of ‘affxcel::_CELFileEntryType’ may result in an unaligned pointer value [-Waddress-of-packed-member] 2554 | sPixels=MmGetInt16_I(&m_pEntries[index].Pixels); | ^~~~~~~~~~~~~~~~~~~~~~~~~ fusion/file/CELFileData.cpp: In member function ‘void affxcel::CCELFileData::SetIntensity(int, float)’: fusion/file/CELFileData.cpp:3194:30: warning: taking address of packed member of ‘affxcel::_CELFileEntryType’ may result in an unaligned pointer value [-Waddress-of-packed-member] 3194 | MmSetFloat_I(&m_pEntries[index].Intensity,intensity); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ fusion/file/CELFileData.cpp:3199:30: warning: taking address of packed member of ‘affxcel::_CELFileEntryType’ may result in an unaligned pointer value [-Waddress-of-packed-member] 3199 | MmSetFloat_I(&m_pEntries[index].Intensity,intensity); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ fusion/file/CELFileData.cpp:3204:31: warning: taking address of packed member of ‘affxcel::_CELFileTranscriptomeEntryType’ may result in an unaligned pointer value [-Waddress-of-packed-member] 3204 | MmSetUInt16_N(&m_pTransciptomeEntries[index].Intensity,s); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fusion/file/CELFileData.cpp: In member function ‘void affxcel::CCELFileData::SetStdv(int, float)’: fusion/file/CELFileData.cpp:3251:31: warning: taking address of packed member of ‘affxcel::_CELFileTranscriptomeEntryType’ may result in an unaligned pointer value [-Waddress-of-packed-member] 3251 | MmSetUInt16_N(&m_pTransciptomeEntries[index].Stdv,s); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fusion/file/CELFileData.cpp:3255:30: warning: taking address of packed member of ‘affxcel::_CELFileEntryType’ may result in an unaligned pointer value [-Waddress-of-packed-member] 3255 | MmSetFloat_I(&m_pEntries[index].Stdv,stdev); | ^~~~~~~~~~~~~~~~~~~~~~~ fusion/file/CELFileData.cpp: In member function ‘void affxcel::CCELFileData::SetPixels(int, short int)’: fusion/file/CELFileData.cpp:3294:42: warning: taking address of packed member of ‘affxcel::_CELFileEntryType’ may result in an unaligned pointer value [-Waddress-of-packed-member] 3294 | MmSetUInt16_I((uint16_t*)&m_pEntries[index].Pixels,(uint16_t)pixels); | ^~~~~~~~~~~~~~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-sign-compare -O0 -c fusion/file/CHPFileData.cpp -o fusion/file/CHPFileData.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-sign-compare -O0 -c fusion/file/FileIO.cpp -o fusion/file/FileIO.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-sign-compare -O0 -c fusion/file/FileWriter.cpp -o fusion/file/FileWriter.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-sign-compare -O0 -c fusion/file/TsvFile/ClfFile.cpp -o fusion/file/TsvFile/ClfFile.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-sign-compare -O0 -c fusion/file/TsvFile/PgfFile.cpp -o fusion/file/TsvFile/PgfFile.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-sign-compare -O0 -c fusion/file/TsvFile/TsvFile.cpp -o fusion/file/TsvFile/TsvFile.o fusion/file/TsvFile/TsvFile.cpp: In member function ‘void affx::TsvFile::dump_bindings()’: fusion/file/TsvFile/TsvFile.cpp:3918:20: warning: format ‘%p’ expects argument of type ‘void*’, but argument 3 has type ‘affx::TsvFileBinding*’ [-Wformat=] 3918 | printf("%3d : %p : bound to clvl=%2d cidx=%2d cname='%s')\n", | ~^ | | | void* 3919 | vi,var, | ~~~ | | | affx::TsvFileBinding* fusion/file/TsvFile/TsvFile.cpp: In static member function ‘static int affx::TsvFile::getLineCountInFile(const std::string&, bool)’: fusion/file/TsvFile/TsvFile.cpp:4921:20: warning: catching polymorphic type ‘class std::exception’ by value [-Wcatch-value=] 4921 | catch (exception e) { | ^ fusion/file/TsvFile/TsvFile.cpp: In static member function ‘static int affx::TsvFile::replaceCharInFile(const std::string&, char, char, bool)’: fusion/file/TsvFile/TsvFile.cpp:4970:20: warning: catching polymorphic type ‘class std::exception’ by value [-Wcatch-value=] 4970 | catch (exception e) { | ^ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-sign-compare -O0 -c fusion/util/AffxByteArray.cpp -o fusion/util/AffxByteArray.o fusion/util/AffxByteArray.cpp: In member function ‘const AffxByteArray& AffxByteArray::operator=(const AffxByteArray&)’: fusion/util/AffxByteArray.cpp:320:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 320 | if (this == &ba) | ^~ fusion/util/AffxByteArray.cpp:323:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 323 | empty(); | ^~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-sign-compare -O0 -c fusion/util/AffxConv.cpp -o fusion/util/AffxConv.o fusion/util/AffxConv.cpp: In function ‘std::string getInt(int, bool)’: fusion/util/AffxConv.cpp:124:15: warning: self-comparison always evaluates to false [-Wtautological-compare] 124 | if (i != i) {return "nan";} | ~ ^~ ~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-sign-compare -O0 -c fusion/util/MsgStream.cpp -o fusion/util/MsgStream.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-sign-compare -O0 -c fusion/util/Util.cpp -o fusion/util/Util.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-sign-compare -O0 -c fusion/util/Err.cpp -o fusion/util/Err.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-sign-compare -O0 -c fusion/util/Fs.cpp -o fusion/util/Fs.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-sign-compare -O0 -c fusion/util/Verbose.cpp -o fusion/util/Verbose.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-sign-compare -O0 -c fusion/util/RowFile.cpp -o fusion/util/RowFile.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-sign-compare -O0 -c fusion/util/TableFile.cpp -o fusion/util/TableFile.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-sign-compare -O0 -c fusion/util/Convert.cpp -o fusion/util/Convert.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-sign-compare -O0 -c R_affx_cel_parser.cpp -o R_affx_cel_parser.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-sign-compare -O0 -c R_affx_cdf_parser.cpp -o R_affx_cdf_parser.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-sign-compare -O0 -c R_affx_cdf_extras.cpp -o R_affx_cdf_extras.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-sign-compare -O0 -c R_affx_bpmap_parser.cpp -o R_affx_bpmap_parser.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-sign-compare -O0 -c R_affx_clf_pgf_parser.cpp -o R_affx_clf_pgf_parser.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-sign-compare -O0 -c R_affx_chp_parser.cpp -o R_affx_chp_parser.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -Ifusion/calvin_files/array/src -Ifusion/calvin_files/data/src -Ifusion/calvin_files/exception/src -Ifusion/calvin_files/fusion/src -Ifusion/calvin_files/fusion/src/GCOSAdapter -Ifusion/calvin_files/fusion/src/CalvinAdapter -Ifusion/calvin_files/parameter/src -Ifusion/calvin_files/parsers/src -Ifusion/calvin_files/portability/src -Ifusion/calvin_files/template/src -Ifusion/calvin_files/utils/src -Ifusion/calvin_files/writers/src -Ifusion/file -Ifusion/file/TsvFile -Ifusion/portability -Ifusion/util -Ifusion -D_USE_MEM_MAPPING_ -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c 000.init.c -o 000.init.o g++-14 -std=gnu++17 -shared -L/home/hornik/tmp/R-d-gcc-14/lib -Wl,-O1 -o affxparser.so fusion/calvin_files/data/src/CDFData.o fusion/calvin_files/data/src/CDFProbeGroupInformation.o fusion/calvin_files/data/src/CDFProbeInformation.o fusion/calvin_files/data/src/CDFProbeSetInformation.o fusion/calvin_files/data/src/CDFQCProbeInformation.o fusion/calvin_files/data/src/CDFQCProbeSetInformation.o fusion/calvin_files/data/src/CELData.o fusion/calvin_files/data/src/CHPBackgroundZone.o fusion/calvin_files/data/src/CHPData.o fusion/calvin_files/data/src/CHPExpressionEntry.o fusion/calvin_files/data/src/CHPMultiDataData.o fusion/calvin_files/data/src/CHPTilingData.o fusion/calvin_files/data/src/CHPQuantificationData.o fusion/calvin_files/data/src/CHPQuantificationDetectionData.o fusion/calvin_files/data/src/CHPGenotypeEntry.o fusion/calvin_files/data/src/CHPUniversalEntry.o fusion/calvin_files/data/src/ColumnInfo.o fusion/calvin_files/data/src/DataGroup.o fusion/calvin_files/data/src/DataGroupHeader.o fusion/calvin_files/data/src/DataSet.o fusion/calvin_files/data/src/DataSetHeader.o fusion/calvin_files/data/src/FileHeader.o fusion/calvin_files/data/src/GenericData.o fusion/calvin_files/data/src/GenericDataHeader.o fusion/calvin_files/exception/src/ExceptionBase.o fusion/calvin_files/fusion/src/CalvinAdapter/CalvinCELDataAdapter.o fusion/calvin_files/fusion/src/CalvinAdapter/CalvinCHPDataAdapter.o fusion/calvin_files/fusion/src/FusionBPMAPData.o fusion/calvin_files/fusion/src/FusionCDFData.o fusion/calvin_files/fusion/src/FusionCDFQCProbeSetNames.o fusion/calvin_files/fusion/src/FusionCELData.o fusion/calvin_files/fusion/src/FusionCHPData.o fusion/calvin_files/fusion/src/FusionProbeSetResults.o fusion/calvin_files/fusion/src/GCOSAdapter/GCOSCELDataAdapter.o fusion/calvin_files/fusion/src/GCOSAdapter/GCOSCHPDataAdapter.o fusion/calvin_files/fusion/src/FusionCHPLegacyData.o fusion/calvin_files/fusion/src/FusionCHPMultiDataAccessor.o fusion/calvin_files/fusion/src/FusionCHPMultiDataData.o fusion/calvin_files/fusion/src/FusionCHPTilingData.o fusion/calvin_files/fusion/src/FusionCHPGenericData.o fusion/calvin_files/fusion/src/FusionCHPQuantificationData.o fusion/calvin_files/fusion/src/FusionCHPQuantificationDetectionData.o fusion/calvin_files/parameter/src/ParameterNameValueType.o fusion/calvin_files/parsers/src/CDFFileReader.o fusion/calvin_files/parsers/src/CelFileReader.o fusion/calvin_files/parsers/src/CHPFileReader.o fusion/calvin_files/parsers/src/CHPMultiDataFileReader.o fusion/calvin_files/parsers/src/CHPTilingFileReader.o fusion/calvin_files/parsers/src/CHPQuantificationFileReader.o fusion/calvin_files/parsers/src/CHPQuantificationDetectionFileReader.o fusion/calvin_files/parsers/src/DataGroupHeaderReader.o fusion/calvin_files/parsers/src/DataGroupReader.o fusion/calvin_files/parsers/src/DataSetHeaderReader.o fusion/calvin_files/parsers/src/DataSetReader.o fusion/calvin_files/parsers/src/FileHeaderReader.o fusion/calvin_files/parsers/src/FileInput.o fusion/calvin_files/parsers/src/GenericDataHeaderReader.o fusion/calvin_files/parsers/src/GenericFileReader.o fusion/calvin_files/utils/src/AffymetrixGuid.o fusion/calvin_files/utils/src/DateTime.o fusion/calvin_files/utils/src/FileUtils.o fusion/calvin_files/utils/src/StringUtils.o fusion/calvin_files/utils/src/checksum.o fusion/file/BPMAPFileData.o fusion/file/BPMAPFileWriter.o fusion/file/CDFFileData.o fusion/file/CELFileData.o fusion/file/CHPFileData.o fusion/file/FileIO.o fusion/file/FileWriter.o fusion/file/TsvFile/ClfFile.o fusion/file/TsvFile/PgfFile.o fusion/file/TsvFile/TsvFile.o fusion/util/AffxByteArray.o fusion/util/AffxConv.o fusion/util/MsgStream.o fusion/util/Util.o fusion/util/Err.o fusion/util/Fs.o fusion/util/Verbose.o fusion/util/RowFile.o fusion/util/TableFile.o fusion/util/Convert.o R_affx_cel_parser.o R_affx_cdf_parser.o R_affx_cdf_extras.o R_affx_bpmap_parser.o R_affx_clf_pgf_parser.o R_affx_chp_parser.o 000.init.o -L/home/hornik/tmp/R-d-gcc-14/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpraPRcS/R.INSTALL31348523be26ef/affxparser/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-affxparser/00new/affxparser/libs ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (affxparser) begin installing package ‘BiocPkgTools’ * installing *source* package ‘wikitaxa’ ... ** this is package ‘wikitaxa’ version ‘0.4.0’ ** package ‘wikitaxa’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** data *** moving datasets to lazyload DB ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (wikitaxa) begin installing package ‘bdc’ * installing *source* package ‘AnnotationHub’ ... ** this is package ‘AnnotationHub’ version ‘3.16.0’ ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (AnnotationHub) begin installing package ‘beadarray’ * installing *source* package ‘metap’ ... ** this is package ‘metap’ version ‘1.12’ ** package ‘metap’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** data ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (metap) begin installing package ‘BatchExperiments’ * installing *source* package ‘superbiclust’ ... ** this is package ‘superbiclust’ version ‘1.2’ ** package ‘superbiclust’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (superbiclust) begin installing package ‘taxize’ * installing *source* package ‘BSgenome.Hsapiens.UCSC.hg19’ ... ** this is package ‘BSgenome.Hsapiens.UCSC.hg19’ version ‘1.4.3’ ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (BSgenome.Hsapiens.UCSC.hg19) begin installing package ‘scater’ * installing *source* package ‘MAST’ ... ** this is package ‘MAST’ version ‘1.33.0’ ** using staged installation ** R ** data *** moving datasets to lazyload DB ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (MAST) begin installing package ‘PSCBS’ * installing *source* package ‘MultiAssayExperiment’ ... ** this is package ‘MultiAssayExperiment’ version ‘1.34.0’ ** using staged installation ** R ** data ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (MultiAssayExperiment) begin installing package ‘splatter’ * installing *source* package ‘FDb.InfiniumMethylation.hg19’ ... ** this is package ‘FDb.InfiniumMethylation.hg19’ version ‘2.2.0’ ** using staged installation ** R ** data ** demo ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (FDb.InfiniumMethylation.hg19) begin installing package ‘QFeatures’ * installing *source* package ‘GOstats’ ... ** this is package ‘GOstats’ version ‘2.74.0’ ** using staged installation ** R ** data ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (GOstats) begin installing package ‘oligo’ * installing *source* package ‘vsn’ ... ** this is package ‘vsn’ version ‘3.76.0’ ** using staged installation ** libs using C compiler: ‘gcc-14 (Debian 14.2.0-19) 14.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/Rtmpx4pFOo/R.INSTALL318bc62cd82086/vsn/src' gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c init.c -o init.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c vsn.c -o vsn.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c vsn2.c -o vsn2.o gcc-14 -std=gnu23 -shared -L/home/hornik/tmp/R-d-gcc-14/lib -Wl,-O1 -o vsn.so init.o vsn.o vsn2.o -L/home/hornik/tmp/R-d-gcc-14/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/Rtmpx4pFOo/R.INSTALL318bc62cd82086/vsn/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-vsn/00new/vsn/libs ** R ** data ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (vsn) * installing *source* package ‘BatchExperiments’ ... ** this is package ‘BatchExperiments’ version ‘1.4.3’ ** package ‘BatchExperiments’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (BatchExperiments) * installing *source* package ‘maftools’ ... ** this is package ‘maftools’ version ‘2.24.0’ ** using staged installation ** libs using C compiler: ‘gcc-14 (Debian 14.2.0-19) 14.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/Rtmpe3HwCH/R.INSTALL3187f514cb16bd/maftools/src' gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhtslib/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/zlibbioc/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c ntcounts.c -o ntcounts.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhtslib/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/zlibbioc/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c snpcounts.c -o snpcounts.o snpcounts.c: In function ‘snpcounts’: snpcounts.c:89:47: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 3 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 89 | fprintf(tsv_fp, "#idxstats_mapped_reads\t%llu\n", tot_mapped); | ~~~^ ~~~~~~~~~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhtslib/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/zlibbioc/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c somaticfreq.c -o somaticfreq.o gcc-14 -std=gnu23 -shared -L/home/hornik/tmp/R-d-gcc-14/lib -Wl,-O1 -o maftools.so ntcounts.o snpcounts.o somaticfreq.o /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhtslib/usrlib/libhts.a -lcurl -lbz2 -llzma -lz -L/home/hornik/tmp/R-d-gcc-14/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/Rtmpe3HwCH/R.INSTALL3187f514cb16bd/maftools/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-maftools/00new/maftools/libs ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (maftools) * installing *source* package ‘muscle’ ... ** this is package ‘muscle’ version ‘3.50.0’ ** using staged installation ** libs using C++ compiler: ‘g++-14 (Debian 14.2.0-19) 14.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/RtmplkIHbR/R.INSTALL316e8e213d2d56/muscle/src' g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c aligngivenpath.cpp -o aligngivenpath.o aligngivenpath.cpp: In function ‘void AppendTplInserts(const MSA&, unsigned int&, unsigned int, const MSA&, unsigned int&, unsigned int, unsigned int, unsigned int, MSA&, unsigned int&)’: aligngivenpath.cpp:186:24: warning: unused variable ‘uLengthA’ [-Wunused-variable] 186 | const unsigned uLengthA = msaA.GetColCount(); | ^~~~~~~~ aligngivenpath.cpp:187:24: warning: unused variable ‘uLengthB’ [-Wunused-variable] 187 | const unsigned uLengthB = msaB.GetColCount(); | ^~~~~~~~ aligngivenpath.cpp: In function ‘void AlignTwoMSAsGivenPath(const PWPath&, const MSA&, const MSA&, MSA&)’: aligngivenpath.cpp:335:40: warning: unused variable ‘uColA’ [-Wunused-variable] 335 | const unsigned uColA = uPrefixLengthA - 1; | ^~~~~ aligngivenpath.cpp:336:40: warning: unused variable ‘uColB’ [-Wunused-variable] 336 | const unsigned uColB = uPrefixLengthB - 1; | ^~~~~ aligngivenpath.cpp:346:40: warning: unused variable ‘uColA’ [-Wunused-variable] 346 | const unsigned uColA = uPrefixLengthA - 1; | ^~~~~ aligngivenpath.cpp:354:40: warning: unused variable ‘uColB’ [-Wunused-variable] 354 | const unsigned uColB = uPrefixLengthB - 1; | ^~~~~ In file included from muscle.h:34, from aligngivenpath.cpp:1: intmath.h: At global scope: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c aligngivenpathsw.cpp -o aligngivenpathsw.o aligngivenpathsw.cpp: In function ‘void AppendUnalignedTerminals(const MSA&, unsigned int&, unsigned int, const MSA&, unsigned int&, unsigned int, unsigned int, unsigned int, MSA&, unsigned int&)’: aligngivenpathsw.cpp:58:24: warning: unused variable ‘uLengthA’ [-Wunused-variable] 58 | const unsigned uLengthA = msaA.GetColCount(); | ^~~~~~~~ aligngivenpathsw.cpp:59:24: warning: unused variable ‘uLengthB’ [-Wunused-variable] 59 | const unsigned uLengthB = msaB.GetColCount(); | ^~~~~~~~ aligngivenpathsw.cpp: In function ‘void AlignTwoMSAsGivenPathSW(const PWPath&, const MSA&, const MSA&, MSA&)’: aligngivenpathsw.cpp:204:40: warning: unused variable ‘uColA’ [-Wunused-variable] 204 | const unsigned uColA = uPrefixLengthA - 1; | ^~~~~ aligngivenpathsw.cpp:205:40: warning: unused variable ‘uColB’ [-Wunused-variable] 205 | const unsigned uColB = uPrefixLengthB - 1; | ^~~~~ aligngivenpathsw.cpp:215:40: warning: unused variable ‘uColA’ [-Wunused-variable] 215 | const unsigned uColA = uPrefixLengthA - 1; | ^~~~~ aligngivenpathsw.cpp:223:40: warning: unused variable ‘uColB’ [-Wunused-variable] 223 | const unsigned uColB = uPrefixLengthB - 1; | ^~~~~ In file included from muscle.h:34, from aligngivenpathsw.cpp:1: intmath.h: At global scope: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c aligntwomsas.cpp -o aligntwomsas.o In file included from muscle.h:34, from aligntwomsas.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c aligntwoprofs.cpp -o aligntwoprofs.o In file included from muscle.h:34, from aligntwoprofs.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c aln.cpp -o aln.o In file included from muscle.h:34, from aln.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c alpha.cpp -o alpha.o alpha.cpp: In function ‘unsigned int GetAlphaSize(ALPHA)’: alpha.cpp:84:16: warning: enumeration value ‘ALPHA_Undefined’ not handled in switch [-Wswitch] 84 | switch (Alpha) | ^ In file included from muscle.h:34, from alpha.cpp:1: intmath.h: At global scope: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c anchors.cpp -o anchors.o anchors.cpp: In function ‘void MergeBestCols(const SCORE*, const unsigned int*, unsigned int, unsigned int, unsigned int*, unsigned int*)’: anchors.cpp:162:34: warning: unused variable ‘uWindowCenter’ [-Wunused-variable] 162 | unsigned uWindowCenter = uBestColIndex + uWindowLength/2; | ^~~~~~~~~~~~~ anchors.cpp: At global scope: anchors.cpp:105:13: warning: ‘void ListBestCols(const MSA&, const SCORE*, const SCORE*, unsigned int*, unsigned int)’ defined but not used [-Wunused-function] 105 | static void ListBestCols(const MSA &msa, const SCORE Score[], const SCORE SmoothScore[], | ^~~~~~~~~~~~ anchors.cpp:53:13: warning: ‘void FindBestColsGrade(const SCORE*, unsigned int, double, unsigned int*, unsigned int*)’ defined but not used [-Wunused-function] 53 | static void FindBestColsGrade(const SCORE Score[], unsigned uCount, | ^~~~~~~~~~~~~~~~~ In file included from muscle.h:34, from anchors.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c bittraceback.cpp -o bittraceback.o bittraceback.cpp: In function ‘void BitTraceBack(char**, unsigned int, unsigned int, char, PWPath&)’: bittraceback.cpp:146:14: warning: unused variable ‘Bits’ [-Wunused-variable] 146 | char Bits = TraceBack[uLengthA][uLengthB]; | ^~~~ bittraceback.cpp: At global scope: bittraceback.cpp:15:20: warning: ‘const char* BitsToStr(char)’ defined but not used [-Wunused-function] 15 | static const char *BitsToStr(char Bits) | ^~~~~~~~~ In file included from muscle.h:34, from bittraceback.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c blosum62.cpp -o blosum62.o In file included from muscle.h:34, from blosum62.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c blosumla.cpp -o blosumla.o blosumla.cpp:7:14: warning: ‘Blosum62LA’ defined but not used [-Wunused-variable] 7 | static float Blosum62LA[20][20] = | ^~~~~~~~~~ In file included from muscle.h:34, from blosumla.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c clust.cpp -o clust.o clust.cpp: In member function ‘void Clust::ChooseJoin(unsigned int*, unsigned int*, float*, float*)’: clust.cpp:167:16: warning: enumeration value ‘JOIN_Undefined’ not handled in switch [-Wswitch] 167 | switch (m_JoinStyle) | ^ clust.cpp: In member function ‘void Clust::ChooseJoinNearestNeighbor(unsigned int*, unsigned int*, float*, float*)’: clust.cpp:184:24: warning: unused variable ‘uClusterCount’ [-Wunused-variable] 184 | const unsigned uClusterCount = GetClusterCount(); | ^~~~~~~~~~~~~ clust.cpp: In member function ‘void Clust::ChooseJoinNeighborJoining(unsigned int*, unsigned int*, float*, float*)’: clust.cpp:204:24: warning: unused variable ‘uClusterCount’ [-Wunused-variable] 204 | const unsigned uClusterCount = GetClusterCount(); | ^~~~~~~~~~~~~ clust.cpp: In member function ‘float Clust::ComputeDist(unsigned int, unsigned int)’: clust.cpp:295:16: warning: enumeration value ‘LINKAGE_Undefined’ not handled in switch [-Wswitch] 295 | switch (m_CentroidStyle) | ^ clust.cpp: In member function ‘float Clust::ComputeDistMAFFT(unsigned int, unsigned int)’: clust.cpp:360:21: warning: unused variable ‘dDistLR’ [-Wunused-variable] 360 | const float dDistLR = GetDist(uLeftNodeIndex, uRightNodeIndex); | ^~~~~~~ clust.cpp: In member function ‘float Clust::ComputeMetric(unsigned int, unsigned int) const’: clust.cpp:611:16: warning: enumeration value ‘JOIN_Undefined’ not handled in switch [-Wswitch] 611 | switch (m_JoinStyle) | ^ In file included from muscle.h:34, from clust.cpp:1: intmath.h: At global scope: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c cluster.cpp -o cluster.o cluster.cpp: In member function ‘void ClusterTree::Create(const DistFunc&)’: cluster.cpp:284:22: warning: variable ‘bFound’ set but not used [-Wunused-but-set-variable] 284 | bool bFound = false; | ^~~~~~ cluster.cpp:267:16: warning: unused variable ‘dMaxDist’ [-Wunused-variable] 267 | double dMaxDist = 0.0; | ^~~~~~~~ In file included from muscle.h:34, from cluster.cpp:1: intmath.h: At global scope: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ cluster.cpp: In member function ‘void ClusterTree::Create(const DistFunc&)’: cluster.cpp:307:47: warning: ‘uIndexClosest1’ may be used uninitialized [-Wmaybe-uninitialized] 307 | ClusterNode &Child1 = m_Nodes[uIndexClosest1]; | ^~~~~~~~~~~~~~ cluster.cpp:282:26: note: ‘uIndexClosest1’ was declared here 282 | unsigned uIndexClosest1; | ^~~~~~~~~~~~~~ cluster.cpp:308:47: warning: ‘uIndexClosest2’ may be used uninitialized [-Wmaybe-uninitialized] 308 | ClusterNode &Child2 = m_Nodes[uIndexClosest2]; | ^~~~~~~~~~~~~~ cluster.cpp:283:26: note: ‘uIndexClosest2’ was declared here 283 | unsigned uIndexClosest2; | ^~~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c clwwt.cpp -o clwwt.o In file included from muscle.h:34, from clwwt.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c color.cpp -o color.o color.cpp:72:12: warning: ‘int BlosumScore(char, char)’ defined but not used [-Wunused-function] 72 | static int BlosumScore(char c1, char c2) | ^~~~~~~~~~~ In file included from muscle.h:34, from color.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c cons.cpp -o cons.o In file included from muscle.h:34, from cons.cpp:7: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c diaglist.cpp -o diaglist.o In file included from muscle.h:34, from diaglist.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ diaglist.cpp: In member function ‘void DiagList::FromPath(const PWPath&)’: diaglist.cpp:70:36: warning: ‘uStartPosA’ may be used uninitialized [-Wmaybe-uninitialized] 70 | Add(uStartPosA, uStartPosB, uLength); | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ diaglist.cpp:51:18: note: ‘uStartPosA’ was declared here 51 | unsigned uStartPosA; | ^~~~~~~~~~ diaglist.cpp:70:36: warning: ‘uStartPosB’ may be used uninitialized [-Wmaybe-uninitialized] 70 | Add(uStartPosA, uStartPosB, uLength); | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ diaglist.cpp:52:18: note: ‘uStartPosB’ was declared here 52 | unsigned uStartPosB; | ^~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c diffobjscore.cpp -o diffobjscore.o diffobjscore.cpp: In function ‘SCORE ScoreLetters(const MSA&, const unsigned int*, unsigned int)’: diffobjscore.cpp:76:24: warning: unused variable ‘uSeqCount’ [-Wunused-variable] 76 | const unsigned uSeqCount = msa.GetSeqCount(); | ^~~~~~~~~ diffobjscore.cpp:77:24: warning: unused variable ‘uColCount’ [-Wunused-variable] 77 | const unsigned uColCount = msa.GetColCount(); | ^~~~~~~~~ In file included from muscle.h:34, from diffobjscore.cpp:1: intmath.h: At global scope: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c diffpaths.cpp -o diffpaths.o In file included from muscle.h:34, from diffpaths.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c difftrees.cpp -o difftrees.o difftrees.cpp: In function ‘void DiffTrees(const Tree&, const Tree&, Tree&, unsigned int*)’: difftrees.cpp:161:24: warning: unused variable ‘uLeafCount2’ [-Wunused-variable] 161 | const unsigned uLeafCount2 = Tree2.GetLeafCount(); | ^~~~~~~~~~~ In file included from muscle.h:34, from difftrees.cpp:1: intmath.h: At global scope: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c difftreese.cpp -o difftreese.o In file included from muscle.h:34, from difftreese.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c distcalc.cpp -o distcalc.o In file included from muscle.h:34, from distcalc.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c distfunc.cpp -o distfunc.o In file included from muscle.h:34, from distfunc.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c distpwkimura.cpp -o distpwkimura.o In file included from muscle.h:34, from distpwkimura.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c domuscle.cpp -o domuscle.o In file included from muscle.h:34, from domuscle.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c dosp.cpp -o dosp.o In file included from muscle.h:34, from dosp.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c dpreglist.cpp -o dpreglist.o dpreglist.cpp: In function ‘void DiagListToDPRegionList(const DiagList&, DPRegionList&, unsigned int, unsigned int)’: dpreglist.cpp:82:40: warning: unused variable ‘uDiagLengthMinusCaps’ [-Wunused-variable] 82 | const unsigned uDiagLengthMinusCaps = uEndVertexA - uStartVertexA - 1; | ^~~~~~~~~~~~~~~~~~~~ In file included from muscle.h:34, from dpreglist.cpp:1: intmath.h: At global scope: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c drawtree.cpp -o drawtree.o In file included from muscle.h:34, from drawtree.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c edgelist.cpp -o edgelist.o In file included from muscle.h:34, from edgelist.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c enumopts.cpp -o enumopts.o In file included from muscle.h:34, from enumopts.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c enumtostr.cpp -o enumtostr.o In file included from muscle.h:34, from enumtostr.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c estring.cpp -o estring.o estring.cpp:464:13: warning: ‘bool CanMultiplyEstrings(const short int*, const short int*)’ defined but not used [-Wunused-function] 464 | static bool CanMultiplyEstrings(const short es1[], const short es2[]) | ^~~~~~~~~~~~~~~~~~~ In file included from muscle.h:34, from estring.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ estring.cpp: In function ‘void EstringsToPath(const short int*, const short int*, PWPath&)’: estring.cpp:409:17: warning: ‘cType’ may be used uninitialized [-Wmaybe-uninitialized] 409 | switch (cType) | ^~~~~~ estring.cpp:377:22: note: ‘cType’ was declared here 377 | char cType; | ^~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c fasta.cpp -o fasta.o fasta.cpp: In member function ‘void MSA::FromFASTAFile(TextFile&)’: fasta.cpp:15:18: warning: unused variable ‘uSeqCount’ [-Wunused-variable] 15 | unsigned uSeqCount = 0; | ^~~~~~~~~ fasta.cpp:16:18: warning: unused variable ‘uColCount’ [-Wunused-variable] 16 | unsigned uColCount = uInsane; | ^~~~~~~~~ In file included from muscle.h:34, from fasta.cpp:1: intmath.h: At global scope: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c fasta2.cpp -o fasta2.o In file included from muscle.h:34, from fasta2.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c fastclust.cpp -o fastclust.o In file included from muscle.h:34, from fastclust.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c fastdist.cpp -o fastdist.o In file included from muscle.h:34, from fastdist.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c fastdistjones.cpp -o fastdistjones.o In file included from muscle.h:34, from fastdistjones.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ fastdistjones.cpp: In function ‘void DistKmer20_3(const SeqVect&, DistFunc&)’: fastdistjones.cpp:158:18: warning: ‘void operator delete [](void*)’ called on pointer returned from a mismatched allocation function [-Wmismatched-new-delete] 158 | delete[] SeqList; | ^~~~~~~ fastdistjones.cpp:121:60: note: returned from ‘void* malloc(size_t)’ 121 | unsigned short *SeqList = (unsigned short *) malloc(uSeqListBytes); | ~~~~~~^~~~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c fastdistkbit.cpp -o fastdistkbit.o In file included from muscle.h:34, from fastdistkbit.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c fastdistkmer.cpp -o fastdistkmer.o fastdistkmer.cpp: In function ‘void FastDistKmer(const SeqVect&, DistFunc&)’: fastdistkmer.cpp:235:32: warning: unused variable ‘KD’ [-Wunused-variable] 235 | double KD = KimuraDist(EstimatedPctId); | ^~ In file included from muscle.h:34, from fastdistkmer.cpp:1: intmath.h: At global scope: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c fastdistmafft.cpp -o fastdistmafft.o fastdistmafft.cpp: In function ‘void DistKmer6_6(const SeqVect&, DistFunc&)’: fastdistmafft.cpp:238:29: warning: unused variable ‘pName1’ [-Wunused-variable] 238 | const char *pName1 = s1.GetName(); | ^~~~~~ fastdistmafft.cpp: At global scope: fastdistmafft.cpp:104:13: warning: ‘void ListCount(const unsigned char*)’ defined but not used [-Wunused-function] 104 | static void ListCount(const unsigned char Count[]) | ^~~~~~~~~ In file included from muscle.h:34, from fastdistmafft.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c fastdistnuc.cpp -o fastdistnuc.o fastdistnuc.cpp: In function ‘void DistKmer4_6(const SeqVect&, DistFunc&)’: fastdistnuc.cpp:223:29: warning: unused variable ‘pName1’ [-Wunused-variable] 223 | const char *pName1 = s1.GetName(); | ^~~~~~ fastdistnuc.cpp: At global scope: fastdistnuc.cpp:85:13: warning: ‘void ListCount(const unsigned char*)’ defined but not used [-Wunused-function] 85 | static void ListCount(const unsigned char Count[]) | ^~~~~~~~~ fastdistnuc.cpp:33:17: warning: ‘uResidueGroupCount’ defined but not used [-Wunused-variable] 33 | static unsigned uResidueGroupCount = sizeof(ResidueGroup)/sizeof(ResidueGroup[0]); | ^~~~~~~~~~~~~~~~~~ In file included from muscle.h:34, from fastdistnuc.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c fastscorepath2.cpp -o fastscorepath2.o In file included from muscle.h:34, from fastscorepath2.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c finddiags.cpp -o finddiags.o finddiags.cpp:11:14: warning: ‘char* TupleToStr(int)’ defined but not used [-Wunused-function] 11 | static char *TupleToStr(int t) | ^~~~~~~~~~ In file included from muscle.h:34, from finddiags.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c finddiagsn.cpp -o finddiagsn.o finddiagsn.cpp: In function ‘char* TupleToStr(int)’: finddiagsn.cpp:16:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const unsigned int’ [-Wsign-compare] 16 | for (int i = 0; i < K; ++i) | ~~^~~ finddiagsn.cpp: At global scope: finddiagsn.cpp:12:14: warning: ‘char* TupleToStr(int)’ defined but not used [-Wunused-function] 12 | static char *TupleToStr(int t) | ^~~~~~~~~~ In file included from muscle.h:34, from finddiagsn.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c glbalign.cpp -o glbalign.o In file included from muscle.h:34, from glbalign.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c glbalign352.cpp -o glbalign352.o In file included from muscle.h:34, from glbalign352.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c glbaligndiag.cpp -o glbaligndiag.o In file included from muscle.h:34, from glbaligndiag.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c glbalignla.cpp -o glbalignla.o In file included from muscle.h:34, from glbalignla.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ glbalignla.cpp: In function ‘SCORE GlobalAlignLA(const ProfPos*, unsigned int, const ProfPos*, unsigned int, PWPath&)’: glbalignla.cpp:363:52: warning: ‘uInsertPos’ may be used uninitialized [-Wmaybe-uninitialized] 363 | *ptrTraceBack_ij = (int) uInsertPos - (int) j; | ^~~~~~~~~~~~~~~~ glbalignla.cpp:330:26: note: ‘uInsertPos’ was declared here 330 | unsigned uInsertPos; | ^~~~~~~~~~ glbalignla.cpp:424:30: warning: ‘uInsertPos’ may be used uninitialized [-Wmaybe-uninitialized] 424 | iTraceBack = (int) uInsertPos - (int) uLengthB; | ^~~~~~~~~~~~~~~~ glbalignla.cpp:397:18: note: ‘uInsertPos’ was declared here 397 | unsigned uInsertPos; | ^~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c glbalignle.cpp -o glbalignle.o In file included from muscle.h:34, from glbalignle.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ glbalignle.cpp: In function ‘SCORE GlobalAlignLE(const ProfPos*, unsigned int, const ProfPos*, unsigned int, PWPath&)’: glbalignle.cpp:427:30: warning: ‘uInsertPos’ may be used uninitialized [-Wmaybe-uninitialized] 427 | iTraceBack = (int) uInsertPos - (int) uLengthB; | ^~~~~~~~~~~~~~~~ glbalignle.cpp:400:18: note: ‘uInsertPos’ was declared here 400 | unsigned uInsertPos; | ^~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c glbalignns.cpp -o glbalignns.o In file included from muscle.h:34, from glbalignns.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ glbalignns.cpp: In function ‘SCORE GlobalAlignNS(const ProfPos*, unsigned int, const ProfPos*, unsigned int, PWPath&)’: glbalignns.cpp:305:52: warning: ‘uInsertPos’ may be used uninitialized [-Wmaybe-uninitialized] 305 | *ptrTraceBack_ij = (int) uInsertPos - (int) j; | ^~~~~~~~~~~~~~~~ glbalignns.cpp:272:26: note: ‘uInsertPos’ was declared here 272 | unsigned uInsertPos; | ^~~~~~~~~~ glbalignns.cpp:366:30: warning: ‘uInsertPos’ may be used uninitialized [-Wmaybe-uninitialized] 366 | iTraceBack = (int) uInsertPos - (int) uLengthB; | ^~~~~~~~~~~~~~~~ glbalignns.cpp:339:18: note: ‘uInsertPos’ was declared here 339 | unsigned uInsertPos; | ^~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c glbalignsimple.cpp -o glbalignsimple.o glbalignsimple.cpp:52:13: warning: ‘void ListDP(const SCORE*, const ProfPos*, const ProfPos*, unsigned int, unsigned int)’ defined but not used [-Wunused-function] 52 | static void ListDP(const SCORE *DPM_, const ProfPos *PA, const ProfPos *PB, | ^~~~~~ glbalignsimple.cpp:28:13: warning: ‘void ListTB(const char*, const ProfPos*, const ProfPos*, unsigned int, unsigned int)’ defined but not used [-Wunused-function] 28 | static void ListTB(const char *TBM_, const ProfPos *PA, const ProfPos *PB, | ^~~~~~ In file included from muscle.h:34, from glbalignsimple.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c glbalignsp.cpp -o glbalignsp.o In file included from muscle.h:34, from glbalignsp.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ glbalignsp.cpp: In function ‘SCORE GlobalAlignSP(const ProfPos*, unsigned int, const ProfPos*, unsigned int, PWPath&)’: glbalignsp.cpp:305:52: warning: ‘uInsertPos’ may be used uninitialized [-Wmaybe-uninitialized] 305 | *ptrTraceBack_ij = (int) uInsertPos - (int) j; | ^~~~~~~~~~~~~~~~ glbalignsp.cpp:272:26: note: ‘uInsertPos’ was declared here 272 | unsigned uInsertPos; | ^~~~~~~~~~ glbalignsp.cpp:366:30: warning: ‘uInsertPos’ may be used uninitialized [-Wmaybe-uninitialized] 366 | iTraceBack = (int) uInsertPos - (int) uLengthB; | ^~~~~~~~~~~~~~~~ glbalignsp.cpp:339:18: note: ‘uInsertPos’ was declared here 339 | unsigned uInsertPos; | ^~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c glbalignspn.cpp -o glbalignspn.o In file included from muscle.h:34, from glbalignspn.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ glbalignspn.cpp: In function ‘SCORE GlobalAlignSPN(const ProfPos*, unsigned int, const ProfPos*, unsigned int, PWPath&)’: glbalignspn.cpp:340:52: warning: ‘uInsertPos’ may be used uninitialized [-Wmaybe-uninitialized] 340 | *ptrTraceBack_ij = (int) uInsertPos - (int) j; | ^~~~~~~~~~~~~~~~ glbalignspn.cpp:307:26: note: ‘uInsertPos’ was declared here 307 | unsigned uInsertPos; | ^~~~~~~~~~ glbalignspn.cpp:401:30: warning: ‘uInsertPos’ may be used uninitialized [-Wmaybe-uninitialized] 401 | iTraceBack = (int) uInsertPos - (int) uLengthB; | ^~~~~~~~~~~~~~~~ glbalignspn.cpp:374:18: note: ‘uInsertPos’ was declared here 374 | unsigned uInsertPos; | ^~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c glbalignss.cpp -o glbalignss.o glbalignss.cpp: In function ‘SCORE GlobalAlignSS(const Seq&, const Seq&, PWPath&)’: glbalignss.cpp:177:30: warning: unused variable ‘ptrRowA’ [-Wunused-variable] 177 | const SCORE *ptrRowA = MxRowA[i]; | ^~~~~~~ glbalignss.cpp:119:24: warning: unused variable ‘uPrefixCountA’ [-Wunused-variable] 119 | const unsigned uPrefixCountA = uLengthA + 1; | ^~~~~~~~~~~~~ glbalignss.cpp:120:24: warning: unused variable ‘uPrefixCountB’ [-Wunused-variable] 120 | const unsigned uPrefixCountB = uLengthB + 1; | ^~~~~~~~~~~~~ glbalignss.cpp: At global scope: glbalignss.cpp:11:14: warning: ‘SCORE Subst(const Seq&, const Seq&, unsigned int, unsigned int)’ defined but not used [-Wunused-function] 11 | static SCORE Subst(const Seq &seqA, const Seq &seqB, unsigned i, unsigned j) | ^~~~~ In file included from muscle.h:34, from glbalignss.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ glbalignss.cpp: In function ‘SCORE GlobalAlignSS(const Seq&, const Seq&, PWPath&)’: glbalignss.cpp:252:52: warning: ‘uInsertPos’ may be used uninitialized [-Wmaybe-uninitialized] 252 | *ptrTraceBack_ij = (int) uInsertPos - (int) j; | ^~~~~~~~~~~~~~~~ glbalignss.cpp:221:26: note: ‘uInsertPos’ was declared here 221 | unsigned uInsertPos; | ^~~~~~~~~~ glbalignss.cpp:310:30: warning: ‘uInsertPos’ may be used uninitialized [-Wmaybe-uninitialized] 310 | iTraceBack = (int) uInsertPos - (int) uLengthB; | ^~~~~~~~~~~~~~~~ glbalignss.cpp:283:18: note: ‘uInsertPos’ was declared here 283 | unsigned uInsertPos; | ^~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c glbalndimer.cpp -o glbalndimer.o glbalndimer.cpp: In function ‘SCORE ScoreProfPosDimer(const ProfPos&, const ProfPos&)’: glbalndimer.cpp:123:16: warning: enumeration value ‘PPSCORE_Undefined’ not handled in switch [-Wswitch] 123 | switch (g_PPScore) | ^ glbalndimer.cpp:123:16: warning: enumeration value ‘PPSCORE_SPN’ not handled in switch [-Wswitch] glbalndimer.cpp: At global scope: glbalndimer.cpp:14:20: warning: ‘const char* LocalScoreToStr(SCORE)’ defined but not used [-Wunused-function] 14 | static const char *LocalScoreToStr(SCORE s) | ^~~~~~~~~~~~~~~ In file included from muscle.h:34, from glbalndimer.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c globals.cpp -o globals.o In file included from muscle.h:34, from globals.cpp:6: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c globalslinux.cpp -o globalslinux.o globalslinux.cpp: In function ‘double GetNAN()’: globalslinux.cpp:21:24: warning: dereferencing type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing] 21 | double dNAN = *( double* )nan; | ^~~~~~~~~~~~~~ In file included from muscle.h:34, from globalslinux.cpp:1: intmath.h: At global scope: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c globalsosx.cpp -o globalsosx.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c globalsother.cpp -o globalsother.o In file included from muscle.h:34, from globalsother.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c globalswin32.cpp -o globalswin32.o In file included from muscle.h:34, from globalswin32.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c gonnet.cpp -o gonnet.o gonnet.cpp:137:14: warning: ‘Gonnet160’ defined but not used [-Wunused-variable] 137 | static SCORE Gonnet160[20][20] = | ^~~~~~~~~ In file included from muscle.h:34, from gonnet.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c gotowt.cpp -o gotowt.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c henikoffweight.cpp -o henikoffweight.o In file included from muscle.h:34, from henikoffweight.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c henikoffweightpb.cpp -o henikoffweightpb.o In file included from muscle.h:34, from henikoffweightpb.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c html.cpp -o html.o In file included from muscle.h:34, from html.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c hydro.cpp -o hydro.o In file included from muscle.h:34, from hydro.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c intmath.cpp -o intmath.o In file included from muscle.h:34, from intmath.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c local.cpp -o local.o In file included from muscle.h:34, from local.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c main.cpp -o main.o In file included from muscle.h:34, from main.cpp:7: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c makerootmsa.cpp -o makerootmsa.o makerootmsa.cpp: In function ‘void PathSeq(const Seq&, const PWPath&, bool, Seq&)’: makerootmsa.cpp:18:24: warning: unused variable ‘uSeqLength’ [-Wunused-variable] 18 | const unsigned uSeqLength = s.Length(); | ^~~~~~~~~~ makerootmsa.cpp: In function ‘short int* MakeRootSeqE(const Seq&, const Tree&, unsigned int, const ProgNode*, Seq&, short int*, short int*)’: makerootmsa.cpp:94:31: warning: unused variable ‘Path’ [-Wunused-variable] 94 | const PWPath &Path = Nodes[uNodeIndex].m_Path; | ^~~~ makerootmsa.cpp: In function ‘void MakeRootMSA(const SeqVect&, const Tree&, ProgNode*, MSA&)’: makerootmsa.cpp:168:24: warning: unused variable ‘uTreeNodeCount’ [-Wunused-variable] 168 | const unsigned uTreeNodeCount = GuideTree.GetNodeCount(); | ^~~~~~~~~~~~~~ makerootmsa.cpp: At global scope: makerootmsa.cpp:12:13: warning: ‘void PathSeq(const Seq&, const PWPath&, bool, Seq&)’ defined but not used [-Wunused-function] 12 | static void PathSeq(const Seq &s, const PWPath &Path, bool bRight, Seq &sOut) | ^~~~~~~ In file included from muscle.h:34, from makerootmsa.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c makerootmsab.cpp -o makerootmsab.o In file included from muscle.h:34, from makerootmsab.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c maketree.cpp -o maketree.o In file included from muscle.h:34, from maketree.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c mhack.cpp -o mhack.o In file included from muscle.h:34, from mhack.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c mpam200.cpp -o mpam200.o In file included from muscle.h:34, from mpam200.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c msa.cpp -o msa.o msa.cpp:419:13: warning: ‘void FmtPad(unsigned int)’ defined but not used [-Wunused-function] 419 | static void FmtPad(unsigned n) | ^~~~~~ msa.cpp:407:13: warning: ‘void FmtInt0(unsigned int, unsigned int)’ defined but not used [-Wunused-function] 407 | static void FmtInt0(unsigned u, unsigned uWidth) | ^~~~~~~ msa.cpp:392:13: warning: ‘void FmtInt(unsigned int, unsigned int)’ defined but not used [-Wunused-function] 392 | static void FmtInt(unsigned u, unsigned uWidth) | ^~~~~~ msa.cpp:385:13: warning: ‘void FmtChar(char, unsigned int)’ defined but not used [-Wunused-function] 385 | static void FmtChar(char c, unsigned uWidth) | ^~~~~~~ In file included from muscle.h:34, from msa.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c msa2.cpp -o msa2.o msa2.cpp: In function ‘void SetMSAWeightsMuscle(MSA&)’: msa2.cpp:357:16: warning: enumeration value ‘SEQWEIGHT_Undefined’ not handled in switch [-Wswitch] 357 | switch (Method) | ^ msa2.cpp: In function ‘void MSAAppend(MSA&, const MSA&)’: msa2.cpp:476:24: warning: unused variable ‘uColCountCat’ [-Wunused-variable] 476 | const unsigned uColCountCat = uColCount1 + uColCount2; | ^~~~~~~~~~~~ In file included from muscle.h:34, from msa2.cpp:1: intmath.h: At global scope: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c msadistkimura.cpp -o msadistkimura.o In file included from muscle.h:34, from msadistkimura.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c msf.cpp -o msf.o msf.cpp:24:20: warning: ‘const char* strfind(const char*, const char*)’ defined but not used [-Wunused-function] 24 | static const char *strfind(const char *s, const char *t) | ^~~~~~~ In file included from muscle.h:34, from msf.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c muscle.cpp -o muscle.o In file included from muscle.h:34, from muscle.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c muscleout.cpp -o muscleout.o In file included from muscle.h:34, from muscleout.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c nucmx.cpp -o nucmx.o In file included from muscle.h:34, from nucmx.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c nwdasimple.cpp -o nwdasimple.o In file included from muscle.h:34, from nwdasimple.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c nwdasimple2.cpp -o nwdasimple2.o In file included from muscle.h:34, from nwdasimple2.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c nwdasmall.cpp -o nwdasmall.o In file included from muscle.h:34, from nwdasmall.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c nwrec.cpp -o nwrec.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c nwsmall.cpp -o nwsmall.o In file included from muscle.h:34, from nwsmall.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c objscore.cpp -o objscore.o objscore.cpp: In function ‘SCORE ObjScore(const MSA&, const unsigned int*, unsigned int, const unsigned int*, unsigned int)’: objscore.cpp:31:16: warning: enumeration value ‘OBJSCORE_Undefined’ not handled in switch [-Wswitch] 31 | switch (OS) | ^ objscore.cpp:31:16: warning: enumeration value ‘OBJSCORE_SPM’ not handled in switch [-Wswitch] In file included from muscle.h:34, from objscore.cpp:1: intmath.h: At global scope: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c objscore2.cpp -o objscore2.o objscore2.cpp: In function ‘SCORE TermGapScore(bool)’: objscore2.cpp:22:16: warning: enumeration value ‘TERMGAPS_Undefined’ not handled in switch [-Wswitch] 22 | switch (g_TermGaps) | ^ objscore2.cpp: In function ‘SCORE ScoreSeqPairLetters(const MSA&, unsigned int, const MSA&, unsigned int)’: objscore2.cpp:62:15: warning: unused variable ‘scoreGaps’ [-Wunused-variable] 62 | SCORE scoreGaps = 0; | ^~~~~~~~~ objscore2.cpp:63:14: warning: unused variable ‘bGapping1’ [-Wunused-variable] 63 | bool bGapping1 = false; | ^~~~~~~~~ objscore2.cpp:64:14: warning: unused variable ‘bGapping2’ [-Wunused-variable] 64 | bool bGapping2 = false; | ^~~~~~~~~ objscore2.cpp:67:14: warning: variable ‘bLeftTermGap’ set but not used [-Wunused-but-set-variable] 67 | bool bLeftTermGap = false; | ^~~~~~~~~~~~ objscore2.cpp:82:14: warning: variable ‘bRightTermGap’ set but not used [-Wunused-but-set-variable] 82 | bool bRightTermGap = false; | ^~~~~~~~~~~~~ objscore2.cpp: In function ‘SCORE ScoreSeqPairGaps(const MSA&, unsigned int, const MSA&, unsigned int)’: objscore2.cpp:140:14: warning: variable ‘bLeftTermGap’ set but not used [-Wunused-but-set-variable] 140 | bool bLeftTermGap = false; | ^~~~~~~~~~~~ objscore2.cpp:155:14: warning: variable ‘bRightTermGap’ set but not used [-Wunused-but-set-variable] 155 | bool bRightTermGap = false; | ^~~~~~~~~~~~~ objscore2.cpp: In function ‘SCORE ObjScoreDP(const MSA&, const MSA&, SCORE*)’: objscore2.cpp:314:24: warning: unused variable ‘uColCount2’ [-Wunused-variable] 314 | const unsigned uColCount2 = msa2.GetColCount(); | ^~~~~~~~~~ objscore2.cpp: In function ‘SCORE ObjScoreXP(const MSA&, const MSA&)’: objscore2.cpp:493:38: warning: unused variable ‘w’ [-Wunused-variable] 493 | const WEIGHT w = w1*w2; | ^ In file included from muscle.h:34, from objscore2.cpp:1: intmath.h: At global scope: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c objscoreda.cpp -o objscoreda.o In file included from muscle.h:34, from objscoreda.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c onexception.cpp -o onexception.o In file included from muscle.h:34, from onexception.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c optionsR.cpp -o optionsR.o In file included from muscle.h:34, from optionsR.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c outweights.cpp -o outweights.o In file included from muscle.h:34, from outweights.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c pam200mafft.cpp -o pam200mafft.o pam200mafft.cpp:6:14: warning: ‘PAM200’ defined but not used [-Wunused-variable] 6 | static float PAM200[23][23] = | ^~~~~~ In file included from muscle.h:34, from pam200mafft.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c params.cpp -o params.o params.cpp: In function ‘void SetPPScore(bool)’: params.cpp:445:16: warning: enumeration value ‘PPSCORE_Undefined’ not handled in switch [-Wswitch] 445 | switch (g_PPScore) | ^ params.cpp: In function ‘void default_params()’: params.cpp:659:9: warning: statement has no effect [-Wunused-value] 659 | g_ptrScoreMatrix; | ^~~~~~~~~~~~~~~~ params.cpp:652:21: warning: unused variable ‘VTML_LA’ [-Wunused-variable] 652 | SCOREMATRIX VTML_LA; | ^~~~~~~ params.cpp:653:21: warning: unused variable ‘PAM200’ [-Wunused-variable] 653 | SCOREMATRIX PAM200; | ^~~~~~ params.cpp:654:21: warning: unused variable ‘PAM200NoCenter’ [-Wunused-variable] 654 | SCOREMATRIX PAM200NoCenter; | ^~~~~~~~~~~~~~ params.cpp:655:21: warning: unused variable ‘VTML_SP’ [-Wunused-variable] 655 | SCOREMATRIX VTML_SP; | ^~~~~~~ params.cpp:656:21: warning: unused variable ‘VTML_SPNoCenter’ [-Wunused-variable] 656 | SCOREMATRIX VTML_SPNoCenter; | ^~~~~~~~~~~~~~~ params.cpp:657:21: warning: unused variable ‘NUC_SP’ [-Wunused-variable] 657 | SCOREMATRIX NUC_SP; | ^~~~~~ In file included from muscle.h:34, from params.cpp:1: intmath.h: At global scope: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c phy.cpp -o phy.o phy.cpp: In member function ‘void Tree::RootUnrootedTree(ROOT)’: phy.cpp:665:16: warning: unused variable ‘dEdgeLength’ [-Wunused-variable] 665 | double dEdgeLength = GetEdgeLength(uNode1, uNode2); | ^~~~~~~~~~~ In file included from muscle.h:34, from phy.cpp:1: intmath.h: At global scope: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c phy2.cpp -o phy2.o In file included from muscle.h:34, from phy2.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c phy3.cpp -o phy3.o phy3.cpp: In function ‘void CalcInfo(const Tree&, unsigned int, unsigned int, EdgeInfo**)’: phy3.cpp:125:22: warning: unused variable ‘dThisDist’ [-Wunused-variable] 125 | const double dThisDist = tree.GetEdgeLength(uNode1, uNode2); | ^~~~~~~~~ phy3.cpp: In function ‘void FindRoot(const Tree&, unsigned int*, unsigned int*, double*, double*, ROOT)’: phy3.cpp:167:24: warning: unused variable ‘uLeafCount’ [-Wunused-variable] 167 | const unsigned uLeafCount = tree.GetLeafCount(); | ^~~~~~~~~~ phy3.cpp:190:16: warning: unused variable ‘dAllMaxDist’ [-Wunused-variable] 190 | double dAllMaxDist = -1e20; | ^~~~~~~~~~~ phy3.cpp:191:18: warning: unused variable ‘uMaxFrom’ [-Wunused-variable] 191 | unsigned uMaxFrom = NULL_NEIGHBOR; | ^~~~~~~~ phy3.cpp:192:18: warning: unused variable ‘uMaxTo’ [-Wunused-variable] 192 | unsigned uMaxTo = NULL_NEIGHBOR; | ^~~~~~ phy3.cpp: In function ‘void RootByMidLongestSpan(const Tree&, EdgeInfo**, unsigned int*, unsigned int*, double*, double*)’: phy3.cpp:263:18: warning: variable ‘uMostDistantLeaf’ set but not used [-Wunused-but-set-variable] 263 | unsigned uMostDistantLeaf = NULL_NEIGHBOR; | ^~~~~~~~~~~~~~~~ phy3.cpp: At global scope: phy3.cpp:45:13: warning: ‘void ListEIs(EdgeInfo**, unsigned int)’ defined but not used [-Wunused-function] 45 | static void ListEIs(EdgeInfo **EIs, unsigned uNodeCount) | ^~~~~~~ In file included from muscle.h:34, from phy3.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c phy4.cpp -o phy4.o In file included from muscle.h:34, from phy4.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c phyfromclust.cpp -o phyfromclust.o In file included from muscle.h:34, from phyfromclust.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c phyfromfile.cpp -o phyfromfile.o In file included from muscle.h:34, from phyfromfile.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c physeq.cpp -o physeq.o physeq.cpp: In member function ‘void MSA::ToPhySequentialFile(TextFile&) const’: physeq.cpp:60:41: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const unsigned int’ [-Wsign-compare] 60 | if (Col == ColCount) | ~~~~^~~~~~~~~~~ physeq.cpp:71:33: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const unsigned int’ [-Wsign-compare] 71 | if (Col == ColCount) | ~~~~^~~~~~~~~~~ physeq.cpp: In member function ‘void MSA::ToPhyInterleavedFile(TextFile&) const’: physeq.cpp:112:41: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const unsigned int’ [-Wsign-compare] 112 | if (Col == ColCount) | ~~~~^~~~~~~~~~~ physeq.cpp:124:25: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const unsigned int’ [-Wsign-compare] 124 | if (Col == ColCount) | ~~~~^~~~~~~~~~~ In file included from muscle.h:34, from physeq.cpp:1: intmath.h: At global scope: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c phytofile.cpp -o phytofile.o In file included from muscle.h:34, from phytofile.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c posgap.cpp -o posgap.o In file included from muscle.h:34, from posgap.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c ppscore.cpp -o ppscore.o In file included from muscle.h:34, from ppscore.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c profdb.cpp -o profdb.o In file included from clustsetmsa.h:8, from profdb.cpp:9: msadist.h: In member function ‘double MSADist::ComputeDist(const MSA&, unsigned int, unsigned int)’: msadist.h:22:23: warning: enumeration value ‘DISTANCE_Undefined’ not handled in switch [-Wswitch] 22 | switch(m_Distance) | ^ msadist.h:22:23: warning: enumeration value ‘DISTANCE_Kmer6_6’ not handled in switch [-Wswitch] msadist.h:22:23: warning: enumeration value ‘DISTANCE_Kmer20_3’ not handled in switch [-Wswitch] msadist.h:22:23: warning: enumeration value ‘DISTANCE_Kmer20_4’ not handled in switch [-Wswitch] msadist.h:22:23: warning: enumeration value ‘DISTANCE_Kbit20_3’ not handled in switch [-Wswitch] msadist.h:22:23: warning: enumeration value ‘DISTANCE_Kmer4_6’ not handled in switch [-Wswitch] msadist.h:22:23: warning: enumeration value ‘DISTANCE_PWKimura’ not handled in switch [-Wswitch] msadist.h:22:23: warning: enumeration value ‘DISTANCE_PWScoreDist’ not handled in switch [-Wswitch] msadist.h:22:23: warning: enumeration value ‘DISTANCE_ScoreDist’ not handled in switch [-Wswitch] msadist.h:22:23: warning: enumeration value ‘DISTANCE_Edit’ not handled in switch [-Wswitch] In file included from muscle.h:34, from profdb.cpp:1: intmath.h: At global scope: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c profile.cpp -o profile.o In file included from muscle.h:34, from profile.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c profilefrommsa.cpp -o profilefrommsa.o profilefrommsa.cpp: In function ‘void ListProfile(const ProfPos*, unsigned int, const MSA*)’: profilefrommsa.cpp:131:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const unsigned int’ [-Wsign-compare] 131 | if (-1 == PP.m_uResidueGroup) | ~~~^~~~~~~~~~~~~~~~~~~~~ profilefrommsa.cpp: In function ‘unsigned int ResidueGroupFromFCounts(const FCOUNT*)’: profilefrommsa.cpp:230:16: warning: enumeration value ‘ALPHA_Undefined’ not handled in switch [-Wswitch] 230 | switch (g_Alpha) | ^ profilefrommsa.cpp: In function ‘ProfPos* ProfileFromMSA(const MSA&)’: profilefrommsa.cpp:245:24: warning: unused variable ‘uSeqCount’ [-Wunused-variable] 245 | const unsigned uSeqCount = a.GetSeqCount(); | ^~~~~~~~~ profilefrommsa.cpp:253:18: warning: unused variable ‘uHydrophobicRunLength’ [-Wunused-variable] 253 | unsigned uHydrophobicRunLength = 0; | ^~~~~~~~~~~~~~~~~~~~~ profilefrommsa.cpp: At global scope: profilefrommsa.cpp:15:20: warning: ‘const char* LocalScoreToStr(SCORE)’ defined but not used [-Wunused-function] 15 | static const char *LocalScoreToStr(SCORE s) | ^~~~~~~~~~~~~~~ In file included from muscle.h:34, from profilefrommsa.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c progalign.cpp -o progalign.o progalign.cpp: In function ‘ProgNode* ProgressiveAlignE(const SeqVect&, const Tree&, MSA&)’: progalign.cpp:41:24: warning: unused variable ‘uIterCount’ [-Wunused-variable] 41 | const unsigned uIterCount = uSeqCount - 1; | ^~~~~~~~~~ In file included from muscle.h:34, from progalign.cpp:1: intmath.h: At global scope: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c progress.cpp -o progress.o In file included from muscle.h:34, from progress.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c progressivealign.cpp -o progressivealign.o In file included from muscle.h:34, from progressivealign.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c pwpath.cpp -o pwpath.o pwpath.cpp: In member function ‘void PWPath::Validate() const’: pwpath.cpp:79:23: warning: unused variable ‘LastEdge’ [-Wunused-variable] 79 | const PWEdge &LastEdge = GetEdge(uEdgeCount - 1); | ^~~~~~~~ pwpath.cpp: In member function ‘void PWPath::FromFile(TextFile&)’: pwpath.cpp:212:18: warning: unused variable ‘uEdgeIndex’ [-Wunused-variable] 212 | unsigned uEdgeIndex = 0; | ^~~~~~~~~~ In file included from muscle.h:34, from pwpath.cpp:1: intmath.h: At global scope: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c readmx.cpp -o readmx.o readmx.cpp: In function ‘float (* ReadMx(TextFile&))[32][32]’: readmx.cpp:83:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const unsigned int’ [-Wsign-compare] 83 | for (int i = 0; i < MAX_ALPHA; ++i) | ~~^~~~~~~~~~~ readmx.cpp:84:35: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const unsigned int’ [-Wsign-compare] 84 | for (int j = 0; j < MAX_ALPHA; ++j) | ~~^~~~~~~~~~~ readmx.cpp: At global scope: readmx.cpp:30:17: warning: ‘unsigned int MxCharToLetter(char)’ defined but not used [-Wunused-function] 30 | static unsigned MxCharToLetter(char c) | ^~~~~~~~~~~~~~ In file included from muscle.h:34, from readmx.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c realigndiffs.cpp -o realigndiffs.o In file included from muscle.h:34, from realigndiffs.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c realigndiffse.cpp -o realigndiffse.o realigndiffse.cpp: In function ‘void RealignDiffsE(const MSA&, const SeqVect&, const Tree&, const Tree&, const unsigned int*, MSA&, ProgNode*)’: realigndiffse.cpp:72:34: warning: unused variable ‘uNewRight’ [-Wunused-variable] 72 | unsigned uNewRight = NewTree.GetRight(uNewNodeIndex); | ^~~~~~~~~ realigndiffse.cpp:75:34: warning: unused variable ‘uOldRight’ [-Wunused-variable] 75 | unsigned uOldRight = OldTree.GetRight(uOld); | ^~~~~~~~~ In file included from muscle.h:34, from realigndiffse.cpp:1: intmath.h: At global scope: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c redblack.cpp -o redblack.o In file included from muscle.h:34, from redblack.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c refine.cpp -o refine.o In file included from clustsetmsa.h:8, from refine.cpp:9: msadist.h: In member function ‘double MSADist::ComputeDist(const MSA&, unsigned int, unsigned int)’: msadist.h:22:23: warning: enumeration value ‘DISTANCE_Undefined’ not handled in switch [-Wswitch] 22 | switch(m_Distance) | ^ msadist.h:22:23: warning: enumeration value ‘DISTANCE_Kmer6_6’ not handled in switch [-Wswitch] msadist.h:22:23: warning: enumeration value ‘DISTANCE_Kmer20_3’ not handled in switch [-Wswitch] msadist.h:22:23: warning: enumeration value ‘DISTANCE_Kmer20_4’ not handled in switch [-Wswitch] msadist.h:22:23: warning: enumeration value ‘DISTANCE_Kbit20_3’ not handled in switch [-Wswitch] msadist.h:22:23: warning: enumeration value ‘DISTANCE_Kmer4_6’ not handled in switch [-Wswitch] msadist.h:22:23: warning: enumeration value ‘DISTANCE_PWKimura’ not handled in switch [-Wswitch] msadist.h:22:23: warning: enumeration value ‘DISTANCE_PWScoreDist’ not handled in switch [-Wswitch] msadist.h:22:23: warning: enumeration value ‘DISTANCE_ScoreDist’ not handled in switch [-Wswitch] msadist.h:22:23: warning: enumeration value ‘DISTANCE_Edit’ not handled in switch [-Wswitch] In file included from muscle.h:34, from refine.cpp:1: intmath.h: At global scope: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c refinehoriz.cpp -o refinehoriz.o In file included from muscle.h:34, from refinehoriz.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ refinehoriz.cpp: In function ‘bool RefineHoriz(MSA&, const Tree&, unsigned int, bool, bool)’: refinehoriz.cpp:169:23: warning: ‘scoreBefore’ may be used uninitialized [-Wmaybe-uninitialized] 169 | SCORE scoreBefore; | ^~~~~~~~~~~ refinehoriz.cpp:170:23: warning: ‘scoreAfter’ may be used uninitialized [-Wmaybe-uninitialized] 170 | SCORE scoreAfter; | ^~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c refinesubfams.cpp -o refinesubfams.o refinesubfams.cpp: In function ‘bool RefineSubfams(MSA&, const Tree&, unsigned int)’: refinesubfams.cpp:63:24: warning: unused variable ‘uNodeCount’ [-Wunused-variable] 63 | const unsigned uNodeCount = tree.GetNodeCount(); | ^~~~~~~~~~ In file included from muscle.h:34, from refinesubfams.cpp:1: intmath.h: At global scope: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c refinetree.cpp -o refinetree.o In file included from muscle.h:34, from refinetree.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c refinetreee.cpp -o refinetreee.o In file included from muscle.h:34, from refinetreee.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c refinevert.cpp -o refinevert.o In file included from muscle.h:34, from refinevert.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c refinew.cpp -o refinew.o refinew.cpp: In function ‘void AppendMSA(MSA&, const MSA&)’: refinew.cpp:26:24: warning: unused variable ‘uColCountCat’ [-Wunused-variable] 26 | const unsigned uColCountCat = uColCount1 + uColCount2; | ^~~~~~~~~~~~ refinew.cpp: In function ‘void RefineW(const MSA&, MSA&)’: refinew.cpp:129:34: warning: unused variable ‘uOutCols’ [-Wunused-variable] 129 | unsigned uOutCols = msaOut.GetColCount(); | ^~~~~~~~ In file included from muscle.h:34, from refinew.cpp:1: intmath.h: At global scope: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c savebest.cpp -o savebest.o In file included from muscle.h:34, from savebest.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c scoredist.cpp -o scoredist.o In file included from muscle.h:34, from scoredist.cpp:3: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c scoregaps.cpp -o scoregaps.o scoregaps.cpp:80:14: warning: ‘SCORE Penalty(unsigned int, bool)’ defined but not used [-Wunused-function] 80 | static SCORE Penalty(unsigned Length, bool Term) | ^~~~~~~ scoregaps.cpp:37:13: warning: ‘void FreeGapInfo(GAPINFO*)’ defined but not used [-Wunused-function] 37 | static void FreeGapInfo(GAPINFO *GI) | ^~~~~~~~~~~ In file included from muscle.h:34, from scoregaps.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c scorehistory.cpp -o scorehistory.o In file included from muscle.h:34, from scorehistory.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c scorepp.cpp -o scorepp.o In file included from muscle.h:34, from scorepp.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c seq.cpp -o seq.o In file included from muscle.h:34, from seq.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c seqvect.cpp -o seqvect.o In file included from muscle.h:34, from seqvect.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c setblosumweights.cpp -o setblosumweights.o In file included from muscle.h:34, from setblosumweights.cpp:42: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c setgscweights.cpp -o setgscweights.o In file included from muscle.h:34, from setgscweights.cpp:104: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c setnewhandler.cpp -o setnewhandler.o In file included from muscle.h:34, from setnewhandler.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c spfast.cpp -o spfast.o spfast.cpp: In function ‘SCORE ObjScoreSPDimer(const MSA&)’: spfast.cpp:252:24: warning: unused variable ‘uSeqCount’ [-Wunused-variable] 252 | const unsigned uSeqCount = msa.GetSeqCount(); | ^~~~~~~~~ spfast.cpp: At global scope: spfast.cpp:59:14: warning: ‘SCORE SPColBrute(const MSA&, unsigned int)’ defined but not used [-Wunused-function] 59 | static SCORE SPColBrute(const MSA &msa, unsigned uColIndex) | ^~~~~~~~~~ spfast.cpp:14:20: warning: ‘const char* GapTypeToStr(int)’ defined but not used [-Wunused-function] 14 | static const char *GapTypeToStr(int GapType) | ^~~~~~~~~~~~ In file included from muscle.h:34, from spfast.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c sptest.cpp -o sptest.o In file included from muscle.h:34, from sptest.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c stabilize.cpp -o stabilize.o In file included from muscle.h:34, from stabilize.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c subfam.cpp -o subfam.o subfam.cpp: In function ‘void AlignSubFam(SeqVect&, const Tree&, unsigned int, MSA&)’: subfam.cpp:173:13: warning: unused variable ‘NotUsed’ [-Wunused-variable] 173 | int NotUsed = system(CmdLine); | ^~~~~~~ In file included from muscle.h:34, from subfam.cpp:1: intmath.h: At global scope: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c subfams.cpp -o subfams.o subfams.cpp:52:13: warning: ‘void Relax(DistFunc&, unsigned int, unsigned int)’ defined but not used [-Wunused-function] 52 | static void Relax(DistFunc &DF, unsigned u, unsigned v) | ^~~~~ subfams.cpp:40:13: warning: ‘void InitializeSingleSource(DistFunc&, unsigned int)’ defined but not used [-Wunused-function] 40 | static void InitializeSingleSource(DistFunc &DF, unsigned uIndex) | ^~~~~~~~~~~~~~~~~~~~~~ subfams.cpp:10:13: warning: ‘void GetMostDistantPair(DistFunc&, unsigned int*, unsigned int*)’ defined but not used [-Wunused-function] 10 | static void GetMostDistantPair(DistFunc &DF, unsigned *ptrIndex1, unsigned *ptrIndex2) | ^~~~~~~~~~~~~~~~~~ In file included from muscle.h:34, from subfams.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c sw.cpp -o sw.o sw.cpp:20:13: warning: ‘void ListDP(const SCORE*, const ProfPos*, const ProfPos*, unsigned int, unsigned int)’ defined but not used [-Wunused-function] 20 | static void ListDP(const SCORE *DPM_, const ProfPos *PA, const ProfPos *PB, | ^~~~~~ In file included from muscle.h:34, from sw.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c termgaps.cpp -o termgaps.o In file included from muscle.h:34, from termgaps.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c textfile.cpp -o textfile.o textfile.cpp: In member function ‘void TextFile::PutChar(char)’: textfile.cpp:104:13: warning: unused variable ‘i’ [-Wunused-variable] 104 | int i = fputc(c, m_ptrFile); | ^ textfile.cpp: In member function ‘void TextFile::PutString(const char*)’: textfile.cpp:117:13: warning: unused variable ‘iError’ [-Wunused-variable] 117 | int iError = fputs(szLine, m_ptrFile); | ^~~~~~ In file included from muscle.h:34, from textfile.cpp:1: intmath.h: At global scope: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c threewaywt.cpp -o threewaywt.o In file included from muscle.h:34, from threewaywt.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c tomhydro.cpp -o tomhydro.o In file included from muscle.h:34, from tomhydro.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c traceback.cpp -o traceback.o traceback.cpp: In function ‘SCORE TraceBack(const ProfPos*, unsigned int, const ProfPos*, unsigned int, const SCORE*, const SCORE*, const SCORE*, PWPath&)’: traceback.cpp:21:24: warning: unused variable ‘uPrefixCountB’ [-Wunused-variable] 21 | const unsigned uPrefixCountB = uLengthB + 1; | ^~~~~~~~~~~~~ In file included from muscle.h:34, from traceback.cpp:1: intmath.h: At global scope: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c tracebackopt.cpp -o tracebackopt.o In file included from muscle.h:34, from tracebackopt.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c tracebacksw.cpp -o tracebacksw.o tracebacksw.cpp: In function ‘void TraceBackSW(const ProfPos*, unsigned int, const ProfPos*, unsigned int, const SCORE*, const SCORE*, const SCORE*, unsigned int, unsigned int, PWPath&)’: tracebacksw.cpp:22:24: warning: unused variable ‘uPrefixCountB’ [-Wunused-variable] 22 | const unsigned uPrefixCountB = uLengthB + 1; | ^~~~~~~~~~~~~ tracebacksw.cpp:29:15: warning: unused variable ‘scoreMax’ [-Wunused-variable] 29 | SCORE scoreMax = DPM(uPrefixLengthA, uPrefixLengthB); | ^~~~~~~~ In file included from muscle.h:34, from tracebacksw.cpp:1: intmath.h: At global scope: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c treefrommsa.cpp -o treefrommsa.o In file included from clustsetmsa.h:8, from treefrommsa.cpp:5: msadist.h: In member function ‘double MSADist::ComputeDist(const MSA&, unsigned int, unsigned int)’: msadist.h:22:23: warning: enumeration value ‘DISTANCE_Undefined’ not handled in switch [-Wswitch] 22 | switch(m_Distance) | ^ msadist.h:22:23: warning: enumeration value ‘DISTANCE_Kmer6_6’ not handled in switch [-Wswitch] msadist.h:22:23: warning: enumeration value ‘DISTANCE_Kmer20_3’ not handled in switch [-Wswitch] msadist.h:22:23: warning: enumeration value ‘DISTANCE_Kmer20_4’ not handled in switch [-Wswitch] msadist.h:22:23: warning: enumeration value ‘DISTANCE_Kbit20_3’ not handled in switch [-Wswitch] msadist.h:22:23: warning: enumeration value ‘DISTANCE_Kmer4_6’ not handled in switch [-Wswitch] msadist.h:22:23: warning: enumeration value ‘DISTANCE_PWKimura’ not handled in switch [-Wswitch] msadist.h:22:23: warning: enumeration value ‘DISTANCE_PWScoreDist’ not handled in switch [-Wswitch] msadist.h:22:23: warning: enumeration value ‘DISTANCE_ScoreDist’ not handled in switch [-Wswitch] msadist.h:22:23: warning: enumeration value ‘DISTANCE_Edit’ not handled in switch [-Wswitch] In file included from muscle.h:34, from treefrommsa.cpp:1: intmath.h: At global scope: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c typetostr.cpp -o typetostr.o In file included from muscle.h:34, from typetostr.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ typetostr.cpp: In function ‘const char* SecsToStr(long unsigned int)’: typetostr.cpp:13:28: warning: ‘:’ directive writing 1 byte into a region of size between 0 and 14 [-Wformat-overflow=] 13 | sprintf(Str, "%02ld:%02ld:%02ld", hh, mm, ss); | ^ typetostr.cpp:13:22: note: directive argument in the range [0, 59] 13 | sprintf(Str, "%02ld:%02ld:%02ld", hh, mm, ss); | ^~~~~~~~~~~~~~~~~~~ typetostr.cpp:13:22: note: directive argument in the range [0, 59] In file included from /usr/include/stdio.h:970, from muscle.h:27: In function ‘int sprintf(char*, const char*, ...)’, inlined from ‘const char* SecsToStr(long unsigned int)’ at typetostr.cpp:13:9: /usr/include/x86_64-linux-gnu/bits/stdio2.h:30:34: note: ‘__builtin___sprintf_chk’ output between 9 and 23 bytes into a destination of size 16 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c upgma2.cpp -o upgma2.o upgma2.cpp:68:13: warning: ‘void ListState()’ defined but not used [-Wunused-function] 68 | static void ListState() | ^~~~~~~~~ In file included from muscle.h:34, from upgma2.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ upgma2.cpp: In function ‘void UPGMA2(const DistCalc&, Tree&, LINKAGE)’: upgma2.cpp:292:36: warning: ‘dtNewDist’ may be used uninitialized [-Wmaybe-uninitialized] 292 | g_Dist[vL] = dtNewDist; | ~~~~~~~~~~~^~~~~~~~~~~ upgma2.cpp:252:32: note: ‘dtNewDist’ was declared here 252 | dist_t dtNewDist; | ^~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c usage.cpp -o usage.o In file included from muscle.h:34, from usage.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c validateids.cpp -o validateids.o In file included from muscle.h:34, from validateids.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c vtml2.cpp -o vtml2.o In file included from muscle.h:34, from vtml2.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c writescorefile.cpp -o writescorefile.o In file included from muscle.h:34, from writescorefile.cpp:1: intmath.h:59:15: warning: ‘double ScoreToDouble(SCORE)’ defined but not used [-Wunused-function] 59 | static double ScoreToDouble(SCORE Score) | ^~~~~~~~~~~~~ In function ‘double GetColScore(const MSA&, unsigned int)’, inlined from ‘void WriteScoreFile(const MSA&)’ at writescorefile.cpp:59:29: writescorefile.cpp:40:30: warning: ‘Score’ may be used uninitialized [-Wmaybe-uninitialized] 40 | dSum += Score; | ~~~~~^~~~~~~~ writescorefile.cpp: In function ‘void WriteScoreFile(const MSA&)’: writescorefile.cpp:27:32: note: ‘Score’ was declared here 27 | double Score; | ^~~~~ g++-14 -std=gnu++17 -shared -L/home/hornik/tmp/R-d-gcc-14/lib -Wl,-O1 -o muscle.so aligngivenpath.o aligngivenpathsw.o aligntwomsas.o aligntwoprofs.o aln.o alpha.o anchors.o bittraceback.o blosum62.o blosumla.o clust.o cluster.o clwwt.o color.o cons.o diaglist.o diffobjscore.o diffpaths.o difftrees.o difftreese.o distcalc.o distfunc.o distpwkimura.o domuscle.o dosp.o dpreglist.o drawtree.o edgelist.o enumopts.o enumtostr.o estring.o fasta.o fasta2.o fastclust.o fastdist.o fastdistjones.o fastdistkbit.o fastdistkmer.o fastdistmafft.o fastdistnuc.o fastscorepath2.o finddiags.o finddiagsn.o glbalign.o glbalign352.o glbaligndiag.o glbalignla.o glbalignle.o glbalignns.o glbalignsimple.o glbalignsp.o glbalignspn.o glbalignss.o glbalndimer.o globals.o globalslinux.o globalsosx.o globalsother.o globalswin32.o gonnet.o gotowt.o henikoffweight.o henikoffweightpb.o html.o hydro.o intmath.o local.o main.o makerootmsa.o makerootmsab.o maketree.o mhack.o mpam200.o msa.o msa2.o msadistkimura.o msf.o muscle.o muscleout.o nucmx.o nwdasimple.o nwdasimple2.o nwdasmall.o nwrec.o nwsmall.o objscore.o objscore2.o objscoreda.o onexception.o optionsR.o outweights.o pam200mafft.o params.o phy.o phy2.o phy3.o phy4.o phyfromclust.o phyfromfile.o physeq.o phytofile.o posgap.o ppscore.o profdb.o profile.o profilefrommsa.o progalign.o progress.o progressivealign.o pwpath.o readmx.o realigndiffs.o realigndiffse.o redblack.o refine.o refinehoriz.o refinesubfams.o refinetree.o refinetreee.o refinevert.o refinew.o savebest.o scoredist.o scoregaps.o scorehistory.o scorepp.o seq.o seqvect.o setblosumweights.o setgscweights.o setnewhandler.o spfast.o sptest.o stabilize.o subfam.o subfams.o sw.o termgaps.o textfile.o threewaywt.o tomhydro.o traceback.o tracebackopt.o tracebacksw.o treefrommsa.o typetostr.o upgma2.o usage.o validateids.o vtml2.o writescorefile.o -L/home/hornik/tmp/R-d-gcc-14/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmplkIHbR/R.INSTALL316e8e213d2d56/muscle/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-muscle/00new/muscle/libs ** R ** data *** moving datasets to lazyload DB ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (muscle) * installing *source* package ‘mvSLOUCH’ ... ** this is package ‘mvSLOUCH’ version ‘2.7.6’ ** package ‘mvSLOUCH’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (mvSLOUCH) * installing *source* package ‘BiocPkgTools’ ... ** this is package ‘BiocPkgTools’ version ‘1.26.2’ ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (BiocPkgTools) * installing *source* package ‘DECIPHER’ ... ** this is package ‘DECIPHER’ version ‘3.4.0’ ** using staged installation ** libs using C compiler: ‘gcc-14 (Debian 14.2.0-19) 14.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/Rtmpd7EIJw/R.INSTALL3169af85b1db5/DECIPHER/src' gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Biostrings/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/S4Vectors/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/IRanges/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/XVector/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c AlignProfiles.c -o AlignProfiles.o AlignProfiles.c: In function ‘alignProfiles._omp_fn.0’: AlignProfiles.c:438:37: warning: ‘lGs’ may be used uninitialized [-Wmaybe-uninitialized] 438 | lGs *= tot; | ~~~~^~~~~~ AlignProfiles.c:62:51: note: ‘lGs’ was declared here 62 | double *pprofile, *sprofile, gp, gs, lGp, lGs, S, M, GP, GS, temp, avgM = 0; | ^~~ AlignProfiles.c:436:37: warning: ‘lGp’ may be used uninitialized [-Wmaybe-uninitialized] 436 | lGp *= tot; | ~~~~^~~~~~ AlignProfiles.c:62:46: note: ‘lGp’ was declared here 62 | double *pprofile, *sprofile, gp, gs, lGp, lGs, S, M, GP, GS, temp, avgM = 0; | ^~~ AlignProfiles.c: In function ‘alignProfilesAA._omp_fn.0’: AlignProfiles.c:1291:37: warning: ‘lGs’ may be used uninitialized [-Wmaybe-uninitialized] 1291 | lGs *= tot; | ~~~~^~~~~~ AlignProfiles.c:820:51: note: ‘lGs’ was declared here 820 | double *pprofile, *sprofile, gp, gs, lGp, lGs, M, GP, GS, R, temp, avgM = 0; | ^~~ AlignProfiles.c:1289:37: warning: ‘lGp’ may be used uninitialized [-Wmaybe-uninitialized] 1289 | lGp *= tot; | ~~~~^~~~~~ AlignProfiles.c:820:46: note: ‘lGp’ was declared here 820 | double *pprofile, *sprofile, gp, gs, lGp, lGs, M, GP, GS, R, temp, avgM = 0; | ^~~ AlignProfiles.c: In function ‘alignProfiles’: AlignProfiles.c:82:17: warning: ‘subM’ may be used uninitialized [-Wmaybe-uninitialized] 82 | double *subM; | ^~~~ gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Biostrings/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/S4Vectors/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/IRanges/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/XVector/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c AssignIndels.c -o AssignIndels.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Biostrings/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/S4Vectors/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/IRanges/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/XVector/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c Biostrings_stubs.c -o Biostrings_stubs.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Biostrings/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/S4Vectors/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/IRanges/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/XVector/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c CalculateDeltaG.c -o CalculateDeltaG.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Biostrings/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/S4Vectors/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/IRanges/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/XVector/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c CalculateFISH.c -o CalculateFISH.o CalculateFISH.c: In function ‘calculateFISH’: CalculateFISH.c:25:30: warning: missing braces around initializer [-Wmissing-braces] 25 | double dH_DR[4][4] = { | ^ 26 | -11.5, -7.8, -7, -8.3, | { } 27 | -10.4, -12.8, -16.3, -9.1, | { } 28 | -8.6, -8, -9.3, -5.9, | { } 29 | -7.8, -5.5, -9, -7.8 | { 30 | }; | } CalculateFISH.c:31:30: warning: missing braces around initializer [-Wmissing-braces] 31 | double dS_DR[4][4] = { | ^ 32 | -36.4, -21.6, -19.7, -23.9, | { } 33 | -28.4, -31.9, -47.1, -23.5, | { } 34 | -22.9, -17.1, -23.2, -12.3, | { } 35 | -23.2, -13.5, -26.1, -21.9 | { 36 | }; | } CalculateFISH.c:37:30: warning: missing braces around initializer [-Wmissing-braces] 37 | double dH_DD[4][4] = { | ^ 38 | -7.9, -8.4, -7.8, -7.2, | { } 39 | -8.5, -8, -10.6, -7.8, | { } 40 | -8.2, -9.8, -8, -8.4, | { } 41 | -7.2, -8.2, -8.5, -7.9 | { 42 | }; | } CalculateFISH.c:43:30: warning: missing braces around initializer [-Wmissing-braces] 43 | double dS_DD[4][4] = { | ^ 44 | -22.2, -22.4, -21, -20.4, | { } 45 | -22.7, -19.9, -27.2, -21, | { } 46 | -22.2, -24.4, -19.9, -22.4, | { } 47 | -21.3, -22.2, -22.7, -22.2 | { 48 | }; | } CalculateFISH.c:49:30: warning: missing braces around initializer [-Wmissing-braces] 49 | double dH_RR[4][4] = { | ^ 50 | -6.6, -10.17, -7.65, -5.76, | { } 51 | -10.56, -12.21, -7.95, -7.65, | { } 52 | -13.37, -14.21, -12.21, -10.17, | { } 53 | -8.11, -13.37, -10.56, -6.6 | { 54 | }; | } CalculateFISH.c:55:30: warning: missing braces around initializer [-Wmissing-braces] 55 | double dS_RR[4][4] = { | ^ 56 | -18.38, -26.03, -19.18, -15.67, | { } 57 | -28.25, -30.02, -19.18, -19.18, | { } 58 | -35.68, -34.85, -30.02, -26.03, | { } 59 | -22.59, -35.68, -28.25, -18.38 | { 60 | }; | } gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Biostrings/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/S4Vectors/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/IRanges/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/XVector/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c ChainSegments.c -o ChainSegments.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Biostrings/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/S4Vectors/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/IRanges/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/XVector/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c Cluster.c -o Cluster.o Cluster.c: In function ‘cluster._omp_fn.0’: Cluster.c:439:72: warning: ‘minC’ may be used uninitialized [-Wmaybe-uninitialized] 439 | minCols[rowIndices[i]] = minC; | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ Cluster.c:246:57: note: ‘minC’ was declared here 246 | int k, dobj, clusterNum, minRow, minCol, index, minC, met; | ^~~~ Cluster.c: In function ‘cluster._omp_fn.1’: Cluster.c:469:50: warning: ‘minC’ may be used uninitialized [-Wmaybe-uninitialized] 469 | minCs[i] = minC; | ~~~~~~~~~^~~~~~ Cluster.c:246:57: note: ‘minC’ was declared here 246 | int k, dobj, clusterNum, minRow, minCol, index, minC, met; | ^~~~ Cluster.c: In function ‘cluster._omp_fn.2’: Cluster.c:493:72: warning: ‘minC’ may be used uninitialized [-Wmaybe-uninitialized] 493 | minCols[rowIndices[i]] = minC; | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ Cluster.c:246:57: note: ‘minC’ was declared here 246 | int k, dobj, clusterNum, minRow, minCol, index, minC, met; | ^~~~ Cluster.c: In function ‘cluster’: Cluster.c:277:14: warning: ‘minCols’ may be used uninitialized [-Wmaybe-uninitialized] 277 | int *minCols; | ^~~~~~~ Cluster.c:916:43: warning: ‘rPercentComplete’ may be used uninitialized [-Wmaybe-uninitialized] 916 | *rPercentComplete = floor(100*soFar/total); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ Cluster.c:248:25: note: ‘rPercentComplete’ was declared here 248 | int before, v, *rPercentComplete; | ^~~~~~~~~~~~~~~~ Cluster.c:916:45: warning: ‘total’ may be used uninitialized [-Wmaybe-uninitialized] 916 | *rPercentComplete = floor(100*soFar/total); | ^~~~~~~~~~~~~~~~~~~~~~ Cluster.c:249:23: note: ‘total’ was declared here 249 | double soFar, total, minHeight, *cut, *rans, *distanceMatrix, minH; | ^~~~~ In file included from /home/hornik/tmp/R-d-gcc-14/include/Rdefines.h:41, from Cluster.c:11: /home/hornik/tmp/R-d-gcc-14/include/Rinternals.h:934:33: warning: ‘utilsPackage’ may be used uninitialized [-Wmaybe-uninitialized] 934 | #define eval Rf_eval Cluster.c:920:33: note: in expansion of macro ‘eval’ 920 | eval(lang4(install("setTxtProgressBar"), pBar, percentComplete, R_NilValue), utilsPackage); | ^~~~ Cluster.c:250:36: note: ‘utilsPackage’ was declared here 250 | SEXP ans, percentComplete, utilsPackage; | ^~~~~~~~~~~~ /home/hornik/tmp/R-d-gcc-14/include/Rinternals.h:934:33: warning: ‘percentComplete’ may be used uninitialized [-Wmaybe-uninitialized] 934 | #define eval Rf_eval Cluster.c:920:33: note: in expansion of macro ‘eval’ 920 | eval(lang4(install("setTxtProgressBar"), pBar, percentComplete, R_NilValue), utilsPackage); | ^~~~ Cluster.c:250:19: note: ‘percentComplete’ was declared here 250 | SEXP ans, percentComplete, utilsPackage; | ^~~~~~~~~~~~~~~ Cluster.c:283:17: warning: ‘nDiv’ may be used uninitialized [-Wmaybe-uninitialized] 283 | double *nDiv; | ^~~~ Cluster.c:413:72: warning: ‘minC’ may be used uninitialized [-Wmaybe-uninitialized] 413 | minCols[rowIndices[i]] = minC; | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ Cluster.c:246:57: note: ‘minC’ was declared here 246 | int k, dobj, clusterNum, minRow, minCol, index, minC, met; | ^~~~ gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Biostrings/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/S4Vectors/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/IRanges/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/XVector/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c ClusterME.c -o ClusterME.o ClusterME.c: In function ‘clusterME’: ClusterME.c:322:101: warning: ‘LLRL’ may be used uninitialized [-Wmaybe-uninitialized] 322 | subDists[C[i + j*n] + 3*(n - 1) - 1] = LLRL + LRRL; // ac | ~~~~~^~~~~~ ClusterME.c:284:24: note: ‘LLRL’ was declared here 284 | double LLRL, LRRL, LLRR, LRRR; | ^~~~ ClusterME.c:322:101: warning: ‘LRRL’ may be used uninitialized [-Wmaybe-uninitialized] 322 | subDists[C[i + j*n] + 3*(n - 1) - 1] = LLRL + LRRL; // ac | ~~~~~^~~~~~ ClusterME.c:284:30: note: ‘LRRL’ was declared here 284 | double LLRL, LRRL, LLRR, LRRR; | ^~~~ ClusterME.c:323:101: warning: ‘LLRR’ may be used uninitialized [-Wmaybe-uninitialized] 323 | subDists[C[i + j*n] + 4*(n - 1) - 1] = LLRR + LRRR; // bc | ~~~~~^~~~~~ ClusterME.c:284:36: note: ‘LLRR’ was declared here 284 | double LLRL, LRRL, LLRR, LRRR; | ^~~~ ClusterME.c:323:101: warning: ‘LRRR’ may be used uninitialized [-Wmaybe-uninitialized] 323 | subDists[C[i + j*n] + 4*(n - 1) - 1] = LLRR + LRRR; // bc | ~~~~~^~~~~~ ClusterME.c:284:42: note: ‘LRRR’ was declared here 284 | double LLRL, LRRL, LLRR, LRRR; | ^~~~ gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Biostrings/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/S4Vectors/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/IRanges/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/XVector/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c ClusterML.c -o ClusterML.o ClusterML.c: In function ‘clusterML’: ClusterML.c:1913:17: warning: ‘node’ may be used uninitialized [-Wmaybe-uninitialized] 1913 | double *node; | ^~~~ ClusterML.c:1959:14: warning: ‘Up’ may be used uninitialized [-Wmaybe-uninitialized] 1959 | int *Up; | ^~ gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Biostrings/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/S4Vectors/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/IRanges/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/XVector/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c ClusterMP.c -o ClusterMP.o ClusterMP.c: In function ‘clusterMP._omp_fn.0’: ClusterMP.c:190:71: warning: ‘temp_nodes’ may be used uninitialized [-Wmaybe-uninitialized] 190 | temp_nodes[j] = 0; | ~~~~~~~~~~~~~~^~~ ClusterMP.c:163:34: note: ‘temp_nodes’ was declared here 163 | int *temp_subM, *temp_nodes; | ^~~~~~~~~~ ClusterMP.c:465:49: warning: ‘temp_lengths’ may be used uninitialized [-Wmaybe-uninitialized] 465 | *(temp_lengths + j) += *(S + w*c + m)*weight; | ^~~~~~~~~~~~~~~~~~~ ClusterMP.c:162:38: note: ‘temp_lengths’ was declared here 162 | double *temp_score, *temp_lengths; | ^~~~~~~~~~~~ ClusterMP.c:485:73: warning: ‘temp_subM’ may be used uninitialized [-Wmaybe-uninitialized] 485 | *(temp_subM + c*m + w - 1) += weight; | ^~~~~~~~~~~~~~~~~~~~~~~~~~ ClusterMP.c:163:22: note: ‘temp_subM’ was declared here 163 | int *temp_subM, *temp_nodes; | ^~~~~~~~~ ClusterMP.c:202:49: warning: ‘P’ may be used uninitialized [-Wmaybe-uninitialized] 202 | allStates(R, P, S, c, j, 0, k - 1, 0, k - 1, c, only); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ClusterMP.c:185:38: note: ‘P’ was declared here 185 | int *P; | ^ ClusterMP.c:385:61: warning: ‘m’ may be used uninitialized [-Wmaybe-uninitialized] 385 | *(R + 3*c*n + m) = 0; | ^ ClusterMP.c:105:22: note: ‘m’ was declared here 105 | int i, j, k, m, w; | ^ ClusterMP.c: In function ‘clusterMP’: ClusterMP.c:159:17: warning: ‘lengths’ may be used uninitialized [-Wmaybe-uninitialized] 159 | #pragma omp parallel num_threads(nthreads) | ^~~ ClusterMP.c:128:17: note: ‘lengths’ was declared here 128 | double *lengths, *score; | ^~~~~~~ ClusterMP.c:159:17: warning: ‘nodes’ may be used uninitialized [-Wmaybe-uninitialized] 159 | #pragma omp parallel num_threads(nthreads) | ^~~ ClusterMP.c:129:20: note: ‘nodes’ was declared here 129 | int size, *nodes, *subM; | ^~~~~ ClusterMP.c:159:17: warning: ‘subM’ may be used uninitialized [-Wmaybe-uninitialized] 159 | #pragma omp parallel num_threads(nthreads) | ^~~ ClusterMP.c:129:28: note: ‘subM’ was declared here 129 | int size, *nodes, *subM; | ^~~~ ClusterMP.c:159:17: warning: ‘Up’ may be used uninitialized [-Wmaybe-uninitialized] 159 | #pragma omp parallel num_threads(nthreads) | ^~~ ClusterMP.c:145:14: note: ‘Up’ was declared here 145 | int *Up; | ^~ gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Biostrings/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/S4Vectors/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/IRanges/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/XVector/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c Compositions.c -o Compositions.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Biostrings/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/S4Vectors/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/IRanges/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/XVector/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c Compression.c -o Compression.o Compression.c: In function ‘nbit._omp_fn.0’: Compression.c:1242:71: warning: ‘lastTriplet’ may be used uninitialized [-Wmaybe-uninitialized] 1242 | if (threeBitEnd > threeBitBegin && (j - lastTriplet) > 20) { | ~~~^~~~~~~~~~~~~~ Compression.c:632:26: note: ‘lastTriplet’ was declared here 632 | int run, lastTriplet, lastCase; | ^~~~~~~~~~~ Compression.c:1012:62: warning: ‘word’ may be used uninitialized [-Wmaybe-uninitialized] 1012 | word = (word << 8) | (unsigned int)reorder(byte); | ~~~~~~^~~~~ Compression.c:545:37: note: ‘word’ was declared here 545 | unsigned int *dict, word, count, lastHit, currHit, lastPos = 0; | ^~~~ Compression.c:1013:54: warning: ‘count’ may be used uninitialized [-Wmaybe-uninitialized] 1013 | count++; | ~~~~~^~ Compression.c:545:43: note: ‘count’ was declared here 545 | unsigned int *dict, word, count, lastHit, currHit, lastPos = 0; | ^~~~~ Compression.c:1215:56: warning: ‘rev’ may be used uninitialized [-Wmaybe-uninitialized] 1215 | p[c++] = rev == 0 ? 254 : 255; | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ Compression.c:546:41: note: ‘rev’ was declared here 546 | int lastTemp, currTemp, rev, len, len2, thresh = 1; | ^~~ gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Biostrings/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/S4Vectors/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/IRanges/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/XVector/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c ConsensusSequence.c -o ConsensusSequence.o In function ‘runsAA’, inlined from ‘consensusProfileAA’ at ConsensusSequence.c:1836:3: ConsensusSequence.c:454:50: warning: ‘lastPos’ may be used uninitialized [-Wmaybe-uninitialized] 454 | if (lastGap < (s - 2)) // ensure continuity before the run | ~~~^~~~ ConsensusSequence.c: In function ‘consensusProfileAA’: ConsensusSequence.c:397:30: note: ‘lastPos’ was declared here 397 | int j, temp, length, lastPos, s = -1, value = -1, lastGap = start - 1; | ^~~~~~~ ConsensusSequence.c: In function ‘colScores’: ConsensusSequence.c:2043:19: warning: ‘curr’ may be used uninitialized [-Wmaybe-uninitialized] 2043 | if (tGaps && curr > 0) { | ~~~~~~^~~~~~~~~~~ ConsensusSequence.c:1930:37: note: ‘curr’ was declared here 1930 | double weight, total, prev, curr; | ^~~~ ConsensusSequence.c: In function ‘colScoresAA’: ConsensusSequence.c:2186:19: warning: ‘curr’ may be used uninitialized [-Wmaybe-uninitialized] 2186 | if (tGaps && curr > 0) { | ~~~~~~^~~~~~~~~~~ ConsensusSequence.c:2073:37: note: ‘curr’ was declared here 2073 | double weight, total, prev, curr; | ^~~~ gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Biostrings/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/S4Vectors/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/IRanges/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/XVector/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c DesignProbes.c -o DesignProbes.o DesignProbes.c: In function ‘designProbes’: DesignProbes.c:71:27: warning: missing braces around initializer [-Wmissing-braces] 71 | double NN[4][4] = { | ^ 72 | -0.816507461,-2.5401714,-1.647430026,-1.184658548 | { 73 | ,-1.854740485,-2.479102613,-2.826248182,-1.647430026 | }{ 74 | ,-2.48761723,-4.694133177,-2.479102613,-2.5401714 | }{ 75 | ,-0.495794417,-2.48761723,-1.854740485,-0.816507461 | }{ 76 | }; | } DesignProbes.c:78:27: warning: missing braces around initializer [-Wmissing-braces] 78 | double PM[4][4] = { | ^ 79 | -0.141370102,-0.439805276,-0.285236035,-0.205111781 | { 80 | ,-0.321129768,-0.429231826,-0.48933661,-0.285236035 | }{ 81 | ,-0.430706047,-0.812742218,-0.429231826,-0.439805276 | }{ 82 | ,-0.085841845,-0.430706047,-0.321129768,-0.141370102 | }{ 83 | }; | } DesignProbes.c:85:34: warning: missing braces around initializer [-Wmissing-braces] 85 | double sMM[4][5][5][4] = { | ^ 86 | 0,0,0,0 | {{{ 87 | ,1.545032445,1.254355018,1.491691514,1.329138183 | }{ 88 | ,1.150635633,0.582415494,1.075877275,1.187937642 | }{ 89 | ,1.203555051,1.001540513,0.864287715,0.717125848 | }{ 90 | ,0.75,0.65,0.69,0.78 | }{ 91 | ,0.630005348,0.18553379,0.730763505,0.709272397 | - | }},{{ 92 | ,0,0,0,0 | }{ 93 | ,0.856582783,-0.143236405,0.716721488,0.603652831 | }{ 94 | ,0.851622883,0.653168672,0.676545316,1.187937642 | }{ 95 | ,0.75,0.65,0.69,0.78 | }{ 96 | ,1.231861002,0.746214538,1.087821916,0.989140748 | - | }},{{ 97 | ,1.822113278,1.270687029,1.336192565,1.364584949 | }{ 98 | ,0,0,0,0 | }{ 99 | ,1.443665704,1.385046493,1.256013166,1.329138183 | }{ 100 | ,0.75,0.65,0.69,0.78 | }{ 101 | ,1.478009492,0.882097231,1.20450984,1.061002478 | - | }},{{ 102 | ,1.496720812,0.846496194,0.967868114,0.989140748 | }{ 103 | ,0.766581547,-0.024857805,0.50754303,0.709272397 | }{ 104 | ,0,0,0,0 | }{ 105 | ,0.75,0.65,0.69,0.78 | }{ 106 | ,0.75,0.65,0.69,0.78 | - | }},{{ 107 | ,0.75,0.65,0.69,0.78 | }{ 108 | ,0.75,0.65,0.69,0.78 | }{ 109 | ,0.76,0.65,0.69,0.78 | }{ 110 | ,0,0,0,0 | }{ 111 | ,0,0,0,0 | - | }}},{{{ 112 | ,1.295827995,0.84547091,0.91019099,1.256013166 | }{ 113 | ,0.755889609,0.241428373,0.396379912,0.676545316 | }{ 114 | ,0.99945386,0.740323132,0.435659206,0.864287715 | }{ 115 | ,0.65,0.55,0.48,0.69 | }{ 116 | ,0.843147406,0.101248351,0.49063599,0.50754303 | - | }},{{ 117 | ,0,0,0,0 | }{ 118 | ,1.0651638,0.249934344,0.699352949,0.716721488 | }{ 119 | ,0.871921533,0.59458138,0.396379912,1.075877275 | }{ 120 | ,0.65,0.56,0.49,0.69 | }{ 121 | ,1.07531714,0.318907854,0.653287717,0.967868114 | - | }},{{ 122 | ,1.099899195,0.730184613,0.661798984,1.336192565 | }{ 123 | ,0,0,0,0 | }{ 124 | ,1.45897431,1.318532145,0.91019099,1.491691514 | }{ 125 | ,0.65,0.56,0.49,0.69 | }{ 126 | ,1.242135174,0.894838095,1.108555445,1.20450984 | - | }},{{ 127 | ,0.911428974,0.524430101,0.653287717,1.087821916 | }{ 128 | ,0.503209827,0.274849491,0.49063599,0.730763505 | }{ 129 | ,0,0,0,0 | }{ 130 | ,0.65,0.55,0.48,0.69 | }{ 131 | ,0.65,0.55,0.48,0.69 | - | }},{{ 132 | ,0.65,0.56,0.49,0.69 | }{ 133 | ,0.65,0.56,0.49,0.69 | }{ 134 | ,0.65,0.55,0.48,0.69 | }{ 135 | ,0,0,0,0 | }{ 136 | ,0,0,0,0 | - | }}},{{{ 137 | ,1.100661785,0.969784756,1.318532145,1.385046493 | }{ 138 | ,0.565895968,-0.060347902,0.59458138,0.653168672 | }{ 139 | ,0.782168488,0.788161238,0.740323132,1.001540513 | }{ 140 | ,0.68,0.46,0.55,0.65 | }{ 141 | ,0.468913405,-0.469855984,0.274849491,-0.024857805 | - | }},{{ 142 | ,0,0,0,0 | }{ 143 | ,0.258195131,-0.70438632,0.249934344,-0.143236405 | }{ 144 | ,0.502914193,-0.060347902,0.241428373,0.582415494 | }{ 145 | ,0.68,0.47,0.56,0.65 | }{ 146 | ,0.584083861,0.258975454,0.524430101,0.846496194 | - | }},{{ 147 | ,0.968040559,0.797499702,0.730184613,1.270687029 | }{ 148 | ,0,0,0,0 | }{ 149 | ,1.081040749,0.969784756,0.84547091,1.254355018 | }{ 150 | ,0.68,0.47,0.56,0.65 | }{ 151 | ,1.048553951,0.728354541,0.894838095,0.882097231 | - | }},{{ 152 | ,0.88611252,0.258975454,0.318907854,0.746214538 | }{ 153 | ,0.239520858,-0.469855984,0.101248351,0.18553379 | }{ 154 | ,0,0,0,0 | }{ 155 | ,0.68,0.46,0.55,0.65 | }{ 156 | ,0.68,0.46,0.55,0.65 | - | }},{{ 157 | ,0.68,0.47,0.56,0.65 | }{ 158 | ,0.68,0.47,0.56,0.65 | }{ 159 | ,0.68,0.46,0.55,0.65 | }{ 160 | ,0,0,0,0 | }{ 161 | ,0,0,0,0 | - | }}},{{{ 162 | ,1.566899704,1.081040749,1.45897431,1.443665704 | }{ 163 | ,0.976725675,0.502914193,0.871921533,0.851622883 | }{ 164 | ,1.482046826,0.782168488,0.99945386,1.203555051 | }{ 165 | ,0.85,0.68,0.65,0.76 | }{ 166 | ,0.798628781,0.239520858,0.503209827,0.766581547 | - | }},{{ 167 | ,0,0,0,0 | }{ 168 | ,1.141098246,0.258195131,1.0651638,0.856582783 | }{ 169 | ,0.976725675,0.565895968,0.755889609,1.150635633 | }{ 170 | ,0.85,0.68,0.65,0.75 | }{ 171 | ,1.125403302,0.88611252,0.911428974,1.496720812 | - | }},{{ 172 | ,1.68169282,0.968040559,1.099899195,1.822113278 | }{ 173 | ,0,0,0,0 | }{ 174 | ,1.566899704,1.100661785,1.295827995,1.545032445 | }{ 175 | ,0.85,0.68,0.65,0.75 | }{ 176 | ,1.35948517,1.048553951,1.242135174,1.478009492 | - | }},{{ 177 | ,1.125403302,0.584083861,1.07531714,1.231861002 | }{ 178 | ,0.798628781,0.468913405,0.843147406,0.630005348 | }{ 179 | ,0,0,0,0 | }{ 180 | ,0.85,0.68,0.65,0.75 | }{ 181 | ,0.85,0.68,0.65,0.75 | - | }},{{ 182 | ,0.85,0.68,0.65,0.75 | }{ 183 | ,0.85,0.68,0.65,0.75 | }{ 184 | ,0.85,0.68,0.65,0.75 | }{ 185 | ,0,0,0,0 | }{ 186 | }; | }}} DesignProbes.c: In function ‘designProbes._omp_fn.0’: DesignProbes.c:838:60: warning: ‘lastCycle’ may be used uninitialized [-Wmaybe-uninitialized] 838 | if (thisCycle < lastCycle) { | ^ DesignProbes.c:270:58: note: ‘lastCycle’ was declared here 270 | int MM, num, thisStart, thisEnd, lastCycle, thisCycle, cycles; | ^~~~~~~~~ gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Biostrings/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/S4Vectors/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/IRanges/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/XVector/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c Diff.c -o Diff.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Biostrings/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/S4Vectors/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/IRanges/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/XVector/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c DistanceMatrix.c -o DistanceMatrix.o DistanceMatrix.c: In function ‘firstSeqsPosEqual’: DistanceMatrix.c:1009:17: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 1009 | if (!ci) | ^~ DistanceMatrix.c:1012:25: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 1012 | while (i < ex) { | ^~~~~ DistanceMatrix.c:1031:17: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 1031 | if (!cj) | ^~ DistanceMatrix.c:1034:25: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 1034 | while (j < ey) { | ^~~~~ DistanceMatrix.c: In function ‘computeOverlap._omp_fn.0’: DistanceMatrix.c:1587:66: warning: ‘OV’ may be used uninitialized [-Wmaybe-uninitialized] 1587 | (w1 <= w2 && (double)(OV + off)/(double)w2 < coverage)))) { | ~~~~^~~~~~ DistanceMatrix.c:1096:92: note: ‘OV’ was declared here 1096 | int i, j, k, l, n, p, d, lx, new, *t, *keep, *I, *X, *OX, pos, p1, p2, t1, t2, ov, OV, off, g1, g2, g, o, count, useMax; | ^~ DistanceMatrix.c:1587:66: warning: ‘off’ may be used uninitialized [-Wmaybe-uninitialized] 1587 | (w1 <= w2 && (double)(OV + off)/(double)w2 < coverage)))) { | ~~~~^~~~~~ DistanceMatrix.c:1096:96: note: ‘off’ was declared here 1096 | int i, j, k, l, n, p, d, lx, new, *t, *keep, *I, *X, *OX, pos, p1, p2, t1, t2, ov, OV, off, g1, g2, g, o, count, useMax; | ^~~ DistanceMatrix.c:1266:53: warning: ‘one’ may be used uninitialized [-Wmaybe-uninitialized] 1266 | two != one) { | ~~~~^~~~~~ DistanceMatrix.c:1241:29: note: ‘one’ was declared here 1241 | int one, two; | ^~~ DistanceMatrix.c:1603:52: warning: ‘o’ may be used uninitialized [-Wmaybe-uninitialized] 1603 | if (o == 1) { | ^ DistanceMatrix.c:1096:112: note: ‘o’ was declared here 1096 | int i, j, k, l, n, p, d, lx, new, *t, *keep, *I, *X, *OX, pos, p1, p2, t1, t2, ov, OV, off, g1, g2, g, o, count, useMax; | ^ DistanceMatrix.c:1606:91: warning: ‘ov’ may be used uninitialized [-Wmaybe-uninitialized] 1606 | sim[i] = (double)pos/((double)(ov + count + g2)); | ~~~^~~~~~~ DistanceMatrix.c:1096:88: note: ‘ov’ was declared here 1096 | int i, j, k, l, n, p, d, lx, new, *t, *keep, *I, *X, *OX, pos, p1, p2, t1, t2, ov, OV, off, g1, g2, g, o, count, useMax; | ^~ DistanceMatrix.c: In function ‘distMatrix._omp_fn.0’: DistanceMatrix.c:137:25: warning: ‘m2’ may be used uninitialized [-Wmaybe-uninitialized] 137 | int i, j, I, J, m2, *counts; | ^~ DistanceMatrix.c:137:30: warning: ‘counts’ may be used uninitialized [-Wmaybe-uninitialized] 137 | int i, j, I, J, m2, *counts; | ^~~~~~ DistanceMatrix.c: In function ‘distMatrix’: DistanceMatrix.c:624:33: warning: ‘m’ may be used uninitialized [-Wmaybe-uninitialized] 624 | #pragma omp parallel for private(j,x_j,seqLength_j,start,end,index,width) schedule(guided) num_threads(nthreads) | ^~~ DistanceMatrix.c:545:13: note: ‘m’ was declared here 545 | int m, *lkup_row, *lkup_col; | ^ DistanceMatrix.c:545:17: warning: ‘lkup_row’ may be used uninitialized [-Wmaybe-uninitialized] 545 | int m, *lkup_row, *lkup_col; | ^~~~~~~~ DistanceMatrix.c:545:28: warning: ‘lkup_col’ may be used uninitialized [-Wmaybe-uninitialized] 545 | int m, *lkup_row, *lkup_col; | ^~~~~~~~ gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Biostrings/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/S4Vectors/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/IRanges/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/XVector/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c EnumerateSequence.c -o EnumerateSequence.o EnumerateSequence.c: In function ‘pop’: EnumerateSequence.c:546:15: warning: suggest parentheses around ‘+’ in operand of ‘&’ [-Wparentheses] 546 | x = x + (x >> 4) & 0xF0F0F0F; | ~~^~~~~~~~~~ EnumerateSequence.c: In function ‘enumerateSequence’: EnumerateSequence.c:359:17: warning: ‘mN’ may be used uninitialized [-Wmaybe-uninitialized] 359 | #pragma omp parallel for private(i,j,k,x_i,rans,sum,ambiguous) num_threads(nthreads) | ^~~ EnumerateSequence.c:318:14: note: ‘mN’ was declared here 318 | int *mN; | ^~ EnumerateSequence.c:319:13: warning: ‘tot’ may be used uninitialized [-Wmaybe-uninitialized] 319 | int tot; // total number of k-mers | ^~~ EnumerateSequence.c: In function ‘enumerateSequenceReducedAA’: EnumerateSequence.c:908:14: warning: ‘mN’ may be used uninitialized [-Wmaybe-uninitialized] 908 | int *mN; | ^~ EnumerateSequence.c:909:13: warning: ‘tot’ may be used uninitialized [-Wmaybe-uninitialized] 909 | int tot; // total number of k-mers | ^~~ gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Biostrings/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/S4Vectors/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/IRanges/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/XVector/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c ExpandAmbiguities.c -o ExpandAmbiguities.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Biostrings/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/S4Vectors/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/IRanges/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/XVector/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c FindFrameshifts.c -o FindFrameshifts.o FindFrameshifts.c: In function ‘findFrameshifts’: FindFrameshifts.c:464:43: warning: ‘rPercentComplete’ may be used uninitialized [-Wmaybe-uninitialized] 464 | *rPercentComplete = floor(100*(double)(s + 1)/f_length); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ FindFrameshifts.c:160:25: note: ‘rPercentComplete’ was declared here 160 | int before, v, *rPercentComplete; | ^~~~~~~~~~~~~~~~ In file included from /home/hornik/tmp/R-d-gcc-14/include/Rdefines.h:41, from FindFrameshifts.c:11: /home/hornik/tmp/R-d-gcc-14/include/Rinternals.h:934:33: warning: ‘percentComplete’ may be used uninitialized [-Wmaybe-uninitialized] 934 | #define eval Rf_eval FindFrameshifts.c:467:33: note: in expansion of macro ‘eval’ 467 | eval(lang4(install("setTxtProgressBar"), pBar, percentComplete, R_NilValue), utilsPackage); | ^~~~ FindFrameshifts.c:162:14: note: ‘percentComplete’ was declared here 162 | SEXP percentComplete, utilsPackage; | ^~~~~~~~~~~~~~~ /home/hornik/tmp/R-d-gcc-14/include/Rinternals.h:934:33: warning: ‘utilsPackage’ may be used uninitialized [-Wmaybe-uninitialized] 934 | #define eval Rf_eval FindFrameshifts.c:467:33: note: in expansion of macro ‘eval’ 467 | eval(lang4(install("setTxtProgressBar"), pBar, percentComplete, R_NilValue), utilsPackage); | ^~~~ FindFrameshifts.c:162:31: note: ‘utilsPackage’ was declared here 162 | SEXP percentComplete, utilsPackage; | ^~~~~~~~~~~~ FindFrameshifts.c:317:34: warning: ‘I’ may be used uninitialized [-Wmaybe-uninitialized] 317 | while (i > 0 && j > 0) { | ~~^~~ FindFrameshifts.c:135:28: note: ‘I’ was declared here 135 | int s, o, i, j, k, I, J, K, n, m, w, r, c, rc; | ^ FindFrameshifts.c:317:43: warning: ‘J’ may be used uninitialized [-Wmaybe-uninitialized] 317 | while (i > 0 && j > 0) { | ~~^~~ FindFrameshifts.c:135:31: note: ‘J’ was declared here 135 | int s, o, i, j, k, I, J, K, n, m, w, r, c, rc; | ^ FindFrameshifts.c:376:28: warning: ‘K’ may be used uninitialized [-Wmaybe-uninitialized] 376 | if (k == 1) { | ^ FindFrameshifts.c:135:34: note: ‘K’ was declared here 135 | int s, o, i, j, k, I, J, K, n, m, w, r, c, rc; | ^ gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Biostrings/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/S4Vectors/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/IRanges/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/XVector/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c GeneFinding.c -o GeneFinding.o GeneFinding.c: In function ‘scoreCodonModel’: GeneFinding.c:422:56: warning: ‘x_i.ptr’ may be used uninitialized [-Wmaybe-uninitialized] 422 | val = getBaseRC(x_i.ptr[j++]); | ^ GeneFinding.c:389:22: note: ‘x_i.ptr’ was declared here 389 | Chars_holder x_i; | ^~~ GeneFinding.c:432:57: warning: ‘lastVal’ may be used uninitialized [-Wmaybe-uninitialized] 432 | if (val < 64 && lastVal < 64) | ~~~~~~~~^~~~ GeneFinding.c:372:32: note: ‘lastVal’ was declared here 372 | int i, j, s, fin, val, lastVal, dicodon; | ^~~~~~~ GeneFinding.c: In function ‘startCodonModel’: GeneFinding.c:798:50: warning: ‘x_i.ptr’ may be used uninitialized [-Wmaybe-uninitialized] 798 | val += 16*getBase(x_i.ptr[j]); | ^ GeneFinding.c:772:22: note: ‘x_i.ptr’ was declared here 772 | Chars_holder x_i; | ^~~ GeneFinding.c: In function ‘scoreStartCodonModel’: GeneFinding.c:899:50: warning: ‘x_i.ptr’ may be used uninitialized [-Wmaybe-uninitialized] 899 | val += 16*getBase(x_i.ptr[j]); | ^ GeneFinding.c:869:22: note: ‘x_i.ptr’ was declared here 869 | Chars_holder x_i; | ^~~ GeneFinding.c: In function ‘initialCodonModel’: GeneFinding.c:952:56: warning: ‘x_i.ptr’ may be used uninitialized [-Wmaybe-uninitialized] 952 | val = getBaseRC(x_i.ptr[j++]); | ^ GeneFinding.c:929:22: note: ‘x_i.ptr’ was declared here 929 | Chars_holder x_i; | ^~~ GeneFinding.c: In function ‘scoreInitialCodonModel’: GeneFinding.c:1059:56: warning: ‘x_i.ptr’ may be used uninitialized [-Wmaybe-uninitialized] 1059 | val = getBaseRC(x_i.ptr[j++]); | ^ GeneFinding.c:1032:22: note: ‘x_i.ptr’ was declared here 1032 | Chars_holder x_i; | ^~~ GeneFinding.c: In function ‘terminationCodonModel’: GeneFinding.c:1116:56: warning: ‘x_i.ptr’ may be used uninitialized [-Wmaybe-uninitialized] 1116 | val = getBaseRC(x_i.ptr[j++]); | ^ GeneFinding.c:1093:22: note: ‘x_i.ptr’ was declared here 1093 | Chars_holder x_i; | ^~~ GeneFinding.c: In function ‘scoreTerminationCodonModel’: GeneFinding.c:1216:56: warning: ‘x_i.ptr’ may be used uninitialized [-Wmaybe-uninitialized] 1216 | val = getBaseRC(x_i.ptr[j++]); | ^ GeneFinding.c:1189:22: note: ‘x_i.ptr’ was declared here 1189 | Chars_holder x_i; | ^~~ GeneFinding.c: In function ‘getRegion’: GeneFinding.c:1317:81: warning: ‘x_i.ptr’ may be used uninitialized [-Wmaybe-uninitialized] 1317 | seq[k] = getBaseLetterRC(x_i.ptr[j--]); | ^ GeneFinding.c:1253:22: note: ‘x_i.ptr’ was declared here 1253 | Chars_holder x_i; | ^~~ GeneFinding.c:1314:51: warning: ‘x_i.length’ may be used uninitialized [-Wmaybe-uninitialized] 1314 | (s == 0 && j >= 0 && j + w <= x_i.length)) { | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ GeneFinding.c:1253:22: note: ‘x_i.length’ was declared here 1253 | Chars_holder x_i; | ^~~ GeneFinding.c: In function ‘autocorrelationModel’: GeneFinding.c:1379:56: warning: ‘x_i.ptr’ may be used uninitialized [-Wmaybe-uninitialized] 1379 | val = getBaseRC(x_i.ptr[j++]); | ^ GeneFinding.c:1351:22: note: ‘x_i.ptr’ was declared here 1351 | Chars_holder x_i; | ^~~ GeneFinding.c: In function ‘scoreAutocorrelationModel’: GeneFinding.c:1496:56: warning: ‘x_i.ptr’ may be used uninitialized [-Wmaybe-uninitialized] 1496 | val = getBaseRC(x_i.ptr[j++]); | ^ GeneFinding.c:1462:22: note: ‘x_i.ptr’ was declared here 1462 | Chars_holder x_i; | ^~~ GeneFinding.c: In function ‘couplingModel’: GeneFinding.c:1598:56: warning: ‘x_i.ptr’ may be used uninitialized [-Wmaybe-uninitialized] 1598 | val = getBaseRC(x_i.ptr[j++]); | ^ GeneFinding.c:1574:22: note: ‘x_i.ptr’ was declared here 1574 | Chars_holder x_i; | ^~~ GeneFinding.c: In function ‘scoreCouplingModel’: GeneFinding.c:1712:56: warning: ‘x_i.ptr’ may be used uninitialized [-Wmaybe-uninitialized] 1712 | val = getBaseRC(x_i.ptr[j++]); | ^ GeneFinding.c:1682:22: note: ‘x_i.ptr’ was declared here 1682 | Chars_holder x_i; | ^~~ GeneFinding.c: In function ‘nucleotideBiasModel’: GeneFinding.c:1827:56: warning: ‘x_i.ptr’ may be used uninitialized [-Wmaybe-uninitialized] 1827 | val = getBaseRC(x_i.ptr[j++]); | ^ GeneFinding.c:1789:22: note: ‘x_i.ptr’ was declared here 1789 | Chars_holder x_i; | ^~~ GeneFinding.c: In function ‘scoreNucleotideBiasModel’: GeneFinding.c:1914:56: warning: ‘x_i.ptr’ may be used uninitialized [-Wmaybe-uninitialized] 1914 | val = getBaseRC(x_i.ptr[j++]); | ^ GeneFinding.c:1883:22: note: ‘x_i.ptr’ was declared here 1883 | Chars_holder x_i; | ^~~ GeneFinding.c: In function ‘upstreamMotifModel’: GeneFinding.c:1993:75: warning: ‘x_i.ptr’ may be used uninitialized [-Wmaybe-uninitialized] 1993 | val += mult[k - 1]*getBase(x_i.ptr[j - k + 1]); | ^ GeneFinding.c:1951:22: note: ‘x_i.ptr’ was declared here 1951 | Chars_holder x_i; | ^~~ GeneFinding.c: In function ‘scoreUpstreamMotifModel’: GeneFinding.c:2093:75: warning: ‘x_i.ptr’ may be used uninitialized [-Wmaybe-uninitialized] 2093 | val += mult[k - 1]*getBase(x_i.ptr[j - k + 1]); | ^ GeneFinding.c:2058:22: note: ‘x_i.ptr’ was declared here 2058 | Chars_holder x_i; | ^~~ GeneFinding.c: In function ‘scoreRunLengthModel’: GeneFinding.c:2308:56: warning: ‘x_i.ptr’ may be used uninitialized [-Wmaybe-uninitialized] 2308 | val = getBaseRC(x_i.ptr[j++]); | ^ GeneFinding.c:2277:22: note: ‘x_i.ptr’ was declared here 2277 | Chars_holder x_i; | ^~~ GeneFinding.c: In function ‘stopCodonModel’: GeneFinding.c:2426:50: warning: ‘x_i.ptr’ may be used uninitialized [-Wmaybe-uninitialized] 2426 | val += 16*getBase(x_i.ptr[j]); | ^ GeneFinding.c:2400:22: note: ‘x_i.ptr’ was declared here 2400 | Chars_holder x_i; | ^~~ GeneFinding.c: In function ‘scoreStopCodonModel’: GeneFinding.c:2527:50: warning: ‘x_i.ptr’ may be used uninitialized [-Wmaybe-uninitialized] 2527 | val += 16*getBase(x_i.ptr[j]); | ^ GeneFinding.c:2497:22: note: ‘x_i.ptr’ was declared here 2497 | Chars_holder x_i; | ^~~ GeneFinding.c: In function ‘codonFrequencies’: GeneFinding.c:2578:56: warning: ‘x_i.ptr’ may be used uninitialized [-Wmaybe-uninitialized] 2578 | val = getBaseRC(x_i.ptr[j++]); | ^ GeneFinding.c:2555:22: note: ‘x_i.ptr’ was declared here 2555 | Chars_holder x_i; | ^~~ gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Biostrings/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/S4Vectors/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/IRanges/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/XVector/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c GetPools.c -o GetPools.o GetPools.c: In function ‘getPools’: GetPools.c:33:46: warning: format ‘%p’ expects argument of type ‘void *’, but argument 4 has type ‘SEXP’ {aka ‘struct SEXPREC *’} [-Wformat=] 33 | snprintf(buf, sizeof(buf), "%p", s); | ~^ ~ | | | | | SEXP {aka struct SEXPREC *} | void * gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Biostrings/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/S4Vectors/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/IRanges/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/XVector/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c Import.c -o Import.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Biostrings/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/S4Vectors/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/IRanges/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/XVector/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c InformationContent.c -o InformationContent.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Biostrings/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/S4Vectors/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/IRanges/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/XVector/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c IntDist.c -o IntDist.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Biostrings/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/S4Vectors/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/IRanges/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/XVector/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c ManipulateXStringSet.c -o ManipulateXStringSet.o ManipulateXStringSet.c: In function ‘mergePairs._omp_fn.0’: ManipulateXStringSet.c:1106:58: warning: ‘l2’ may be used uninitialized [-Wmaybe-uninitialized] 1106 | p2 = (l2 + pow(10, ((double)q2_i.ptr[s2 + 1] - 33)/-10))/2; | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ManipulateXStringSet.c:1087:36: note: ‘l2’ was declared here 1087 | double l1, l2; // last probability | ^~ ManipulateXStringSet.c:1096:58: warning: ‘l1’ may be used uninitialized [-Wmaybe-uninitialized] 1096 | p1 = (l1 + pow(10, ((double)q1_i.ptr[s1 + 1] - 33)/-10))/2; | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ManipulateXStringSet.c:1087:32: note: ‘l1’ was declared here 1087 | double l1, l2; // last probability | ^~ gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Biostrings/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/S4Vectors/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/IRanges/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/XVector/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c MeltPolymer.c -o MeltPolymer.o MeltPolymer.c: In function ‘meltPolymer’: MeltPolymer.c:79:27: warning: missing braces around initializer [-Wmissing-braces] 79 | double dH[4][4] = { | ^ 80 | -7.9,-8.4,-7.8,-7.2 | { 81 | ,-8.5,-8.0,-10.6,-7.8 | }{ 82 | ,-8.2,-9.8,-8.0,-8.4 | }{ 83 | ,-7.2,-8.2,-8.5,-7.9 | }{ 84 | }; | } MeltPolymer.c:88:27: warning: missing braces around initializer [-Wmissing-braces] 88 | double dS[4][4] = { | ^ 89 | -22.2,-22.4,-21.0,-20.4 | { 90 | ,-22.7,-19.9,-27.2,-21.0 | }{ 91 | ,-22.2,-24.4,-19.9,-22.4 | }{ 92 | ,-21.3,-22.2,-22.7,-22.2 | }{ 93 | }; | } MeltPolymer.c:406:25: warning: ‘ans’ may be used uninitialized [-Wmaybe-uninitialized] 406 | SET_VECTOR_ELT(ret, s, ans); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ MeltPolymer.c:53:19: note: ‘ans’ was declared here 53 | SEXP ret, ans; | ^~~ MeltPolymer.c:358:41: warning: ‘rans’ may be used uninitialized [-Wmaybe-uninitialized] 358 | *(rans + k + l*s) += 1; | ^~~~~~~~~~~~~~~~~ MeltPolymer.c:54:17: note: ‘rans’ was declared here 54 | double *rans; | ^~~~ gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Biostrings/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/S4Vectors/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/IRanges/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/XVector/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c MovingAverage.c -o MovingAverage.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Biostrings/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/S4Vectors/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/IRanges/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/XVector/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c NNLS.c -o NNLS.o NNLS.c: In function ‘NNLS’: NNLS.c:78:51: warning: ‘rPercentComplete’ may be used uninitialized [-Wmaybe-uninitialized] 78 | *rPercentComplete = floor(100*((double)i + 1)/(double)l); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ NNLS.c:40:34: note: ‘rPercentComplete’ was declared here 40 | int i, j, k, before, v, *rPercentComplete; | ^~~~~~~~~~~~~~~~ In file included from /home/hornik/tmp/R-d-gcc-14/include/Rdefines.h:41, from NNLS.c:17: /home/hornik/tmp/R-d-gcc-14/include/Rinternals.h:934:33: warning: ‘percentComplete’ may be used uninitialized [-Wmaybe-uninitialized] 934 | #define eval Rf_eval NNLS.c:82:41: note: in expansion of macro ‘eval’ 82 | eval(lang4(install("setTxtProgressBar"), pBar, percentComplete, R_NilValue), utilsPackage); | ^~~~ NNLS.c:48:14: note: ‘percentComplete’ was declared here 48 | SEXP percentComplete, utilsPackage; | ^~~~~~~~~~~~~~~ /home/hornik/tmp/R-d-gcc-14/include/Rinternals.h:934:33: warning: ‘utilsPackage’ may be used uninitialized [-Wmaybe-uninitialized] 934 | #define eval Rf_eval NNLS.c:82:41: note: in expansion of macro ‘eval’ 82 | eval(lang4(install("setTxtProgressBar"), pBar, percentComplete, R_NilValue), utilsPackage); | ^~~~ NNLS.c:48:31: note: ‘utilsPackage’ was declared here 48 | SEXP percentComplete, utilsPackage; | ^~~~~~~~~~~~ gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Biostrings/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/S4Vectors/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/IRanges/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/XVector/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c Order.c -o Order.o Order.c: In function ‘radixOrder’: Order.c:99:19: warning: ‘bounds’ may be used uninitialized [-Wmaybe-uninitialized] 99 | R_xlen_t *bounds; | ^~~~~~ gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Biostrings/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/S4Vectors/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/IRanges/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/XVector/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c PairwiseAlignment.c -o PairwiseAlignment.o PairwiseAlignment.c: In function ‘alignPair._omp_fn.0’: PairwiseAlignment.c:446:39: warning: ‘p3’ may be used uninitialized [-Wmaybe-uninitialized] 446 | p3[0] = l1; | ~~~~~~^~~~ PairwiseAlignment.c:176:24: note: ‘p3’ was declared here 176 | int *p1, *p2, *p3, *p4; | ^~ PairwiseAlignment.c:447:39: warning: ‘p4’ may be used uninitialized [-Wmaybe-uninitialized] 447 | p4[0] = l2 - j1; | ~~~~~~^~~~~~~~~ PairwiseAlignment.c:176:29: note: ‘p4’ was declared here 176 | int *p1, *p2, *p3, *p4; | ^~ PairwiseAlignment.c:450:39: warning: ‘p1’ may be used uninitialized [-Wmaybe-uninitialized] 450 | p1[0] = l2; | ~~~~~~^~~~ PairwiseAlignment.c:176:14: note: ‘p1’ was declared here 176 | int *p1, *p2, *p3, *p4; | ^~ PairwiseAlignment.c:451:39: warning: ‘p2’ may be used uninitialized [-Wmaybe-uninitialized] 451 | p2[0] = l1 - i1; | ~~~~~~^~~~~~~~~ PairwiseAlignment.c:176:19: note: ‘p2’ was declared here 176 | int *p1, *p2, *p3, *p4; | ^~ PairwiseAlignment.c: In function ‘alignPairs’: PairwiseAlignment.c:1036:25: warning: ‘rPercentComplete’ may be used uninitialized [-Wmaybe-uninitialized] 1036 | int before, v, *rPercentComplete; | ^~~~~~~~~~~~~~~~ PairwiseAlignment.c:1038:14: warning: ‘percentComplete’ may be used uninitialized [-Wmaybe-uninitialized] 1038 | SEXP percentComplete, utilsPackage; | ^~~~~~~~~~~~~~~ PairwiseAlignment.c:1038:31: warning: ‘utilsPackage’ may be used uninitialized [-Wmaybe-uninitialized] 1038 | SEXP percentComplete, utilsPackage; | ^~~~~~~~~~~~ gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Biostrings/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/S4Vectors/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/IRanges/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/XVector/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c PopulationGenetics.c -o PopulationGenetics.o PopulationGenetics.c: In function ‘correlationProfile’: PopulationGenetics.c:140:51: warning: ‘rPercentComplete’ may be used uninitialized [-Wmaybe-uninitialized] 140 | *rPercentComplete = floor(100*soFar/tot); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ PopulationGenetics.c:40:68: note: ‘rPercentComplete’ was declared here 40 | int i, j, k, p, I, J, minL, warn = NA_INTEGER, v, before, *rPercentComplete; | ^~~~~~~~~~~~~~~~ PopulationGenetics.c:140:53: warning: ‘tot’ may be used uninitialized [-Wmaybe-uninitialized] 140 | *rPercentComplete = floor(100*soFar/tot); | ^~~~~~~~~~~~~~~~~~~~ PopulationGenetics.c:41:31: note: ‘tot’ was declared here 41 | double weight, soFar, tot; | ^~~ In file included from /home/hornik/tmp/R-d-gcc-14/include/Rdefines.h:41, from PopulationGenetics.c:11: /home/hornik/tmp/R-d-gcc-14/include/Rinternals.h:934:33: warning: ‘percentComplete’ may be used uninitialized [-Wmaybe-uninitialized] 934 | #define eval Rf_eval PopulationGenetics.c:143:41: note: in expansion of macro ‘eval’ 143 | eval(lang4(install("setTxtProgressBar"), pBar, percentComplete, R_NilValue), utilsPackage); | ^~~~ PopulationGenetics.c:50:14: note: ‘percentComplete’ was declared here 50 | SEXP percentComplete, utilsPackage; | ^~~~~~~~~~~~~~~ /home/hornik/tmp/R-d-gcc-14/include/Rinternals.h:934:33: warning: ‘utilsPackage’ may be used uninitialized [-Wmaybe-uninitialized] 934 | #define eval Rf_eval PopulationGenetics.c:143:41: note: in expansion of macro ‘eval’ 143 | eval(lang4(install("setTxtProgressBar"), pBar, percentComplete, R_NilValue), utilsPackage); | ^~~~ PopulationGenetics.c:50:31: note: ‘utilsPackage’ was declared here 50 | SEXP percentComplete, utilsPackage; | ^~~~~~~~~~~~ gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Biostrings/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/S4Vectors/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/IRanges/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/XVector/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c PredictDBN.c -o PredictDBN.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Biostrings/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/S4Vectors/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/IRanges/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/XVector/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c PredictHEC.c -o PredictHEC.o PredictHEC.c: In function ‘predictHEC’: PredictHEC.c:51:31: warning: ‘rans’ may be used uninitialized [-Wmaybe-uninitialized] 51 | double HEC[N], temp, *rans; | ^~~~ PredictHEC.c:247:43: warning: ‘states’ may be used uninitialized [-Wmaybe-uninitialized] 247 | states[j] = nms[0]; | ~~~~~~~~~~^~~~~~~~ PredictHEC.c:52:15: note: ‘states’ was declared here 52 | char *states; | ^~~~~~ PredictHEC.c:273:25: warning: ‘ans’ may be used uninitialized [-Wmaybe-uninitialized] 273 | SET_VECTOR_ELT(ret, i, ans); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ PredictHEC.c:59:19: note: ‘ans’ was declared here 59 | SEXP ret, ans; | ^~~ gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Biostrings/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/S4Vectors/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/IRanges/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/XVector/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c R_init_decipher.c -o R_init_decipher.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Biostrings/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/S4Vectors/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/IRanges/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/XVector/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c S4Vectors_stubs.c -o S4Vectors_stubs.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Biostrings/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/S4Vectors/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/IRanges/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/XVector/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c Search.c -o Search.o Search.c: In function ‘searchIndex._omp_fn.0’: Search.c:578:92: warning: ‘subScores’ may be used uninitialized [-Wmaybe-uninitialized] 578 | if (lkup != NA_INTEGER && subScores[p1*l_i.length + lkup] != NA_REAL) | ^ Search.c:317:33: note: ‘subScores’ was declared here 317 | double *subScores; // substitution scores (if maxIt > 0) | ^~~~~~~~~ Search.c:449:66: warning: ‘score’ may be used uninitialized [-Wmaybe-uninitialized] 449 | score2[j] = score[o1[j]]; | ^ Search.c:282:33: note: ‘score’ was declared here 282 | double *score, *addScore, *score2, *addScore2; | ^~~~~ Search.c:450:72: warning: ‘addScore’ may be used uninitialized [-Wmaybe-uninitialized] 450 | addScore2[j] = addScore[o1[j]]; | ^ Search.c:282:41: note: ‘addScore’ was declared here 282 | double *score, *addScore, *score2, *addScore2; | ^~~~~~~~ Search.c:587:83: warning: ‘maxLen’ may be used uninitialized [-Wmaybe-uninitialized] 587 | if (deltaTarget >= maxSep + maxLen) { | ~~~~~~~^~~~~~~~ Search.c:560:45: note: ‘maxLen’ was declared here 560 | int maxLen; // maximum observed length | ^~~~~~ Search.c:555:59: warning: ‘s_j.ptr’ may be used uninitialized [-Wmaybe-uninitialized] 555 | Chars_holder p_i, s_j; | ^~~ Search.c:626:55: warning: ‘s_j.length’ may be used uninitialized [-Wmaybe-uninitialized] 626 | bound = s_j.length - 1; // right bound | ~~~~~~^~~~~~~~~~~~~~~~ Search.c:555:59: note: ‘s_j.length’ was declared here 555 | Chars_holder p_i, s_j; | ^~~ Search.c:882:59: warning: ‘s_j.ptr’ may be used uninitialized [-Wmaybe-uninitialized] 882 | Chars_holder p_i, s_j; | ^~~ Search.c:371:30: warning: ‘res’ may be used uninitialized [-Wmaybe-uninitialized] 371 | int *res; // indices of results | ^~~ Search.c:1150:72: warning: ‘len’ may be used uninitialized [-Wmaybe-uninitialized] 1150 | anchor[k++] = posQuery[p] + len[p] - 1; | ^ Search.c:370:30: note: ‘len’ was declared here 370 | int *len; // length of each hit | ^~~ Search.c:1139:58: warning: ‘chain’ may be used uninitialized [-Wmaybe-uninitialized] 1139 | while (p != chain[p]) { | ^ Search.c:369:30: note: ‘chain’ was declared here 369 | int *chain; // set of joined hits per match | ^~~~~ Search.c: In function ‘searchIndex’: Search.c:224:17: warning: ‘sM’ may be used uninitialized [-Wmaybe-uninitialized] 224 | #pragma omp parallel for private(i,j,k,p,c) schedule(dynamic) num_threads(nthreads) | ^~~ Search.c:111:17: note: ‘sM’ was declared here 111 | double *sM, dS; | ^~ Search.c:224:17: warning: ‘dS’ may be used uninitialized [-Wmaybe-uninitialized] 224 | #pragma omp parallel for private(i,j,k,p,c) schedule(dynamic) num_threads(nthreads) | ^~~ Search.c:111:21: note: ‘dS’ was declared here 111 | double *sM, dS; | ^~ Search.c:112:14: warning: ‘lkup_row’ may be used uninitialized [-Wmaybe-uninitialized] 112 | int *lkup_row, *lkup_col, *pwv; | ^~~~~~~~ Search.c:112:25: warning: ‘lkup_col’ may be used uninitialized [-Wmaybe-uninitialized] 112 | int *lkup_row, *lkup_col, *pwv; | ^~~~~~~~ Search.c:112:36: warning: ‘pwv’ may be used uninitialized [-Wmaybe-uninitialized] 112 | int *lkup_row, *lkup_col, *pwv; | ^~~ Search.c:113:17: warning: ‘scores’ may be used uninitialized [-Wmaybe-uninitialized] 113 | double *scores, *addScores; | ^~~~~~ Search.c:224:17: warning: ‘addScores’ may be used uninitialized [-Wmaybe-uninitialized] 224 | #pragma omp parallel for private(i,j,k,p,c) schedule(dynamic) num_threads(nthreads) | ^~~ Search.c:113:26: note: ‘addScores’ was declared here 113 | double *scores, *addScores; | ^~~~~~~~~ Search.c:224:17: warning: ‘rPercentComplete’ may be used uninitialized [-Wmaybe-uninitialized] 224 | #pragma omp parallel for private(i,j,k,p,c) schedule(dynamic) num_threads(nthreads) | ^~~ Search.c:174:25: note: ‘rPercentComplete’ was declared here 174 | int before, v, *rPercentComplete; | ^~~~~~~~~~~~~~~~ Search.c:176:14: warning: ‘percentComplete’ may be used uninitialized [-Wmaybe-uninitialized] 176 | SEXP percentComplete, utilsPackage; | ^~~~~~~~~~~~~~~ Search.c:176:31: warning: ‘utilsPackage’ may be used uninitialized [-Wmaybe-uninitialized] 176 | SEXP percentComplete, utilsPackage; | ^~~~~~~~~~~~ Search.c:224:17: warning: ‘matrices’ may be used uninitialized [-Wmaybe-uninitialized] 224 | #pragma omp parallel for private(i,j,k,p,c) schedule(dynamic) num_threads(nthreads) | ^~~ Search.c:217:16: note: ‘matrices’ was declared here 217 | int ***matrices; | ^~~~~~~~ gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Biostrings/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/S4Vectors/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/IRanges/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/XVector/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c TerminalMismatch.c -o TerminalMismatch.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Biostrings/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/S4Vectors/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/IRanges/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/XVector/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c Translate.c -o Translate.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Biostrings/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/S4Vectors/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/IRanges/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/XVector/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c Utils.c -o Utils.o Utils.c: In function ‘splitPartitions’: Utils.c:990:35: warning: ‘change’ may be used uninitialized [-Wmaybe-uninitialized] 990 | } else if (change - j >= m && // large enough partition | ~~~~~~~^~~ Utils.c:984:13: note: ‘change’ was declared here 984 | int change; // index before start of partition | ^~~~~~ Utils.c: In function ‘matchColumns’: Utils.c:1198:55: warning: ‘lkup’ may be used uninitialized [-Wmaybe-uninitialized] 1198 | int val = lkup[(unsigned char)x_i.ptr[o[j]]]; | ^ Utils.c:1130:14: note: ‘lkup’ was declared here 1130 | int *lkup; | ^~~~ gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Biostrings/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/S4Vectors/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/IRanges/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/XVector/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c VectorSums.c -o VectorSums.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Biostrings/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/S4Vectors/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/IRanges/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/XVector/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c XVector_stubs.c -o XVector_stubs.o gcc-14 -std=gnu23 -shared -L/home/hornik/tmp/R-d-gcc-14/lib -Wl,-O1 -o DECIPHER.so AlignProfiles.o AssignIndels.o Biostrings_stubs.o CalculateDeltaG.o CalculateFISH.o ChainSegments.o Cluster.o ClusterME.o ClusterML.o ClusterMP.o Compositions.o Compression.o ConsensusSequence.o DesignProbes.o Diff.o DistanceMatrix.o EnumerateSequence.o ExpandAmbiguities.o FindFrameshifts.o GeneFinding.o GetPools.o Import.o InformationContent.o IntDist.o ManipulateXStringSet.o MeltPolymer.o MovingAverage.o NNLS.o Order.o PairwiseAlignment.o PopulationGenetics.o PredictDBN.o PredictHEC.o R_init_decipher.o S4Vectors_stubs.o Search.o TerminalMismatch.o Translate.o Utils.o VectorSums.o XVector_stubs.o -fopenmp -L/home/hornik/tmp/R-d-gcc-14/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/Rtmpd7EIJw/R.INSTALL3169af85b1db5/DECIPHER/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-DECIPHER/00new/DECIPHER/libs ** R ** data ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (DECIPHER) * installing *source* package ‘GLAD’ ... ** this is package ‘GLAD’ version ‘2.72.0’ ** using staged installation checking for pkg-config... /usr/bin/pkg-config checking pkg-config is at least version 0.9.0... yes checking for GSL... yes GSL has been found on the operating system operating system: Linux configure: creating ./config.status config.status: creating src/Makevars src/Makevars file PKG_LIBS = -lgsl -lgslcblas -lm PKG_CPPFLAGS = -I/usr/local/include ** libs using C compiler: ‘gcc-14 (Debian 14.2.0-19) 14.2.0’ using C++ compiler: ‘g++-14 (Debian 14.2.0-19) 14.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpNaCyy7/R.INSTALL318c6310c4c598/GLAD/src' g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c BkpInfo.cpp -o BkpInfo.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c HaarSeg.cpp -o HaarSeg.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c MoveBkp.cpp -o MoveBkp.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c OutliersGNL.cpp -o OutliersGNL.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c chrBreakpoints.cpp -o chrBreakpoints.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c cutree.cpp -o cutree.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c daglad.cpp -o daglad.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c distance.cpp -o distance.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c filterBkp.cpp -o filterBkp.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c findCluster.cpp -o findCluster.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c glad-utils.cpp -o glad-utils.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c hclust.cpp -o hclust.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c laws.c -o laws.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c loopRemove.cpp -o loopRemove.o g++-14 -std=gnu++17 -shared -L/home/hornik/tmp/R-d-gcc-14/lib -Wl,-O1 -o GLAD.so BkpInfo.o HaarSeg.o MoveBkp.o OutliersGNL.o chrBreakpoints.o cutree.o daglad.o distance.o filterBkp.o findCluster.o glad-utils.o hclust.o laws.o loopRemove.o -lgsl -lgslcblas -lm -L/home/hornik/tmp/R-d-gcc-14/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpNaCyy7/R.INSTALL318c6310c4c598/GLAD/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-GLAD/00new/GLAD/libs ** R ** data ** demo ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (GLAD) * installing *source* package ‘Spectra’ ... ** this is package ‘Spectra’ version ‘1.18.2’ ** using staged installation ** R ** data ** inst ** byte-compile and prepare package for lazy loading Creating a new generic function for ‘entropy’ in package ‘Spectra’ ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (Spectra) * installing *source* package ‘taxize’ ... ** this is package ‘taxize’ version ‘0.10.0’ ** package ‘taxize’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** data *** moving datasets to lazyload DB ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (taxize) begin installing package ‘metacoder’ * installing *source* package ‘PSCBS’ ... ** this is package ‘PSCBS’ version ‘0.68.0’ ** package ‘PSCBS’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (PSCBS) * installing *source* package ‘mapedit’ ... ** this is package ‘mapedit’ version ‘0.7.0’ ** package ‘mapedit’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (mapedit) * installing *source* package ‘bdc’ ... ** this is package ‘bdc’ version ‘1.1.5’ ** package ‘bdc’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (bdc) * installing *source* package ‘ensembldb’ ... ** this is package ‘ensembldb’ version ‘2.32.0’ ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading Creating a generic function from function ‘.cds_for_id2’ in package ‘ensembldb’ ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (ensembldb) begin installing package ‘biovizBase’ * installing *source* package ‘netdiffuseR’ ... ** this is package ‘netdiffuseR’ version ‘1.22.6’ ** package ‘netdiffuseR’ successfully unpacked and MD5 sums checked ** using staged installation checking whether the C++ compiler works... yes checking for C++ compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... no checking for suffix of object files... o checking whether we are using the GNU C++ compiler... yes checking whether g++-14 -std=gnu++17 accepts -g... yes checking how to run the C++ preprocessor... g++-14 -std=gnu++17 -E checking for g++-14 -std=gnu++17 option to support OpenMP... -fopenmp configure: creating ./config.status config.status: creating src/Makevars ** libs using C++ compiler: ‘g++-14 (Debian 14.2.0-19) 14.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpuS9M0X/R.INSTALL3162e257559021/netdiffuseR/src' g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -DARMA_64BIT_WORD -DSTRICT_R_HEADERS -fpic -g -O2 -Wall -pedantic -mtune=native -c RcppExports.cpp -o RcppExports.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -DARMA_64BIT_WORD -DSTRICT_R_HEADERS -fpic -g -O2 -Wall -pedantic -mtune=native -c adjmat.cpp -o adjmat.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -DARMA_64BIT_WORD -DSTRICT_R_HEADERS -fpic -g -O2 -Wall -pedantic -mtune=native -c infection.cpp -o infection.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -DARMA_64BIT_WORD -DSTRICT_R_HEADERS -fpic -g -O2 -Wall -pedantic -mtune=native -c netdiffuser_extra.cpp -o netdiffuser_extra.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -DARMA_64BIT_WORD -DSTRICT_R_HEADERS -fpic -g -O2 -Wall -pedantic -mtune=native -c plot.cpp -o plot.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -DARMA_64BIT_WORD -DSTRICT_R_HEADERS -fpic -g -O2 -Wall -pedantic -mtune=native -c rgraph.cpp -o rgraph.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -DARMA_64BIT_WORD -DSTRICT_R_HEADERS -fpic -g -O2 -Wall -pedantic -mtune=native -c stats.cpp -o stats.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -DARMA_64BIT_WORD -DSTRICT_R_HEADERS -fpic -g -O2 -Wall -pedantic -mtune=native -c struct_test.cpp -o struct_test.o g++-14 -std=gnu++17 -shared -L/home/hornik/tmp/R-d-gcc-14/lib -Wl,-O1 -o netdiffuseR.so RcppExports.o adjmat.o infection.o netdiffuser_extra.o plot.o rgraph.o stats.o struct_test.o -llapack -L/home/hornik/tmp/R-d-gcc-14/lib -lRblas -lgfortran -lm -lquadmath -fopenmp -L/home/hornik/tmp/R-d-gcc-14/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpuS9M0X/R.INSTALL3162e257559021/netdiffuseR/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-netdiffuseR/00new/netdiffuseR/libs ** R ** data *** moving datasets to lazyload DB ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (netdiffuseR) * installing *source* package ‘beadarray’ ... ** this is package ‘beadarray’ version ‘2.58.0’ ** using staged installation ** libs using C compiler: ‘gcc-14 (Debian 14.2.0-19) 14.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/Rtmp8OuBac/R.INSTALL318f28faa520d/beadarray/src' gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c BASH.c -o BASH.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c HULK.c -o HULK.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c determiningGridPositions.c -o determiningGridPositions.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c findAllOutliers.c -o findAllOutliers.o findAllOutliers.c: In function ‘findBeadStatus’: findAllOutliers.c:196:35: warning: ‘m’ may be used uninitialized [-Wmaybe-uninitialized] 196 | if((inten[k] < (m + *nmads*ma)) && (inten[k] > (m - *nmads*ma))){ | ~~~^~~~~~~~~~~~ findAllOutliers.c:155:16: note: ‘m’ was declared here 155 | double m, ma; | ^ findAllOutliers.c:189:15: warning: ‘ma’ may be used uninitialized [-Wmaybe-uninitialized] 189 | if(ma==0) { | ^ findAllOutliers.c:155:19: note: ‘ma’ was declared here 155 | double m, ma; | ^~ findAllOutliers.c: In function ‘findAllOutliers’: findAllOutliers.c:246:20: warning: ‘status’ may be used uninitialized [-Wmaybe-uninitialized] 246 | free(status->validInds); | ~~~~~~^~~~~~~~~~~ findAllOutliers.c:226:27: note: ‘status’ was declared here 226 | beadStatusStruct *status; | ^~~~~~ gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c imageProcessing.c -o imageProcessing.o imageProcessing.c: In function ‘illuminaBackground’: imageProcessing.c:88: warning: ignoring ‘#pragma omp parallel’ [-Wunknown-pragmas] 88 | #pragma omp parallel shared(nthreads, nbeads, imageHeight, pixelMatrix, coords) private(tid, start, end) imageProcessing.c: In function ‘medianBackground’: imageProcessing.c:135: warning: ignoring ‘#pragma omp parallel’ [-Wunknown-pragmas] 135 | #pragma omp parallel shared(nthreads, nbeads, imageHeight, pixelMatrix, coords) private(tid, start, end) imageProcessing.c: In function ‘illuminaSharpen’: imageProcessing.c:244: warning: ignoring ‘#pragma omp parallel’ [-Wunknown-pragmas] 244 | #pragma omp parallel for private(i, j) shared(sharpened) num_threads(2) imageProcessing.c:251: warning: ignoring ‘#pragma omp parallel’ [-Wunknown-pragmas] 251 | #pragma omp parallel for private(i, j, sum) shared(sharpened) num_threads(2) gcc-14 -std=gnu23 -shared -L/home/hornik/tmp/R-d-gcc-14/lib -Wl,-O1 -o beadarray.so BASH.o HULK.o determiningGridPositions.o findAllOutliers.o imageProcessing.o -L/home/hornik/tmp/R-d-gcc-14/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/Rtmp8OuBac/R.INSTALL318f28faa520d/beadarray/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-beadarray/00new/beadarray/libs ** R ** data *** moving datasets to lazyload DB ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (beadarray) * installing *source* package ‘ShortRead’ ... ** this is package ‘ShortRead’ version ‘1.66.0’ ** using staged installation checking for gcc... gcc-14 -std=gnu23 checking whether the C compiler works... yes checking for C compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... no checking for suffix of object files... o checking whether we are using the GNU C compiler... yes checking whether gcc-14 -std=gnu23 accepts -g... yes checking for gcc-14 -std=gnu23 option to accept ISO C89... none needed checking for gzeof in -lz... yes checking how to run the C preprocessor... gcc-14 -std=gnu23 -E checking for grep that handles long lines and -e... /usr/bin/grep checking for egrep... /usr/bin/grep -E checking for ANSI C header files... yes checking for sys/types.h... yes checking for sys/stat.h... yes checking for stdlib.h... yes checking for string.h... yes checking for memory.h... yes checking for strings.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for unistd.h... yes checking size of unsigned long... 8 configure: creating ./config.status config.status: creating src/Makevars ** libs using C compiler: ‘gcc-14 (Debian 14.2.0-19) 14.2.0’ using C++ compiler: ‘g++-14 (Debian 14.2.0-19) 14.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpaN1lwk/R.INSTALL3181246a0a20e5/ShortRead/src' gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/S4Vectors/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/IRanges/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/XVector/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Biostrings/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhtslib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c Biostrings_stubs.c -o Biostrings_stubs.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/S4Vectors/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/IRanges/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/XVector/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Biostrings/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhtslib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c IRanges_stubs.c -o IRanges_stubs.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/S4Vectors/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/IRanges/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/XVector/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Biostrings/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhtslib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c R_init_ShortRead.c -o R_init_ShortRead.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/S4Vectors/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/IRanges/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/XVector/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Biostrings/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhtslib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c S4Vectors_stubs.c -o S4Vectors_stubs.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/S4Vectors/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/IRanges/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/XVector/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Biostrings/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhtslib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c XVector_stubs.c -o XVector_stubs.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/S4Vectors/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/IRanges/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/XVector/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Biostrings/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhtslib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c alphabet.c -o alphabet.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/S4Vectors/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/IRanges/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/XVector/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Biostrings/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhtslib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c count.c -o count.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/S4Vectors/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/IRanges/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/XVector/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Biostrings/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhtslib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c io.c -o io.o io.c: In function ‘read_prb_as_character’: io.c:227:38: warning: format ‘%f’ expects argument of type ‘double’, but argument 2 has type ‘const char *’ [-Wformat=] 227 | error("could not read file '%f'", translateChar(STRING_ELT(fname, 0))); | ~^ | | | double | %s io.c: In function ‘_read_solexa_export_file’: io.c:658:49: warning: format ‘%s’ expects argument of type ‘char *’, but argument 2 has type ‘int’ [-Wformat=] 658 | error("invalid 'strand' field '%s', %s:%d", | ~^ | | | char * | %d 659 | *elt[13], fname, lineno); | ~~~~~~~~ | | | int io.c:676:48: warning: format ‘%s’ expects argument of type ‘char *’, but argument 2 has type ‘int’ [-Wformat=] 676 | error("invalid 'filtering' field '%s', %s:%d", | ~^ | | | char * | %d 677 | *elt[21], fname, lineno); | ~~~~~~~~ | | | int gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/S4Vectors/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/IRanges/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/XVector/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Biostrings/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhtslib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c io_bowtie.c -o io_bowtie.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/S4Vectors/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/IRanges/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/XVector/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Biostrings/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhtslib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c io_soap.c -o io_soap.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/S4Vectors/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/IRanges/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/XVector/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Biostrings/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhtslib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DHAVE_LIBZ=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DSIZEOF_UNSIGNED_LONG=8 -fpic -g -O2 -Wall -pedantic -mtune=native -c readBfaToc.cc -o readBfaToc.o readBfaToc.cc: In function ‘SEXPREC* readBfaToc(SEXP)’: readBfaToc.cc:35:19: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 35 | (void) fread( seq_name, sizeof(char), name_len, fp ); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ readBfaToc.cc:36:19: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 36 | (void) fread( &seq_ori_len, sizeof(int), 1, fp ); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ readBfaToc.cc:37:19: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 37 | (void) fread( &seq_len, sizeof(int), 1, fp ); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/S4Vectors/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/IRanges/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/XVector/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Biostrings/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhtslib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DHAVE_LIBZ=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DSIZEOF_UNSIGNED_LONG=8 -fpic -g -O2 -Wall -pedantic -mtune=native -c read_maq_map.cc -o read_maq_map.o In file included from read_maq_map.cc:13: maqmap_m.h: In function ‘maqmap_T* maqmap_read_header(gzFile) [with int max_readlen = 128]’: maqmap_m.h:102:21: warning: pointer ‘mm’ used after ‘void free(void*)’ [-Wuse-after-free] 102 | Rf_error("MAQ format '%d' not supported", mm->format); | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘void maq_delete_maqmap(maqmap_T*) [with int max_readlen = 128]’, inlined from ‘void maq_delete_maqmap(maqmap_T*) [with int max_readlen = 128]’ at maqmap_m.h:74:35, inlined from ‘maqmap_T* maqmap_read_header(gzFile) [with int max_readlen = 128]’ at maqmap_m.h:101:30: maqmap_m.h:84:14: note: call to ‘void free(void*)’ here 84 | std::free(mm); | ~~~~~~~~~^~~~ maqmap_m.h: In function ‘maqmap_T* maqmap_read_header(gzFile) [with int max_readlen = 64]’: maqmap_m.h:102:21: warning: pointer ‘mm’ used after ‘void free(void*)’ [-Wuse-after-free] 102 | Rf_error("MAQ format '%d' not supported", mm->format); | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘void maq_delete_maqmap(maqmap_T*) [with int max_readlen = 64]’, inlined from ‘void maq_delete_maqmap(maqmap_T*) [with int max_readlen = 64]’ at maqmap_m.h:74:35, inlined from ‘maqmap_T* maqmap_read_header(gzFile) [with int max_readlen = 64]’ at maqmap_m.h:101:30: maqmap_m.h:84:14: note: call to ‘void free(void*)’ here 84 | std::free(mm); | ~~~~~~~~~^~~~ gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/S4Vectors/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/IRanges/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/XVector/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Biostrings/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhtslib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c sampler.c -o sampler.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/S4Vectors/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/IRanges/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/XVector/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Biostrings/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhtslib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c trim.c -o trim.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/S4Vectors/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/IRanges/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/XVector/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Biostrings/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhtslib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c util.c -o util.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/S4Vectors/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/IRanges/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/XVector/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Biostrings/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhtslib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c xsnap.c -o xsnap.o g++-14 -std=gnu++17 -shared -L/home/hornik/tmp/R-d-gcc-14/lib -Wl,-O1 -o ShortRead.so Biostrings_stubs.o IRanges_stubs.o R_init_ShortRead.o S4Vectors_stubs.o XVector_stubs.o alphabet.o count.o io.o io_bowtie.o io_soap.o readBfaToc.o read_maq_map.o sampler.o trim.o util.o xsnap.o -lz -fopenmp -L/home/hornik/tmp/R-d-gcc-14/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpaN1lwk/R.INSTALL3181246a0a20e5/ShortRead/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-ShortRead/00new/ShortRead/libs ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (ShortRead) begin installing package ‘dada2’ * installing *source* package ‘scater’ ... ** this is package ‘scater’ version ‘1.36.0’ ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (scater) begin installing package ‘mia’ * installing *source* package ‘splatter’ ... ** this is package ‘splatter’ version ‘1.32.0’ ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (splatter) * installing *source* package ‘ddalpha’ ... ** this is package ‘ddalpha’ version ‘1.3.16’ ** package ‘ddalpha’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C compiler: ‘gcc-14 (Debian 14.2.0-19) 14.2.0’ using Fortran compiler: ‘GNU Fortran (Debian 14.2.0-19) 14.2.0’ using C++ compiler: ‘g++-14 (Debian 14.2.0-19) 14.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpjS9kDd/R.INSTALL31723d6499329c/ddalpha/src' g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c AlphaProcedure.cpp -o AlphaProcedure.o In file included from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/aux_/na_assert.hpp:23, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/arg.hpp:25, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/placeholders.hpp:24, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/apply.hpp:24, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/serialization/array_optimization.hpp:18, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/serialization/array_wrapper.hpp:21, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/serialization/array.hpp:26, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/numeric/ublas/storage.hpp:22, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/numeric/ublas/vector.hpp:21, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/numeric/ublas/matrix.hpp:18, from stdafx.h:21, from AlphaProcedure.cpp:14: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/assert.hpp:194:21: warning: unnecessary parentheses in declaration of ‘assert_arg’ [-Wparentheses] 194 | failed ************ (Pred::************ | ^~~~~~~~~~~~~~~~~~~ 195 | assert_arg( void (*)(Pred), typename assert_arg_pred::type ) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 196 | ); | ~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/assert.hpp:194:21: note: remove parentheses 194 | failed ************ (Pred::************ | ^~~~~~~~~~~~~~~~~~~ | - 195 | assert_arg( void (*)(Pred), typename assert_arg_pred::type ) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 196 | ); | ~ | - /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/assert.hpp:199:21: warning: unnecessary parentheses in declaration of ‘assert_not_arg’ [-Wparentheses] 199 | failed ************ (boost::mpl::not_::************ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 200 | assert_not_arg( void (*)(Pred), typename assert_arg_pred_not::type ) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 201 | ); | ~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/assert.hpp:199:21: note: remove parentheses 199 | failed ************ (boost::mpl::not_::************ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ | - 200 | assert_not_arg( void (*)(Pred), typename assert_arg_pred_not::type ) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 201 | ); | ~ | - g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c BandDepth.cpp -o BandDepth.o In file included from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/aux_/na_assert.hpp:23, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/arg.hpp:25, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/placeholders.hpp:24, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/apply.hpp:24, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/serialization/array_optimization.hpp:18, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/serialization/array_wrapper.hpp:21, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/serialization/array.hpp:26, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/numeric/ublas/storage.hpp:22, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/numeric/ublas/vector.hpp:21, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/numeric/ublas/matrix.hpp:18, from stdafx.h:21, from BandDepth.cpp:1: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/assert.hpp:194:21: warning: unnecessary parentheses in declaration of ‘assert_arg’ [-Wparentheses] 194 | failed ************ (Pred::************ | ^~~~~~~~~~~~~~~~~~~ 195 | assert_arg( void (*)(Pred), typename assert_arg_pred::type ) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 196 | ); | ~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/assert.hpp:194:21: note: remove parentheses 194 | failed ************ (Pred::************ | ^~~~~~~~~~~~~~~~~~~ | - 195 | assert_arg( void (*)(Pred), typename assert_arg_pred::type ) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 196 | ); | ~ | - /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/assert.hpp:199:21: warning: unnecessary parentheses in declaration of ‘assert_not_arg’ [-Wparentheses] 199 | failed ************ (boost::mpl::not_::************ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 200 | assert_not_arg( void (*)(Pred), typename assert_arg_pred_not::type ) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 201 | ); | ~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/assert.hpp:199:21: note: remove parentheses 199 | failed ************ (boost::mpl::not_::************ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ | - 200 | assert_not_arg( void (*)(Pred), typename assert_arg_pred_not::type ) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 201 | ); | ~ | - In file included from /usr/include/string.h:548, from /usr/include/c++/14/cstring:43, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/core/bit.hpp:22, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/integer/integer_log2.hpp:24, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/random/detail/integer_log2.hpp:19, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/random/detail/large_arithmetic.hpp:19, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/random/detail/const_mod.hpp:23, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/random/linear_congruential.hpp:28, from stdafx.h:24: In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘void BandDepth(T3DMatrix, T3DMatrix, int, int, int, int, bool, int, double*)’ at BandDepth.cpp:43:15: /usr/include/x86_64-linux-gnu/bits/string_fortified.h:29:33: warning: ‘void* __builtin___memcpy_chk(void*, const void*, long unsigned int, long unsigned int)’ specified bound 18446744073709551608 exceeds maximum object size 9223372036854775807 [-Wstringop-overflow=] 29 | return __builtin___memcpy_chk (__dest, __src, __len, | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 30 | __glibc_objsize0 (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c Common.cpp -o Common.o In file included from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/aux_/na_assert.hpp:23, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/arg.hpp:25, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/placeholders.hpp:24, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/apply.hpp:24, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/serialization/array_optimization.hpp:18, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/serialization/array_wrapper.hpp:21, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/serialization/array.hpp:26, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/numeric/ublas/storage.hpp:22, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/numeric/ublas/vector.hpp:21, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/numeric/ublas/matrix.hpp:18, from stdafx.h:21, from Common.cpp:10: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/assert.hpp:194:21: warning: unnecessary parentheses in declaration of ‘assert_arg’ [-Wparentheses] 194 | failed ************ (Pred::************ | ^~~~~~~~~~~~~~~~~~~ 195 | assert_arg( void (*)(Pred), typename assert_arg_pred::type ) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 196 | ); | ~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/assert.hpp:194:21: note: remove parentheses 194 | failed ************ (Pred::************ | ^~~~~~~~~~~~~~~~~~~ | - 195 | assert_arg( void (*)(Pred), typename assert_arg_pred::type ) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 196 | ); | ~ | - /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/assert.hpp:199:21: warning: unnecessary parentheses in declaration of ‘assert_not_arg’ [-Wparentheses] 199 | failed ************ (boost::mpl::not_::************ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 200 | assert_not_arg( void (*)(Pred), typename assert_arg_pred_not::type ) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 201 | ); | ~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/assert.hpp:199:21: note: remove parentheses 199 | failed ************ (boost::mpl::not_::************ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ | - 200 | assert_not_arg( void (*)(Pred), typename assert_arg_pred_not::type ) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 201 | ); | ~ | - Common.cpp: In function ‘double determinant(bMatrix&)’: Common.cpp:164:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘boost::numeric::ublas::vector >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 164 | for (int i = 0; i < pivots.size(); ++i) | ~~^~~~~~~~~~~~~~~ Common.cpp:166:31: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘int’ [-Wsign-compare] 166 | if (pivots(i) != i) | ~~~~~~~~~~^~~~ Common.cpp: In function ‘void outVector(TPoint&)’: Common.cpp:270:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 270 | for (int j = 0; j < point.size(); j++){ | ~~^~~~~~~~~~~~~~ Common.cpp: In function ‘void outMatrix(TMatrix&)’: Common.cpp:280:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 280 | for (int i = 0; i < points.size(); i++){ | ~~^~~~~~~~~~~~~~~ Common.cpp:282:35: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 282 | for (int j = 0; j < points[i].size(); j++){ | ~~^~~~~~~~~~~~~~~~~~ Common.cpp: In function ‘void outFeatures(Features)’: Common.cpp:294:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 294 | for (int i = 0; i < fs.size(); i++){ | ~~^~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c DKnn.cpp -o DKnn.o In file included from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/aux_/na_assert.hpp:23, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/arg.hpp:25, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/placeholders.hpp:24, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/apply.hpp:24, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/serialization/array_optimization.hpp:18, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/serialization/array_wrapper.hpp:21, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/serialization/array.hpp:26, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/numeric/ublas/storage.hpp:22, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/numeric/ublas/vector.hpp:21, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/numeric/ublas/matrix.hpp:18, from stdafx.h:21, from DKnn.cpp:10: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/assert.hpp:194:21: warning: unnecessary parentheses in declaration of ‘assert_arg’ [-Wparentheses] 194 | failed ************ (Pred::************ | ^~~~~~~~~~~~~~~~~~~ 195 | assert_arg( void (*)(Pred), typename assert_arg_pred::type ) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 196 | ); | ~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/assert.hpp:194:21: note: remove parentheses 194 | failed ************ (Pred::************ | ^~~~~~~~~~~~~~~~~~~ | - 195 | assert_arg( void (*)(Pred), typename assert_arg_pred::type ) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 196 | ); | ~ | - /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/assert.hpp:199:21: warning: unnecessary parentheses in declaration of ‘assert_not_arg’ [-Wparentheses] 199 | failed ************ (boost::mpl::not_::************ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 200 | assert_not_arg( void (*)(Pred), typename assert_arg_pred_not::type ) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 201 | ); | ~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/assert.hpp:199:21: note: remove parentheses 199 | failed ************ (boost::mpl::not_::************ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ | - 200 | assert_not_arg( void (*)(Pred), typename assert_arg_pred_not::type ) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 201 | ); | ~ | - DKnn.cpp: In function ‘void knnGetClasses(TDMatrix, int*, int, int, int, TDMatrix, int, int, bool, int, int*)’: DKnn.cpp:76:28: warning: ‘ptPrjDepths’ may be used uninitialized [-Wmaybe-uninitialized] 76 | CountDepths(reflected, learnlabels, nlearn * 2, d, learnpoints, nlearn, | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 77 | depthType, depths, tempDepths, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 78 | car, dirs, prjs, ptPrjDepths, ndir // halfspace | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 79 | ); | ~ DKnn.cpp:64:18: note: ‘ptPrjDepths’ was declared here 64 | TDMatrix ptPrjDepths; if (depthType == 1) ptPrjDepths = newM(ndir, 1); | ^~~~~~~~~~~ DKnn.cpp:76:28: warning: ‘prjs’ may be used uninitialized [-Wmaybe-uninitialized] 76 | CountDepths(reflected, learnlabels, nlearn * 2, d, learnpoints, nlearn, | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 77 | depthType, depths, tempDepths, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 78 | car, dirs, prjs, ptPrjDepths, ndir // halfspace | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 79 | ); | ~ DKnn.cpp:63:18: note: ‘prjs’ was declared here 63 | TDMatrix prjs; if (depthType == 1) prjs = newM(ndir, nlearn * 2); | ^~~~ DKnn.cpp:76:28: warning: ‘dirs’ may be used uninitialized [-Wmaybe-uninitialized] 76 | CountDepths(reflected, learnlabels, nlearn * 2, d, learnpoints, nlearn, | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 77 | depthType, depths, tempDepths, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 78 | car, dirs, prjs, ptPrjDepths, ndir // halfspace | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 79 | ); | ~ DKnn.cpp:62:18: note: ‘dirs’ was declared here 62 | TDMatrix dirs; if (depthType == 1) dirs = newM(ndir, d); | ^~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c HD.cpp -o HD.o In file included from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/aux_/na_assert.hpp:23, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/arg.hpp:25, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/placeholders.hpp:24, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/apply.hpp:24, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/serialization/array_optimization.hpp:18, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/serialization/array_wrapper.hpp:21, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/serialization/array.hpp:26, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/numeric/ublas/storage.hpp:22, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/numeric/ublas/vector.hpp:21, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/numeric/ublas/matrix.hpp:18, from stdafx.h:21, from HD.cpp:12: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/assert.hpp:194:21: warning: unnecessary parentheses in declaration of ‘assert_arg’ [-Wparentheses] 194 | failed ************ (Pred::************ | ^~~~~~~~~~~~~~~~~~~ 195 | assert_arg( void (*)(Pred), typename assert_arg_pred::type ) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 196 | ); | ~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/assert.hpp:194:21: note: remove parentheses 194 | failed ************ (Pred::************ | ^~~~~~~~~~~~~~~~~~~ | - 195 | assert_arg( void (*)(Pred), typename assert_arg_pred::type ) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 196 | ); | ~ | - /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/assert.hpp:199:21: warning: unnecessary parentheses in declaration of ‘assert_not_arg’ [-Wparentheses] 199 | failed ************ (boost::mpl::not_::************ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 200 | assert_not_arg( void (*)(Pred), typename assert_arg_pred_not::type ) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 201 | ); | ~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/assert.hpp:199:21: note: remove parentheses 199 | failed ************ (boost::mpl::not_::************ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ | - 200 | assert_not_arg( void (*)(Pred), typename assert_arg_pred_not::type ) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 201 | ); | ~ | - g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c Knn.cpp -o Knn.o In file included from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/aux_/na_assert.hpp:23, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/arg.hpp:25, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/placeholders.hpp:24, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/apply.hpp:24, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/serialization/array_optimization.hpp:18, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/serialization/array_wrapper.hpp:21, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/serialization/array.hpp:26, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/numeric/ublas/storage.hpp:22, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/numeric/ublas/vector.hpp:21, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/numeric/ublas/matrix.hpp:18, from stdafx.h:21, from Knn.cpp:10: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/assert.hpp:194:21: warning: unnecessary parentheses in declaration of ‘assert_arg’ [-Wparentheses] 194 | failed ************ (Pred::************ | ^~~~~~~~~~~~~~~~~~~ 195 | assert_arg( void (*)(Pred), typename assert_arg_pred::type ) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 196 | ); | ~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/assert.hpp:194:21: note: remove parentheses 194 | failed ************ (Pred::************ | ^~~~~~~~~~~~~~~~~~~ | - 195 | assert_arg( void (*)(Pred), typename assert_arg_pred::type ) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 196 | ); | ~ | - /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/assert.hpp:199:21: warning: unnecessary parentheses in declaration of ‘assert_not_arg’ [-Wparentheses] 199 | failed ************ (boost::mpl::not_::************ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 200 | assert_not_arg( void (*)(Pred), typename assert_arg_pred_not::type ) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 201 | ); | ~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/assert.hpp:199:21: note: remove parentheses 199 | failed ************ (boost::mpl::not_::************ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ | - 200 | assert_not_arg( void (*)(Pred), typename assert_arg_pred_not::type ) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 201 | ); | ~ | - g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c LensDepth.cpp -o LensDepth.o In file included from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/aux_/na_assert.hpp:23, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/arg.hpp:25, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/placeholders.hpp:24, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/apply.hpp:24, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/serialization/array_optimization.hpp:18, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/serialization/array_wrapper.hpp:21, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/serialization/array.hpp:26, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/numeric/ublas/storage.hpp:22, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/numeric/ublas/vector.hpp:21, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/numeric/ublas/matrix.hpp:18, from stdafx.h:21, from LensDepth.cpp:15: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/assert.hpp:194:21: warning: unnecessary parentheses in declaration of ‘assert_arg’ [-Wparentheses] 194 | failed ************ (Pred::************ | ^~~~~~~~~~~~~~~~~~~ 195 | assert_arg( void (*)(Pred), typename assert_arg_pred::type ) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 196 | ); | ~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/assert.hpp:194:21: note: remove parentheses 194 | failed ************ (Pred::************ | ^~~~~~~~~~~~~~~~~~~ | - 195 | assert_arg( void (*)(Pred), typename assert_arg_pred::type ) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 196 | ); | ~ | - /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/assert.hpp:199:21: warning: unnecessary parentheses in declaration of ‘assert_not_arg’ [-Wparentheses] 199 | failed ************ (boost::mpl::not_::************ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 200 | assert_not_arg( void (*)(Pred), typename assert_arg_pred_not::type ) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 201 | ); | ~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/assert.hpp:199:21: note: remove parentheses 199 | failed ************ (boost::mpl::not_::************ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ | - 200 | assert_not_arg( void (*)(Pred), typename assert_arg_pred_not::type ) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 201 | ); | ~ | - g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c Mahalanobis.cpp -o Mahalanobis.o In file included from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/aux_/na_assert.hpp:23, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/arg.hpp:25, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/placeholders.hpp:24, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/apply.hpp:24, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/serialization/array_optimization.hpp:18, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/serialization/array_wrapper.hpp:21, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/serialization/array.hpp:26, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/numeric/ublas/storage.hpp:22, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/numeric/ublas/vector.hpp:21, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/numeric/ublas/matrix.hpp:18, from stdafx.h:21, from Mahalanobis.cpp:2: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/assert.hpp:194:21: warning: unnecessary parentheses in declaration of ‘assert_arg’ [-Wparentheses] 194 | failed ************ (Pred::************ | ^~~~~~~~~~~~~~~~~~~ 195 | assert_arg( void (*)(Pred), typename assert_arg_pred::type ) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 196 | ); | ~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/assert.hpp:194:21: note: remove parentheses 194 | failed ************ (Pred::************ | ^~~~~~~~~~~~~~~~~~~ | - 195 | assert_arg( void (*)(Pred), typename assert_arg_pred::type ) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 196 | ); | ~ | - /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/assert.hpp:199:21: warning: unnecessary parentheses in declaration of ‘assert_not_arg’ [-Wparentheses] 199 | failed ************ (boost::mpl::not_::************ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 200 | assert_not_arg( void (*)(Pred), typename assert_arg_pred_not::type ) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 201 | ); | ~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/assert.hpp:199:21: note: remove parentheses 199 | failed ************ (boost::mpl::not_::************ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ | - 200 | assert_not_arg( void (*)(Pred), typename assert_arg_pred_not::type ) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 201 | ); | ~ | - Mahalanobis.cpp: In function ‘void MahalanobisDepth(TDMatrix, TDMatrix, int, int, int, double, double*)’: Mahalanobis.cpp:32:13: warning: unused variable ‘res’ [-Wunused-variable] 32 | int res = lu_factorize(A, pm); | ^~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c OjaDepth.cpp -o OjaDepth.o In file included from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/aux_/na_assert.hpp:23, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/arg.hpp:25, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/placeholders.hpp:24, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/apply.hpp:24, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/serialization/array_optimization.hpp:18, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/serialization/array_wrapper.hpp:21, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/serialization/array.hpp:26, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/numeric/ublas/storage.hpp:22, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/numeric/ublas/vector.hpp:21, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/numeric/ublas/matrix.hpp:18, from stdafx.h:21, from OjaDepth.cpp:1: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/assert.hpp:194:21: warning: unnecessary parentheses in declaration of ‘assert_arg’ [-Wparentheses] 194 | failed ************ (Pred::************ | ^~~~~~~~~~~~~~~~~~~ 195 | assert_arg( void (*)(Pred), typename assert_arg_pred::type ) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 196 | ); | ~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/assert.hpp:194:21: note: remove parentheses 194 | failed ************ (Pred::************ | ^~~~~~~~~~~~~~~~~~~ | - 195 | assert_arg( void (*)(Pred), typename assert_arg_pred::type ) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 196 | ); | ~ | - /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/assert.hpp:199:21: warning: unnecessary parentheses in declaration of ‘assert_not_arg’ [-Wparentheses] 199 | failed ************ (boost::mpl::not_::************ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 200 | assert_not_arg( void (*)(Pred), typename assert_arg_pred_not::type ) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 201 | ); | ~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/assert.hpp:199:21: note: remove parentheses 199 | failed ************ (boost::mpl::not_::************ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ | - 200 | assert_not_arg( void (*)(Pred), typename assert_arg_pred_not::type ) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 201 | ); | ~ | - g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c Polynomial.cpp -o Polynomial.o In file included from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/aux_/na_assert.hpp:23, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/arg.hpp:25, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/placeholders.hpp:24, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/apply.hpp:24, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/serialization/array_optimization.hpp:18, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/serialization/array_wrapper.hpp:21, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/serialization/array.hpp:26, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/numeric/ublas/storage.hpp:22, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/numeric/ublas/vector.hpp:21, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/numeric/ublas/matrix.hpp:18, from stdafx.h:21, from Polynomial.cpp:14: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/assert.hpp:194:21: warning: unnecessary parentheses in declaration of ‘assert_arg’ [-Wparentheses] 194 | failed ************ (Pred::************ | ^~~~~~~~~~~~~~~~~~~ 195 | assert_arg( void (*)(Pred), typename assert_arg_pred::type ) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 196 | ); | ~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/assert.hpp:194:21: note: remove parentheses 194 | failed ************ (Pred::************ | ^~~~~~~~~~~~~~~~~~~ | - 195 | assert_arg( void (*)(Pred), typename assert_arg_pred::type ) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 196 | ); | ~ | - /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/assert.hpp:199:21: warning: unnecessary parentheses in declaration of ‘assert_not_arg’ [-Wparentheses] 199 | failed ************ (boost::mpl::not_::************ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 200 | assert_not_arg( void (*)(Pred), typename assert_arg_pred_not::type ) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 201 | ); | ~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/assert.hpp:199:21: note: remove parentheses 199 | failed ************ (boost::mpl::not_::************ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ | - 200 | assert_not_arg( void (*)(Pred), typename assert_arg_pred_not::type ) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 201 | ); | ~ | - Polynomial.cpp: In function ‘TPoint PolynomialLearnCV(TDMatrix, int, int, int, int, int*, int*)’: Polynomial.cpp:396:25: warning: unused variable ‘tmp’ [-Wunused-variable] 396 | for (int i = 0, tmp; i < numPoints; i++){ input2[i][0] = input[i][1]; input2[i][1] = input[i][0]; } // swap columns | ^~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c PotentialDepth.cpp -o PotentialDepth.o In file included from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/aux_/na_assert.hpp:23, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/arg.hpp:25, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/placeholders.hpp:24, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/apply.hpp:24, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/serialization/array_optimization.hpp:18, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/serialization/array_wrapper.hpp:21, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/serialization/array.hpp:26, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/numeric/ublas/storage.hpp:22, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/numeric/ublas/vector.hpp:21, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/numeric/ublas/matrix.hpp:18, from stdafx.h:21, from PotentialDepth.cpp:1: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/assert.hpp:194:21: warning: unnecessary parentheses in declaration of ‘assert_arg’ [-Wparentheses] 194 | failed ************ (Pred::************ | ^~~~~~~~~~~~~~~~~~~ 195 | assert_arg( void (*)(Pred), typename assert_arg_pred::type ) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 196 | ); | ~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/assert.hpp:194:21: note: remove parentheses 194 | failed ************ (Pred::************ | ^~~~~~~~~~~~~~~~~~~ | - 195 | assert_arg( void (*)(Pred), typename assert_arg_pred::type ) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 196 | ); | ~ | - /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/assert.hpp:199:21: warning: unnecessary parentheses in declaration of ‘assert_not_arg’ [-Wparentheses] 199 | failed ************ (boost::mpl::not_::************ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 200 | assert_not_arg( void (*)(Pred), typename assert_arg_pred_not::type ) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 201 | ); | ~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/assert.hpp:199:21: note: remove parentheses 199 | failed ************ (boost::mpl::not_::************ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ | - 200 | assert_not_arg( void (*)(Pred), typename assert_arg_pred_not::type ) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 201 | ); | ~ | - PotentialDepth.cpp: In function ‘double EuclidianDistance(TPoint&, TPoint&)’: PotentialDepth.cpp:5:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 5 | for (int i = 0; i < x.size(); i++){ | ~~^~~~~~~~~~ PotentialDepth.cpp: In function ‘double EuclidianDistance2(TPoint&, TPoint&)’: PotentialDepth.cpp:13:26: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 13 | for (int i = 0; i< x.size(); i++){ | ~^~~~~~~~~~ PotentialDepth.cpp: In function ‘void PotentialDepths(TMatrix&, TVariables&, TMatrix&, TMatrix&, double (*)(TPoint&, TPoint&, double), double, int)’: PotentialDepth.cpp:60:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 60 | for (int i = 0; i < cardinalities.size(); classBeginning += cardinalities[i], i++){ | ~~^~~~~~~~~~~~~~~~~~~~~~ PotentialDepth.cpp:67:60: warning: comparison of integer expressions of different signedness: ‘std::vector::size_type’ {aka ‘long unsigned int’} and ‘__gnu_cxx::__alloc_traits, int>::value_type’ {aka ‘int’} [-Wsign-compare] 67 | else if (classPointsDepths->size() < cardinalities[i]) PotentialDepth.cpp:76:35: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 76 | for (int p = 0; p < testpoints.size(); p++){ | ~~^~~~~~~~~~~~~~~~~~~ PotentialDepth.cpp:96:43: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 96 | for (int p = 0; p < testpoints.size(); p++){ | ~~^~~~~~~~~~~~~~~~~~~ PotentialDepth.cpp:65:25: warning: ‘classPointsDepths’ may be used uninitialized [-Wmaybe-uninitialized] 65 | if (!classPointsDepths) | ^~ PotentialDepth.cpp:56:17: note: ‘classPointsDepths’ was declared here 56 | TPoint* classPointsDepths; | ^~~~~~~~~~~~~~~~~ PotentialDepth.cpp:63:25: warning: ‘classPoints’ may be used uninitialized [-Wmaybe-uninitialized] 63 | if (classPoints) delete[] classPoints; | ^~ PotentialDepth.cpp:55:18: note: ‘classPoints’ was declared here 55 | TMatrix* classPoints; | ^~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c ProjectionDepth.cpp -o ProjectionDepth.o In file included from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/aux_/na_assert.hpp:23, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/arg.hpp:25, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/placeholders.hpp:24, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/apply.hpp:24, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/serialization/array_optimization.hpp:18, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/serialization/array_wrapper.hpp:21, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/serialization/array.hpp:26, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/numeric/ublas/storage.hpp:22, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/numeric/ublas/vector.hpp:21, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/numeric/ublas/matrix.hpp:18, from stdafx.h:21, from ProjectionDepth.cpp:14: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/assert.hpp:194:21: warning: unnecessary parentheses in declaration of ‘assert_arg’ [-Wparentheses] 194 | failed ************ (Pred::************ | ^~~~~~~~~~~~~~~~~~~ 195 | assert_arg( void (*)(Pred), typename assert_arg_pred::type ) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 196 | ); | ~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/assert.hpp:194:21: note: remove parentheses 194 | failed ************ (Pred::************ | ^~~~~~~~~~~~~~~~~~~ | - 195 | assert_arg( void (*)(Pred), typename assert_arg_pred::type ) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 196 | ); | ~ | - /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/assert.hpp:199:21: warning: unnecessary parentheses in declaration of ‘assert_not_arg’ [-Wparentheses] 199 | failed ************ (boost::mpl::not_::************ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 200 | assert_not_arg( void (*)(Pred), typename assert_arg_pred_not::type ) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 201 | ); | ~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/assert.hpp:199:21: note: remove parentheses 199 | failed ************ (boost::mpl::not_::************ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ | - 200 | assert_not_arg( void (*)(Pred), typename assert_arg_pred_not::type ) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 201 | ); | ~ | - ProjectionDepth.cpp:21:12: warning: ‘int CompareDec(OrderRec, OrderRec)’ defined but not used [-Wunused-function] 21 | static int CompareDec(OrderRec x, OrderRec y) | ^~~~~~~~~~ ProjectionDepth.cpp:16:12: warning: ‘int CompareAsc(OrderRec, OrderRec)’ defined but not used [-Wunused-function] 16 | static int CompareAsc(OrderRec x, OrderRec y) | ^~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c SimplicialDepth.cpp -o SimplicialDepth.o In file included from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/aux_/na_assert.hpp:23, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/arg.hpp:25, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/placeholders.hpp:24, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/apply.hpp:24, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/serialization/array_optimization.hpp:18, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/serialization/array_wrapper.hpp:21, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/serialization/array.hpp:26, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/numeric/ublas/storage.hpp:22, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/numeric/ublas/vector.hpp:21, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/numeric/ublas/matrix.hpp:18, from stdafx.h:21, from SimplicialDepth.cpp:2: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/assert.hpp:194:21: warning: unnecessary parentheses in declaration of ‘assert_arg’ [-Wparentheses] 194 | failed ************ (Pred::************ | ^~~~~~~~~~~~~~~~~~~ 195 | assert_arg( void (*)(Pred), typename assert_arg_pred::type ) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 196 | ); | ~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/assert.hpp:194:21: note: remove parentheses 194 | failed ************ (Pred::************ | ^~~~~~~~~~~~~~~~~~~ | - 195 | assert_arg( void (*)(Pred), typename assert_arg_pred::type ) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 196 | ); | ~ | - /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/assert.hpp:199:21: warning: unnecessary parentheses in declaration of ‘assert_not_arg’ [-Wparentheses] 199 | failed ************ (boost::mpl::not_::************ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 200 | assert_not_arg( void (*)(Pred), typename assert_arg_pred_not::type ) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 201 | ); | ~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/assert.hpp:199:21: note: remove parentheses 199 | failed ************ (boost::mpl::not_::************ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ | - 200 | assert_not_arg( void (*)(Pred), typename assert_arg_pred_not::type ) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 201 | ); | ~ | - SimplicialDepth.cpp: In function ‘void SimplicialDepthsEx(TDMatrix, TDMatrix, int, int, int, double*)’: SimplicialDepth.cpp:46:22: warning: unused variable ‘sc’ [-Wunused-variable] 46 | bool sc = numSimplicesChecked == div0; | ^~ SimplicialDepth.cpp: In function ‘long long unsigned int intSD2(double**, int)’: SimplicialDepth.cpp:153:28: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long long unsigned int’ [-Wsign-compare] 153 | for (int i = nh; i < nn; i++) { | ~~^~~~ SimplicialDepth.cpp:154:27: warning: comparison of integer expressions of different signedness: ‘long long unsigned int’ and ‘int’ [-Wsign-compare] 154 | while ((j <= nh - 1) && (alpha[j] + M_PI <= alpha[i] - eps)) j++; | ~~^~~~~~~~~ In file included from /usr/include/string.h:548, from /usr/include/c++/14/cstring:43, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/core/bit.hpp:22, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/integer/integer_log2.hpp:24, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/random/detail/integer_log2.hpp:19, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/random/detail/large_arithmetic.hpp:19, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/random/detail/const_mod.hpp:23, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/random/linear_congruential.hpp:28, from stdafx.h:24: In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘void SimplicialDepthsEx(TDMatrix, TDMatrix, int, int, int, double*)’ at SimplicialDepth.cpp:36:10: /usr/include/x86_64-linux-gnu/bits/string_fortified.h:29:33: warning: ‘void* __builtin___memcpy_chk(void*, const void*, long unsigned int, long unsigned int)’ specified bound 18446744073709551608 exceeds maximum object size 9223372036854775807 [-Wstringop-overflow=] 29 | return __builtin___memcpy_chk (__dest, __src, __len, | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 30 | __glibc_objsize0 (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘void SimplicialDepthsApx(TDMatrix, TDMatrix, int, int, int, long long unsigned int, double*)’ at SimplicialDepth.cpp:98:9: /usr/include/x86_64-linux-gnu/bits/string_fortified.h:29:33: warning: ‘void* __builtin___memcpy_chk(void*, const void*, long unsigned int, long unsigned int)’ specified bound 18446744073709551608 exceeds maximum object size 9223372036854775807 [-Wstringop-overflow=] 29 | return __builtin___memcpy_chk (__dest, __src, __len, | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 30 | __glibc_objsize0 (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c TukeyDepth.cpp -o TukeyDepth.o In file included from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/aux_/na_assert.hpp:23, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/arg.hpp:25, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/placeholders.hpp:24, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/apply.hpp:24, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/serialization/array_optimization.hpp:18, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/serialization/array_wrapper.hpp:21, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/serialization/array.hpp:26, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/numeric/ublas/storage.hpp:22, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/numeric/ublas/vector.hpp:21, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/numeric/ublas/matrix.hpp:18, from stdafx.h:21, from TukeyDepth.cpp:14: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/assert.hpp:194:21: warning: unnecessary parentheses in declaration of ‘assert_arg’ [-Wparentheses] 194 | failed ************ (Pred::************ | ^~~~~~~~~~~~~~~~~~~ 195 | assert_arg( void (*)(Pred), typename assert_arg_pred::type ) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 196 | ); | ~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/assert.hpp:194:21: note: remove parentheses 194 | failed ************ (Pred::************ | ^~~~~~~~~~~~~~~~~~~ | - 195 | assert_arg( void (*)(Pred), typename assert_arg_pred::type ) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 196 | ); | ~ | - /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/assert.hpp:199:21: warning: unnecessary parentheses in declaration of ‘assert_not_arg’ [-Wparentheses] 199 | failed ************ (boost::mpl::not_::************ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 200 | assert_not_arg( void (*)(Pred), typename assert_arg_pred_not::type ) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 201 | ); | ~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/assert.hpp:199:21: note: remove parentheses 199 | failed ************ (boost::mpl::not_::************ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ | - 200 | assert_not_arg( void (*)(Pred), typename assert_arg_pred_not::type ) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 201 | ); | ~ | - g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c ZonoidDepth.cpp -o ZonoidDepth.o In file included from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/aux_/na_assert.hpp:23, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/arg.hpp:25, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/placeholders.hpp:24, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/apply.hpp:24, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/serialization/array_optimization.hpp:18, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/serialization/array_wrapper.hpp:21, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/serialization/array.hpp:26, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/numeric/ublas/storage.hpp:22, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/numeric/ublas/vector.hpp:21, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/numeric/ublas/matrix.hpp:18, from stdafx.h:21, from ZonoidDepth.cpp:15: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/assert.hpp:194:21: warning: unnecessary parentheses in declaration of ‘assert_arg’ [-Wparentheses] 194 | failed ************ (Pred::************ | ^~~~~~~~~~~~~~~~~~~ 195 | assert_arg( void (*)(Pred), typename assert_arg_pred::type ) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 196 | ); | ~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/assert.hpp:194:21: note: remove parentheses 194 | failed ************ (Pred::************ | ^~~~~~~~~~~~~~~~~~~ | - 195 | assert_arg( void (*)(Pred), typename assert_arg_pred::type ) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 196 | ); | ~ | - /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/assert.hpp:199:21: warning: unnecessary parentheses in declaration of ‘assert_not_arg’ [-Wparentheses] 199 | failed ************ (boost::mpl::not_::************ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 200 | assert_not_arg( void (*)(Pred), typename assert_arg_pred_not::type ) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 201 | ); | ~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/assert.hpp:199:21: note: remove parentheses 199 | failed ************ (boost::mpl::not_::************ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ | - 200 | assert_not_arg( void (*)(Pred), typename assert_arg_pred_not::type ) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 201 | ); | ~ | - ZonoidDepth.cpp: In function ‘double ZonoidDepth(std::vector >&, TPoint&, int&)’: ZonoidDepth.cpp:403:21: warning: comparison of integer expressions of different signedness: ‘std::vector::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 403 | if (x_sort.size() == n) { /* Allocation successful. */ | ~~~~~~~~~~~~~~^~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c asa047.cpp -o asa047.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c ddalpha.cpp -o ddalpha.o In file included from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/aux_/na_assert.hpp:23, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/arg.hpp:25, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/placeholders.hpp:24, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/apply.hpp:24, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/serialization/array_optimization.hpp:18, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/serialization/array_wrapper.hpp:21, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/serialization/array.hpp:26, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/numeric/ublas/storage.hpp:22, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/numeric/ublas/vector.hpp:21, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/numeric/ublas/matrix.hpp:18, from stdafx.h:21, from ddalpha.cpp:14: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/assert.hpp:194:21: warning: unnecessary parentheses in declaration of ‘assert_arg’ [-Wparentheses] 194 | failed ************ (Pred::************ | ^~~~~~~~~~~~~~~~~~~ 195 | assert_arg( void (*)(Pred), typename assert_arg_pred::type ) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 196 | ); | ~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/assert.hpp:194:21: note: remove parentheses 194 | failed ************ (Pred::************ | ^~~~~~~~~~~~~~~~~~~ | - 195 | assert_arg( void (*)(Pred), typename assert_arg_pred::type ) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 196 | ); | ~ | - /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/assert.hpp:199:21: warning: unnecessary parentheses in declaration of ‘assert_not_arg’ [-Wparentheses] 199 | failed ************ (boost::mpl::not_::************ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 200 | assert_not_arg( void (*)(Pred), typename assert_arg_pred_not::type ) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 201 | ); | ~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/assert.hpp:199:21: note: remove parentheses 199 | failed ************ (boost::mpl::not_::************ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ | - 200 | assert_not_arg( void (*)(Pred), typename assert_arg_pred_not::type ) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 201 | ); | ~ | - ddalpha.cpp: In function ‘void AlphaLearn(double*, int*, int*, int*, int*, int*, double*)’: ddalpha.cpp:295:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 295 | for (int i = 0; i < direction.size(); i++){ | ~~^~~~~~~~~~~~~~~~~~ ddalpha.cpp: In function ‘void AlphaLearnCV(double*, int*, int*, int*, int*, int*, int*, int*, double*)’: ddalpha.cpp:314:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 314 | for (int i = 0; i < direction.size(); i++){ | ~~^~~~~~~~~~~~~~~~~~ ddalpha.cpp: In function ‘void AlphaClassify(double*, int*, int*, int*, double*, int*)’: ddalpha.cpp:330:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 330 | for (int i = 0; i < _x[0].size(); i++){ | ~~^~~~~~~~~~~~~~ gfortran-14 -fpic -g -O2 -Wall -pedantic -mtune=native -c depth.fd.f -o depth.fd.o depth.fd.f:119:28: 119 | integer I,J,K,OM(NR),L | 1 Warning: Unused variable ‘l’ declared at (1) [-Wunused-variable] depth.fd.f:119:26: 119 | integer I,J,K,OM(NR),L | 1 Warning: Unused variable ‘om’ declared at (1) [-Wunused-variable] depth.fd.f:1169:25: 1169 | INTEGER hF(N),I,J,K | 1 Warning: Unused variable ‘k’ declared at (1) [-Wunused-variable] depth.fd.f:1203:25: 1203 | INTEGER hF(N),I,J,K | 1 Warning: Unused variable ‘k’ declared at (1) [-Wunused-variable] depth.fd.f:241:24: 241 | INTEGER FUNCTION K(M,J) | ^ Warning: ‘__result_k’ may be used uninitialized [-Wmaybe-uninitialized] gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c init.c -o init.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c stdafx.cpp -o stdafx.o In file included from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/aux_/na_assert.hpp:23, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/arg.hpp:25, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/placeholders.hpp:24, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/apply.hpp:24, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/serialization/array_optimization.hpp:18, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/serialization/array_wrapper.hpp:21, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/serialization/array.hpp:26, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/numeric/ublas/storage.hpp:22, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/numeric/ublas/vector.hpp:21, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/numeric/ublas/matrix.hpp:18, from stdafx.h:21, from stdafx.cpp:5: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/assert.hpp:194:21: warning: unnecessary parentheses in declaration of ‘assert_arg’ [-Wparentheses] 194 | failed ************ (Pred::************ | ^~~~~~~~~~~~~~~~~~~ 195 | assert_arg( void (*)(Pred), typename assert_arg_pred::type ) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 196 | ); | ~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/assert.hpp:194:21: note: remove parentheses 194 | failed ************ (Pred::************ | ^~~~~~~~~~~~~~~~~~~ | - 195 | assert_arg( void (*)(Pred), typename assert_arg_pred::type ) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 196 | ); | ~ | - /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/assert.hpp:199:21: warning: unnecessary parentheses in declaration of ‘assert_not_arg’ [-Wparentheses] 199 | failed ************ (boost::mpl::not_::************ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 200 | assert_not_arg( void (*)(Pred), typename assert_arg_pred_not::type ) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 201 | ); | ~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include/boost/mpl/assert.hpp:199:21: note: remove parentheses 199 | failed ************ (boost::mpl::not_::************ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ | - 200 | assert_not_arg( void (*)(Pred), typename assert_arg_pred_not::type ) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 201 | ); | ~ | - g++-14 -std=gnu++17 -shared -L/home/hornik/tmp/R-d-gcc-14/lib -Wl,-O1 -o ddalpha.so AlphaProcedure.o BandDepth.o Common.o DKnn.o HD.o Knn.o LensDepth.o Mahalanobis.o OjaDepth.o Polynomial.o PotentialDepth.o ProjectionDepth.o SimplicialDepth.o TukeyDepth.o ZonoidDepth.o asa047.o ddalpha.o depth.fd.o init.o stdafx.o -lgfortran -lm -lquadmath -L/home/hornik/tmp/R-d-gcc-14/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpjS9kDd/R.INSTALL31723d6499329c/ddalpha/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-ddalpha/00new/ddalpha/libs ** R ** data ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (ddalpha) * installing *source* package ‘QFeatures’ ... ** this is package ‘QFeatures’ version ‘1.18.0’ ** using staged installation ** R ** data ** inst ** byte-compile and prepare package for lazy loading Creating a new generic function for ‘sweep’ in package ‘QFeatures’ ** help *** installing help indices *** copying figures ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (QFeatures) begin installing package ‘MsExperiment’ begin installing package ‘PSMatch’ * installing *source* package ‘metacoder’ ... ** this is package ‘metacoder’ version ‘0.3.8’ ** package ‘metacoder’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C++ compiler: ‘g++-14 (Debian 14.2.0-19) 14.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpNntv26/R.INSTALL31957033ac0b/metacoder/src' g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c RcppExports.cpp -o RcppExports.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c repel_boxes.cpp -o repel_boxes.o g++-14 -std=gnu++17 -shared -L/home/hornik/tmp/R-d-gcc-14/lib -Wl,-O1 -o metacoder.so RcppExports.o repel_boxes.o -L/home/hornik/tmp/R-d-gcc-14/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpNntv26/R.INSTALL31957033ac0b/metacoder/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-metacoder/00new/metacoder/libs ** R ** data *** moving datasets to lazyload DB ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (metacoder) * installing *source* package ‘oligo’ ... ** this is package ‘oligo’ version ‘1.72.0’ ** using staged installation creating cache ./config.cache checking how to run the C preprocessor... gcc-14 -std=gnu23 -E checking for main in -lz... yes checking for zlib.h... yes checking if zlib version >= 1.1.3... yes updating cache ./config.cache creating ./config.status creating src/Makevars ** libs using C compiler: ‘gcc-14 (Debian 14.2.0-19) 14.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/RtmppNvkf1/R.INSTALL31910860de97c6/oligo/src' gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -DHAVE_ZLIB=1 -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/preprocessCore/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c DABG.c -o DABG.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -DHAVE_ZLIB=1 -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/preprocessCore/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c ParserGzXYS.c -o ParserGzXYS.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -DHAVE_ZLIB=1 -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/preprocessCore/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c ParserXYS.c -o ParserXYS.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -DHAVE_ZLIB=1 -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/preprocessCore/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c baseProfile.c -o baseProfile.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -DHAVE_ZLIB=1 -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/preprocessCore/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c basecontent.c -o basecontent.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -DHAVE_ZLIB=1 -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/preprocessCore/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c chipbackground.c -o chipbackground.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -DHAVE_ZLIB=1 -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/preprocessCore/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c mas5calls.c -o mas5calls.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -DHAVE_ZLIB=1 -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/preprocessCore/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c rma2.c -o rma2.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -DHAVE_ZLIB=1 -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/preprocessCore/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c rma_common.c -o rma_common.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -DHAVE_ZLIB=1 -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/preprocessCore/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c trimmed.c -o trimmed.o gcc-14 -std=gnu23 -shared -L/home/hornik/tmp/R-d-gcc-14/lib -Wl,-O1 -o oligo.so DABG.o ParserGzXYS.o ParserXYS.o baseProfile.o basecontent.o chipbackground.o mas5calls.o rma2.o rma_common.o trimmed.o -lz -L/home/hornik/tmp/R-d-gcc-14/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmppNvkf1/R.INSTALL31910860de97c6/oligo/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-oligo/00new/oligo/libs ** R ** inst ** byte-compile and prepare package for lazy loading Note: in method for ‘pm<-’ with signature ‘object="TilingFeatureSet",subset="ANY",target="ANY",value="array"’: expanding the signature to include omitted arguments in definition: subset = "missing", target = "missing" Note: in method for ‘mm<-’ with signature ‘object="TilingFeatureSet",subset="ANY",target="ANY",value="array"’: expanding the signature to include omitted arguments in definition: subset = "missing", target = "missing" ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (oligo) begin installing package ‘pd.hg.u133.plus.2’ begin installing package ‘pdInfoBuilder’ * installing *source* package ‘minfi’ ... ** this is package ‘minfi’ version ‘1.54.1’ ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (minfi) begin installing package ‘methylumi’ * installing *source* package ‘eulerr’ ... ** this is package ‘eulerr’ version ‘7.0.2’ ** package ‘eulerr’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C++ compiler: ‘g++-14 (Debian 14.2.0-19) 14.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpyOB4xh/R.INSTALL3188ce6d09841c/eulerr/src' g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c RcppExports.cpp -o RcppExports.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c compute-areas.cpp -o compute-areas.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c conic.cpp -o conic.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c ellipse.cpp -o ellipse.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c helpers.cpp -o helpers.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c intersections.cpp -o intersections.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c loss.cpp -o loss.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c optim_final.cpp -o optim_final.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c optim_init.cpp -o optim_init.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c point.cpp -o point.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c solve_cubic.cpp -o solve_cubic.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c utils.cpp -o utils.o g++-14 -std=gnu++17 -shared -L/home/hornik/tmp/R-d-gcc-14/lib -Wl,-O1 -o eulerr.so RcppExports.o compute-areas.o conic.o ellipse.o helpers.o intersections.o loss.o optim_final.o optim_init.o point.o solve_cubic.o utils.o -llapack -L/home/hornik/tmp/R-d-gcc-14/lib -lRblas -lgfortran -lm -lquadmath -L/home/hornik/tmp/R-d-gcc-14/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpyOB4xh/R.INSTALL3188ce6d09841c/eulerr/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-eulerr/00new/eulerr/libs ** R ** data *** moving datasets to lazyload DB ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (eulerr) * installing *source* package ‘castor’ ... ** this is package ‘castor’ version ‘1.8.3’ ** package ‘castor’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C compiler: ‘gcc-14 (Debian 14.2.0-19) 14.2.0’ using C++ compiler: ‘g++-14 (Debian 14.2.0-19) 14.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpcCh1HT/R.INSTALL316e4916c1c42f/castor/src' g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c RcppExports.cpp -o RcppExports.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c STMathExpression.cpp -o STMathExpression.o STMathExpression.cpp:10: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 10 | #pragma mark - STMathExpression.cpp:11: warning: ignoring ‘#pragma mark String’ [-Wunknown-pragmas] 11 | #pragma mark String manipulations STMathExpression.cpp:12: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 12 | #pragma mark STMathExpression.cpp:65: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 65 | #pragma mark - STMathExpression.cpp:66: warning: ignoring ‘#pragma mark MathExpression’ [-Wunknown-pragmas] 66 | #pragma mark MathExpression STMathExpression.cpp:67: warning: ignoring ‘#pragma mark ’ [-Wunknown-pragmas] 67 | #pragma mark STMathExpression.cpp: In static member function ‘static long int MathExpression::splitBinaryOperatorInverseOrder(const std::string&, long int, long int, const std::vector&)’: STMathExpression.cpp:256:42: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘const std::__cxx11::basic_string::size_type’ {aka ‘const long unsigned int’} [-Wsign-compare] 256 | else if(j==string::npos){ if(!STMath_isReal(expression.substr(0,i-1))) return getLeftMostOfPlusMinusOperatorChain(expression,start,i); } | ~^~~~~~~~~~~~~~ STMathExpression.cpp: In member function ‘std::string MathExpression::parseBlock(const std::string&, long int, long int, const std::vector&, const std::map, long int>&, const std::map, long int>&, long int, bool)’: STMathExpression.cpp:313:105: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::__cxx11::basic_string::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 313 | if(isWhiteSpace(expression,start,end)) return "Missing "+(start==0 ? "leading expression" : (end==expression.size()-1 ? "trailing expression" : "expression between '"+expression.substr(0,start)+"' and '"+expression.substr(end+1)+"'")); | ~~~^~~~~~~~~~~~~~~~~~~~~ STMathExpression.cpp:359:37: warning: comparison of integer expressions of different signedness: ‘const long int’ and ‘const std::__cxx11::basic_string::size_type’ {aka ‘const long unsigned int’} [-Wsign-compare] 359 | if((rightMostBracket==string::npos) || (rightMostBracket&)’: STMathExpression.cpp:463:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::__cxx11::basic_string::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 463 | for(long i=0; i&)’: STMathExpression.cpp:500:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::__cxx11::basic_string::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 500 | for(long i=0; i::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 953 | for(long i=0; i::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 957 | for(long i=0; i&) const’: STMathExpression.cpp:981:34: warning: comparison of integer expressions of different signedness: ‘const __gnu_cxx::__alloc_traits, long int>::value_type’ {aka ‘const long int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 981 | if(variableIDs[i]>=x.size()){ variableValues[i]=0; } STMathExpression.cpp: In member function ‘double MathExpression::operator()(const std::vector&, long int, ...) const’: STMathExpression.cpp:1044:34: warning: comparison of integer expressions of different signedness: ‘const __gnu_cxx::__alloc_traits, long int>::value_type’ {aka ‘const long int’} and ‘long unsigned int’ [-Wsign-compare] 1044 | if(variableIDs[i]>=x.size()+numberOfAdditionalVariables){ variableValues[i]=0; } STMathExpression.cpp:1045:39: warning: comparison of integer expressions of different signedness: ‘const __gnu_cxx::__alloc_traits, long int>::value_type’ {aka ‘const long int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1045 | else if(variableIDs[i] >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1195 | for(long i=0; i >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1202 | for(long i=0; i::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1258 | for(long i=0; i::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1269 | for(long n=0; n&)’: STMathExpression.cpp:1378:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1378 | for(long i=0; i&) const [with TYPE = long int; std::ostream = std::basic_ostream]’: STMathExpression.cpp:961:14: required from here 961 | printTuple(stream, stackArguments[i]); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ STMathExpression.cpp:1227:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1227 | for(long i=0; i::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 334 | for(long i=0; i >&)’: phylogenetics_cpp_routines.cpp:357:46: warning: comparison of integer expressions of different signedness: ‘std::vector >::size_type’ {aka ‘long unsigned int’} and ‘const long int’ [-Wsign-compare] 357 | while((max_Nparts<0) || (parts.size()::size_type’ {aka ‘const long unsigned int’} [-Wsign-compare] 359 | if(pos==string::npos) break; | ~~~^~~~~~~~~~~~~~ phylogenetics_cpp_routines.cpp:363:43: warning: comparison of integer expressions of different signedness: ‘std::vector >::size_type’ {aka ‘long unsigned int’} and ‘const long int’ [-Wsign-compare] 363 | if((max_Nparts<0) || (parts.size()&, long int)’: phylogenetics_cpp_routines.cpp:460:28: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 460 | for(long n=start; n&)’: phylogenetics_cpp_routines.cpp:707:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 707 | for(long i=0; i&)’: phylogenetics_cpp_routines.cpp:722:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 722 | for(long i=0; i&)’: phylogenetics_cpp_routines.cpp:740:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 740 | for(long i=0; i&)’: phylogenetics_cpp_routines.cpp:747:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 747 | for(long i=0; i&)’: phylogenetics_cpp_routines.cpp:776:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 776 | for(long i=0; i&)’: phylogenetics_cpp_routines.cpp:807:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 807 | for(long i=0; i&, double)’: phylogenetics_cpp_routines.cpp:812:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 812 | for(long i=0; i&, double)’: phylogenetics_cpp_routines.cpp:819:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 819 | for(long i=0; i&)’: phylogenetics_cpp_routines.cpp:829:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 829 | for(long i=0; i&)’: phylogenetics_cpp_routines.cpp:882:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 882 | for(long i=0; i >&, const std::vector >&)’: phylogenetics_cpp_routines.cpp:902:32: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘const long unsigned int’ [-Wsign-compare] 902 | for(long level=0; level, long int>::value_type’ {aka ‘long int’} and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 948 | if(pool2list[pool_index]==list2pool.size()-1){ phylogenetics_cpp_routines.cpp: In function ‘long int get_nearest_index(const std::vector&, long int)’: phylogenetics_cpp_routines.cpp:976:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 976 | for(long i=0; i<(haystack.size()-1); ++i){ | ~^~~~~~~~~~~~~~~~~~~~ phylogenetics_cpp_routines.cpp: In function ‘Rcpp::List dense_binary_matrix_row2column_major_CPP(long int, long int, const Rcpp::List&, bool)’: phylogenetics_cpp_routines.cpp:997:32: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 997 | for(long i=0; i >&, const lvector&, const dvector&, double, long int)’: phylogenetics_cpp_routines.cpp:1599:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1599 | for(long i=0; i&, const std::vector&, long int, const std::vector&, const std::string&, long int)’: phylogenetics_cpp_routines.cpp:2820:30: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 2820 | for(long t=0, g=-1; t&, double, const std::vector&, long int, const std::vector&)’: phylogenetics_cpp_routines.cpp:3260:29: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 3260 | for(long t=0, g=0; t&, const std::vector&, long int, const std::vector&)’: phylogenetics_cpp_routines.cpp:3287:32: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 3287 | for(long t=0, g=0, p; t >&, const std::vector >&, const std::vector >&, double)’: phylogenetics_cpp_routines.cpp:5835:40: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 5835 | for(long r=0; r&, const double&, const std::vector&, const long int&, std::vector&, std::vector&, std::vector&)’: phylogenetics_cpp_routines.cpp:5915:19: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 5915 | for(k=0; k::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 5947 | for(long i=0; i::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 8860 | for(long ng=0, og=0; ng::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 8897 | for(long ng=0, og=0; ng&, std::vector, bool, bool)’: phylogenetics_cpp_routines.cpp:9941:56: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 9941 | for(long k=0; k::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 9967 | for(long k=0; k::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 10929 | for(long t=0; t&, const std::vector&, std::vector&)’: phylogenetics_cpp_routines.cpp:12662:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 12662 | for(long q=0; q&, const std::vector&, const tree_traversal&, dvector&)’: phylogenetics_cpp_routines.cpp:12791:31: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 12791 | for(long q=0, clade; q&, const std::vector&, const std::vector&, bool, bool, const std::string&)’: phylogenetics_cpp_routines.cpp:12897:32: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 12897 | for(long t=0; t::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 12928 | for(long q=0; q&, const std::vector&, const std::vector&, bool, bool, const std::string&)’: phylogenetics_cpp_routines.cpp:13016:32: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 13016 | for(long t=0; t::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 13047 | for(long q=1; q::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 13075 | for(long q=0; q&, const std::vector&, const std::vector&)’: phylogenetics_cpp_routines.cpp:13144:32: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 13144 | for(long t=0; t::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 13174 | for(long q=0; q&, const std::vector&, const std::vector&, bool, const std::string&)’: phylogenetics_cpp_routines.cpp:13266:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 13266 | for(long q=0; q::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 13286 | for(long q=0; q&, const std::vector&, const std::vector&, const std::vector&, bool, const std::string&)’: phylogenetics_cpp_routines.cpp:13397:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 13397 | for(long q=0; q::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 13417 | for(long q=0; q&, const std::vector&, long int, double, double, bool, long int, bool)’: phylogenetics_cpp_routines.cpp:13624:31: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 13624 | for(long q=0, clade; q&, const std::vector&, const std::vector&, long int)’: phylogenetics_cpp_routines.cpp:13732:31: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 13732 | for(long q=0, clade; q&, const std::vector&, double, double, const std::vector&, const std::vector&)’: phylogenetics_cpp_routines.cpp:13889:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 13889 | for(long q=0; q::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 13913 | for(long c=0; c::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 13914 | for(long c=0; c&, const std::vector&, std::vector&)’: phylogenetics_cpp_routines.cpp:14066:45: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 14066 | for(long q=1, clade, pnode, cnode; q&, const std::vector&)’: phylogenetics_cpp_routines.cpp:14324:31: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 14324 | for(long q=0, clade; q&, long int, long int, long int)’: phylogenetics_cpp_routines.cpp:14493:16: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 14493 | while(k&, long int)’: phylogenetics_cpp_routines.cpp:14550:28: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 14550 | while(queue_pointer::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 14567 | for(long c=0, clade; c&, const std::vector&, long int)’: phylogenetics_cpp_routines.cpp:14615:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 14615 | for(long q=0; q&, const std::vector&, const std::vector&, bool, bool, bool, bool)’: phylogenetics_cpp_routines.cpp:15174:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 15174 | for(long c=0; c::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 15191 | for(long q=0; q, bool, const std::vector&, bool)’: phylogenetics_cpp_routines.cpp:16015:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 16015 | for(long t=0; t::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 16038 | for(long q=1, cnode, pnode; q, bool, const std::vector&, bool)’: phylogenetics_cpp_routines.cpp:16145:29: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 16145 | for(long t=0, tip; t::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 16159 | for(long q=1; q::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 16194 | for(long q=1; q&, const std::vector&, double)’: phylogenetics_cpp_routines.cpp:16461:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 16461 | for(long q=0; q&, const std::vector&, double, double)’: phylogenetics_cpp_routines.cpp:16571:32: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 16571 | for(long q=0; q&, const std::vector&, const std::vector&, bool, bool)’: phylogenetics_cpp_routines.cpp:16911:38: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 16911 | for(long n=0, node; n::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 16921 | for(long n=0, e, pnode, child; n::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 16985 | for(long q=0, clade, node, absorbing_ancestor, parent, child, e, edge, inedge; q&, const std::vector&, const std::vector&, const std::vector&, bool, const std::string&)’: phylogenetics_cpp_routines.cpp:17082:48: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 17082 | for(long s=0, clade, inedge, node, e; s::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 17105 | for(long q=1, clade, node, inedge, e; q::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 17139 | for(long q=1, clade, inedge; q&, const std::vector&, std::vector&)’: phylogenetics_cpp_routines.cpp:17475:31: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 17475 | for(long q=0, clade; q&, const std::vector >&, const std::vector >&, const std::string&, const std::string&, bool)’: phylogenetics_cpp_routines.cpp:17954:32: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 17954 | for(long f=0; f >::size_type’ {aka ‘long unsigned int’} and ‘long int’ [-Wsign-compare] 17955 | if(clade_taxonomies_split[fits[f]].size()==max_precision) precise_fits.push_back(fits[f]); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ phylogenetics_cpp_routines.cpp: In function ‘Rcpp::List tree_from_placements_CPP(long int, long int, long int, std::vector, std::vector, const std::vector&, const std::vector&, const std::vector&)’: phylogenetics_cpp_routines.cpp:17991:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 17991 | for(long i=0; i&, long int, long int, long int, const std::vector&, const std::vector&)’: phylogenetics_cpp_routines.cpp:18189:38: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 18189 | for(long m=0, Tnode, Rnode; m&, long int, long int, const std::vector&, const std::vector&)’: phylogenetics_cpp_routines.cpp:18419:60: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 18419 | for(long fb=0, fa=-1, f; fb relative_to_absolute_node_ages_CPP(long int, long int, long int, const std::vector&, const std::vector&, const std::vector&, const std::vector&, const std::vector&)’: phylogenetics_cpp_routines.cpp:18475:44: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 18475 | for(long q=1, clade, node, pnode; q propagate_min_ages_upstream_CPP(long int, long int, long int, const std::vector&, const std::vector&, const std::vector&, const std::vector&)’: phylogenetics_cpp_routines.cpp:18499:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 18499 | for(long a=0; a propagate_max_ages_downstream_CPP(long int, long int, long int, const std::vector&, const std::vector&, const std::vector&, const std::vector&)’: phylogenetics_cpp_routines.cpp:18528:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 18528 | for(long a=0; a::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 18533 | for(long q=0, clade, node, pnode; q, const std::vector&)’: phylogenetics_cpp_routines.cpp:18595:39: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 18595 | for(long q=1, clade, parent; q::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 18612 | for(long q=0, clade, node; q&, const std::vector&, const std::vector&, double, bool, bool, const std::vector&, const std::vector&, const std::vector&, const std::vector&, const std::vector&, const std::vector&, const std::vector&, double, bool, std::vector&, std::vector&, std::vector&, double&, double&, double&, double&, long int&, std::vector&, bool, const std::string&)’: phylogenetics_cpp_routines.cpp:19209:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 19209 | for(long q=0; q&, const std::vector&, const std::vector&, double, bool, bool, const std::vector&, const std::vector&, const std::vector&, const std::vector&, const std::vector&, const std::vector&, const std::vector&, double, std::vector&, double&, double&, double&, double&, long int&, std::vector&, std::vector&, std::vector&, std::vector&, std::vector&, bool, const std::string&)’: phylogenetics_cpp_routines.cpp:19522:40: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 19522 | for(long q=0, dominant_state; q&, const std::vector&, bool, const std::string&)’: phylogenetics_cpp_routines.cpp:20571:32: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 20571 | for(long q=0, parent; q&, const std::vector&)’: phylogenetics_cpp_routines.cpp:20642:26: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 20642 | for(long fc=0; fc::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 20648 | for(long fc=0; fc&, const std::vector&, const std::vector&, bool, const std::string&)’: phylogenetics_cpp_routines.cpp:20776:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 20776 | for(long q=0; q::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 20795 | for(long q=0; q&, const std::vector&)’: phylogenetics_cpp_routines.cpp:20931:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 20931 | for(long t=0; t&, const std::vector&, const std::vector&, const std::vector&, double, bool, bool, const std::string&)’: phylogenetics_cpp_routines.cpp:21161:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 21161 | for(long q=0; q&, const std::vector&, const std::vector&, const Rcpp::ComplexVector&, const Rcpp::ComplexVector&, const Rcpp::ComplexVector&, const std::vector&, const std::string&, const std::vector&, bool, bool, double, double, long int, bool)’: phylogenetics_cpp_routines.cpp:21523:32: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 21523 | for(long n=0; n::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 21564 | for(long q=0, new_root; q&, const std::vector&, const std::vector&, double, long int, Rcpp::LogicalVector, std::vector, bool)’: phylogenetics_cpp_routines.cpp:21968:37: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 21968 | for(long q=0, node, clade; q&, std::vector, std::vector)’: phylogenetics_cpp_routines.cpp:22024:37: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 22024 | for(long q=0, node, clade; q&, const std::vector&, const std::vector&, bool)’: phylogenetics_cpp_routines.cpp:22198:42: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 22198 | for(long q=0, new_root; q&, const std::vector&, const std::vector&, bool)’: phylogenetics_cpp_routines.cpp:22459:30: warning: comparison of integer expressions of different signedness: ‘std::vector::size_type’ {aka ‘long unsigned int’} and ‘const long int’ [-Wsign-compare] 22459 | if(node_states.size()>Nnodes) node_states.resize(Nnodes); | ~~~~~~~~~~~~~~~~~~^~~~~~~ phylogenetics_cpp_routines.cpp:22460:39: warning: comparison of integer expressions of different signedness: ‘std::vector::size_type’ {aka ‘long unsigned int’} and ‘const long int’ [-Wsign-compare] 22460 | if(node_standard_errors.size()>Nnodes) node_standard_errors.resize(Nnodes); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~ phylogenetics_cpp_routines.cpp:22461:29: warning: comparison of integer expressions of different signedness: ‘std::vector::size_type’ {aka ‘long unsigned int’} and ‘const long int’ [-Wsign-compare] 22461 | if(node_CI95s.size()>Nnodes) node_CI95s.resize(Nnodes); | ~~~~~~~~~~~~~~~~~^~~~~~~ phylogenetics_cpp_routines.cpp: In function ‘Rcpp::NumericVector apply_BM_parsimony_to_missing_clades_CPP(long int, long int, long int, const std::vector&, Rcpp::LogicalVector, std::vector)’: phylogenetics_cpp_routines.cpp:22502:37: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 22502 | for(long q=0, node, clade; q::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 22537 | for(long i=0, tip; i::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 22556 | for(long i=0, tip; i::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 22576 | for(long i=0, tip; i::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 22781 | for(long s=0; s::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 22795 | for(long s=0; s::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 22887 | for(long i=0; i::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 22900 | for(long i=0; i::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 22905 | for(long i=0; i::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 22925 | for(long s=0; s::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 22947 | for(long s=0; s::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 22970 | for(long s=0; s::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 22994 | for(long s=0; s::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 23177 | for(long s=0; s::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 23190 | for(long s=0; s::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 23207 | for(long s=0; s::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 23229 | for(long s=0; s&, const std::vector&, const std::vector&, const std::vector&, const std::vector&, double, double, double, double, double, double, bool, std::vector >&, std::string&, double&, long int&, MuSSEmodelE&, MuSSEmodelD&, std::vector > >&, std::vector >&)’: phylogenetics_cpp_routines.cpp:23478:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 23478 | for(long a=0; a&, const std::vector&, const std::vector&, std::vector, const std::vector&, double, double, double, double, long int, double, bool)’: phylogenetics_cpp_routines.cpp:24303:40: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 24303 | for(long i=0; i&, const std::vector&, const std::vector&, const std::vector&, bool, bool, long int)’: phylogenetics_cpp_routines.cpp:26559:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 26559 | for(long q=0; q&, const std::vector&, double, double, double, bool, bool, long int)’: phylogenetics_cpp_routines.cpp:26639:32: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 26639 | for(long q=0; q&, const std::vector&, double, double, double, bool, bool, long int)’: phylogenetics_cpp_routines.cpp:26721:32: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 26721 | for(long q=0; q&, const std::vector&, const std::vector&, double, bool, bool, long int)’: phylogenetics_cpp_routines.cpp:26792:32: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 26792 | for(long q=0; q&, const std::vector&, const std::vector&, const std::vector&, bool, bool, long int)’: phylogenetics_cpp_routines.cpp:26872:32: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 26872 | for(long q=0; q&, const std::vector&, const std::vector&, double, bool, bool, bool, long int)’: phylogenetics_cpp_routines.cpp:26964:32: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 26964 | for(long q=0; q::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 27076 | for(long i=0; i::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 27079 | for(long i=0; i::size_type’ {aka ‘long unsigned int’} and ‘long int’ [-Wsign-compare] 27085 | if(only_sampled_tips && (sampled_tips.size()::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 27122 | for(long new_clade=0; new_clade::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 27128 | for(long i=0; i::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 27131 | for(long i=0; i&, const std::vector&, const std::vector&, bool, bool, long int, bool, bool, bool, bool)’: phylogenetics_cpp_routines.cpp:27217:75: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘const long int’ [-Wsign-compare] 27217 | while(((max_tips<=0) || ((coalescent ? extant_tips.size() : Ntips)::size_type’ {aka ‘long unsigned int’} and ‘const long int’ [-Wsign-compare] 27217 | while(((max_tips<=0) || ((coalescent ? extant_tips.size() : Ntips)&, const std::vector&, const std::vector&, const std::vector&, const std::vector&, long int, const std::vector&, const std::vector&, const std::vector&, bool, bool, double, bool, bool, bool, bool)’: phylogenetics_cpp_routines.cpp:27432:100: warning: comparison of integer expressions of different signedness: ‘std::vector::size_type’ {aka ‘long unsigned int’} and ‘const long int’ [-Wsign-compare] 27432 | while(((max_tips<=0) || (Ntips::size_type’ {aka ‘long unsigned int’} and ‘const long int’ [-Wsign-compare] 27432 | while(((max_tips<=0) || (Ntips::size_type’ {aka ‘long unsigned int’} and ‘const long int’ [-Wsign-compare] 27432 | while(((max_tips<=0) || (Ntips::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 27618 | for(long nc=0; nc::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 27625 | for(long nc=0; nc::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 27632 | for(long nc=0; nc&, const std::vector&, const std::vector&, const std::vector&, const std::vector&, bool, bool, bool, bool, bool, bool)’: phylogenetics_cpp_routines.cpp:28941:34: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 28941 | for(long nc=0; nc::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 28947 | for(long nc=0; nc::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 28952 | for(long nc=0; nc&, const std::vector&, const std::vector&, const std::vector&, const std::vector&, long int, bool, long int, bool, bool, bool, bool)’: phylogenetics_cpp_routines.cpp:29620:38: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 29620 | for(long stip=0; stip&, double, EdgeLengthUnit, double, double, long int, std::vector&, long int&, std::vector&, std::vector&, std::vector&, std::vector&, std::vector&)’: phylogenetics_cpp_routines.cpp:29864:44: warning: comparison of integer expressions of different signedness: ‘std::vector::size_type’ {aka ‘long unsigned int’} and ‘long int’ [-Wsign-compare] 29864 | if(clade2tail_length.size()<=next_clade) clade2tail_length.resize(next_clade+1); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ phylogenetics_cpp_routines.cpp:29866:42: warning: comparison of integer expressions of different signedness: ‘std::vector::size_type’ {aka ‘long unsigned int’} and ‘long int’ [-Wsign-compare] 29866 | if(clade2tail_time.size()<=next_clade) clade2tail_time.resize(next_clade+1); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ phylogenetics_cpp_routines.cpp:29875:41: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 29875 | for(long orphan=0, clade; orphan&, std::vector&, long int&, std::vector&, std::vector&, std::vector&)’: phylogenetics_cpp_routines.cpp:29928:40: warning: comparison of integer expressions of different signedness: ‘std::vector::size_type’ {aka ‘long unsigned int’} and ‘long int’ [-Wsign-compare] 29928 | if(clade_heights.size()<=next_clade) clade_heights.resize(next_clade+1); | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ phylogenetics_cpp_routines.cpp: In function ‘bool generate_gene_tree_in_species_tree_MSC(long int, long int, long int, const std::vector&, const std::vector&, const std::vector&, const std::vector&, const std::vector&, const std::vector&, const std::string&, long int, bool, bool, long int, long int&, long int&, long int&, long int&, std::vector&, std::vector&, std::vector&, std::vector&, std::vector&, std::string&)’: phylogenetics_cpp_routines.cpp:29978:64: warning: comparison of integer expressions of different signedness: ‘std::vector::size_type’ {aka ‘long unsigned int’} and ‘const long int’ [-Wsign-compare] 29978 | const bool got_allele_counts = (allele_counts.size()==NStips); | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~ phylogenetics_cpp_routines.cpp:29979:67: warning: comparison of integer expressions of different signedness: ‘std::vector::size_type’ {aka ‘long unsigned int’} and ‘const long int’ [-Wsign-compare] 29979 | const bool got_population_sizes = (population_sizes.size()==NSclades); | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ phylogenetics_cpp_routines.cpp:29980:67: warning: comparison of integer expressions of different signedness: ‘std::vector::size_type’ {aka ‘long unsigned int’} and ‘const long int’ [-Wsign-compare] 29980 | const bool got_generation_times = (generation_times.size()==NSclades); | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ phylogenetics_cpp_routines.cpp:29981:65: warning: comparison of integer expressions of different signedness: ‘std::vector::size_type’ {aka ‘long unsigned int’} and ‘const long int’ [-Wsign-compare] 29981 | const bool got_mutation_rates = (mutation_rates.size()==NSclades); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ phylogenetics_cpp_routines.cpp:30007:31: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 30007 | for(long q=0, clade; q::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 30024 | for(allele=0; allele::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 30109 | for(long orphan=0; orphan&, const std::vector&, const std::vector&, const std::vector&, const std::vector&, const std::vector&, const std::vector&, const std::vector&, const std::vector&, const std::string&, long int, bool, bool, long int, bool, bool, double, double, bool)’: phylogenetics_cpp_routines.cpp:30263:83: warning: comparison of integer expressions of different signedness: ‘std::vector::size_type’ {aka ‘long unsigned int’} and ‘const long int’ [-Wsign-compare] 30263 | const bool got_population_sizes = (population_sizes.size()==NSclades); | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ phylogenetics_cpp_routines.cpp:30264:83: warning: comparison of integer expressions of different signedness: ‘std::vector::size_type’ {aka ‘long unsigned int’} and ‘const long int’ [-Wsign-compare] 30264 | const bool got_generation_times = (generation_times.size()==NSclades); | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ phylogenetics_cpp_routines.cpp:30265:81: warning: comparison of integer expressions of different signedness: ‘std::vector::size_type’ {aka ‘long unsigned int’} and ‘const long int’ [-Wsign-compare] 30265 | const bool got_mutation_rates = (mutation_rates.size()==NSclades); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ phylogenetics_cpp_routines.cpp:30266:80: warning: comparison of integer expressions of different signedness: ‘std::vector::size_type’ {aka ‘long unsigned int’} and ‘const long int’ [-Wsign-compare] 30266 | const bool got_allele_counts = (allele_counts.size()==NStips); | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~ phylogenetics_cpp_routines.cpp:30267:84: warning: comparison of integer expressions of different signedness: ‘std::vector::size_type’ {aka ‘long unsigned int’} and ‘const long int’ [-Wsign-compare] 30267 | const bool got_HGT_rates = (HGT_rates.size()==NSclades); | ~~~~~~~~~~~~~~~~^~~~~~~~~~ phylogenetics_cpp_routines.cpp:30268:84: warning: comparison of integer expressions of different signedness: ‘std::vector::size_type’ {aka ‘long unsigned int’} and ‘const long int’ [-Wsign-compare] 30268 | const bool got_duplication_rates = (duplication_rates.size()==NSclades); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ phylogenetics_cpp_routines.cpp:30269:85: warning: comparison of integer expressions of different signedness: ‘std::vector::size_type’ {aka ‘long unsigned int’} and ‘const long int’ [-Wsign-compare] 30269 | const bool got_loss_rates = (loss_rates.size()==NSclades); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ phylogenetics_cpp_routines.cpp:30290:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 30290 | for(long q=0; q::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 30297 | for(long q=0, clade; q::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 30400 | for(long l=0, locus, new_locus; l::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 30426 | for(long l=0, locus; l&, const std::vector&, double, double, double, double, dvector&, dvector&)’: phylogenetics_cpp_routines.cpp:31245:48: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 31245 | for(long q=0, parent, child, e, edge; q&, double, double, double, double)’: phylogenetics_cpp_routines.cpp:31361:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 31361 | for(long t=1; t::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 31834 | for(long p=0; p&, const std::vector&, const std::vector&, double, long int)’: phylogenetics_cpp_routines.cpp:31876:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 31876 | for(long d=0; d&, const std::vector&, const std::vector&, const std::vector&, const std::vector&, const std::vector&, long int, long int, const std::vector&, double, long int)’: phylogenetics_cpp_routines.cpp:31914:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 31914 | for(long d=0; d&)’: phylogenetics_cpp_routines.cpp:32076:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 32076 | for(long p=0; p >::size_type’ {aka ‘long unsigned int’} and ‘const long int’ [-Wsign-compare] 32557 | if(parts.size()<=distances_column){ | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ phylogenetics_cpp_routines.cpp:32585:56: warning: comparison of integer expressions of different signedness: ‘std::vector::size_type’ {aka ‘long unsigned int’} and ‘const long int’ [-Wsign-compare] 32585 | if((max_Nedges>=0) && (distances.size()>=max_Nedges)) break; | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~ phylogenetics_cpp_routines.cpp: In instantiation of ‘void multiply_array_with_scalar(ARRAY_TYPE&, double) [with ARRAY_TYPE = std::vector]’: phylogenetics_cpp_routines.cpp:5326:29: required from here 5326 | multiply_array_with_scalar(A,factor); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ phylogenetics_cpp_routines.cpp:580:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 580 | for(long i=0; i]’: phylogenetics_cpp_routines.cpp:5521:34: required from here 5521 | epsilon /= get_norm_L2_of_vector(balances) * get_norm_L2_of_inverted_vector(balances); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ phylogenetics_cpp_routines.cpp:4927:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 4927 | for(long i=0; i]’: phylogenetics_cpp_routines.cpp:5521:77: required from here 5521 | epsilon /= get_norm_L2_of_vector(balances) * get_norm_L2_of_inverted_vector(balances); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ phylogenetics_cpp_routines.cpp:4935:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 4935 | for(long i=0; i&) [with TYPE = long int]’: phylogenetics_cpp_routines.cpp:8734:48: required from here 8734 | const long NR = (end_c-start_c+1) + vector_sum(dN); | ~~~~~~~~~~^~~~ phylogenetics_cpp_routines.cpp:692:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 692 | for(long i=0; i maxError) && (impCount&, const std::vector&, long int, long int, double, bool, bool, REAL_TYPE&, REAL_TYPE&, REAL_TYPE&, long int&) [with REAL_TYPE = double]’: phylogenetics_cpp_routines.cpp:9326:40: required from here 9326 | if(fitLeastSquares_affine_real_scalar(X, logY, start, end, Xshift[n], false, false, A[n], rate[n], RSS, count[n])){ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ phylogenetics_cpp_routines.cpp:9188:21: warning: comparison of integer expressions of different signedness: ‘std::vector::size_type’ {aka ‘long unsigned int’} and ‘const long int’ [-Wsign-compare] 9188 | if((x.size()<=end) || (y.size()<=end)) return false; | ~~~~~~~~~^~~~~~ phylogenetics_cpp_routines.cpp:9188:40: warning: comparison of integer expressions of different signedness: ‘std::vector::size_type’ {aka ‘long unsigned int’} and ‘const long int’ [-Wsign-compare] 9188 | if((x.size()<=end) || (y.size()<=end)) return false; | ~~~~~~~~~^~~~~~ phylogenetics_cpp_routines.cpp: In instantiation of ‘std::vector& operator*=(std::vector&, double) [with TYPE = double]’: phylogenetics_cpp_routines.cpp:9760:24: required from here 9760 | Acoeff *= (Ngrid-1.0)/Aend; | ^~~~ phylogenetics_cpp_routines.cpp:3450:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 3450 | for(long i=0; i&, std::vector&, std::vector&, std::vector&, bool, const std::string&) [with ARRAY_TYPE = std::vector; std::string = std::__cxx11::basic_string]’: phylogenetics_cpp_routines.cpp:12143:33: required from here 12143 | get_tree_traversal_root_to_tips(Ntips, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~ 12144 | Nnodes, | ~~~~~~~ 12145 | Nedges, | ~~~~~~~ 12146 | -1, | ~~~ 12147 | tree_edge, | ~~~~~~~~~~ 12148 | include_tips, | ~~~~~~~~~~~~~ 12149 | false, | ~~~~~~ 12150 | queue, | ~~~~~~ 12151 | node2first_edge, | ~~~~~~~~~~~~~~~~ 12152 | node2last_edge, | ~~~~~~~~~~~~~~~ 12153 | edges, | ~~~~~~ 12154 | false, | ~~~~~~ 12155 | ""); | ~~~ phylogenetics_cpp_routines.cpp:12116:28: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 12116 | while(queue_pointer&) [with TYPE = double]’: phylogenetics_cpp_routines.cpp:12801:36: required from here 12801 | const double root_age = vector_max(ages); | ~~~~~~~~~~^~~~~~ phylogenetics_cpp_routines.cpp:770:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 770 | for(long i=0; i&, std::vector&) [with TYPE = double]’: phylogenetics_cpp_routines.cpp:13898:14: required from here 13898 | qsortIndices(distances_from_root, chronological_clade_order); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ phylogenetics_cpp_routines.cpp:1071:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1071 | for(long n=0; n&) [with TYPE = long int]’: phylogenetics_cpp_routines.cpp:14197:33: required from here 14197 | const long Nsplits = vector_max(node2child_count); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~ phylogenetics_cpp_routines.cpp:770:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 770 | for(long i=0; i&) [with ARRAY_TYPE = std::vector]’: phylogenetics_cpp_routines.cpp:14866:30: required from here 14866 | sort_tree_edges_root_to_tips( Ntips, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ 14867 | Nnodes, | ~~~~~~~ 14868 | Nedges, | ~~~~~~~ 14869 | depth_first_search, | ~~~~~~~~~~~~~~~~~~~ 14870 | root_to_tips, | ~~~~~~~~~~~~~ 14871 | tree_edge, | ~~~~~~~~~~ 14872 | new2old_edge); | ~~~~~~~~~~~~~ phylogenetics_cpp_routines.cpp:14838:36: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 14838 | while(queue_pointer&, std::vector&, std::vector&, long int&, double&) [with ARRAY_INT = std::vector; ARRAY_DOUBLE = std::vector; lvector = std::vector]’: phylogenetics_cpp_routines.cpp:15102:40: required from here 15102 | get_tree_with_collapsed_monofurcations( Ntips, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ 15103 | Nnodes, | ~~~~~~~ 15104 | Nedges, | ~~~~~~~ 15105 | root, | ~~~~~ 15106 | force_keep_root, | ~~~~~~~~~~~~~~~~ 15107 | force_keep_nodes, | ~~~~~~~~~~~~~~~~~ 15108 | tree_edge, | ~~~~~~~~~~ 15109 | edge_length, | ~~~~~~~~~~~~ 15110 | new_tree_edge, | ~~~~~~~~~~~~~~ 15111 | new_edge_length, | ~~~~~~~~~~~~~~~~ 15112 | new2old_node, | ~~~~~~~~~~~~~ 15113 | new_root, | ~~~~~~~~~ 15114 | root_shift); | ~~~~~~~~~~~ phylogenetics_cpp_routines.cpp:14998:32: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 14998 | for(long fn=0, node; fn::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 15012 | for(long q=0; q::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 15035 | for(long q=0; q&, std::vector&, std::vector&, long int&, long int&, long int&, long int&, long int&, double&) [with ARRAY_INT = std::vector; ARRAY_DOUBLE = std::vector; lvector = std::vector]’: phylogenetics_cpp_routines.cpp:15714:32: required from here 15714 | get_subtree_with_specific_tips( Ntips, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ 15715 | Nnodes, | ~~~~~~~ 15716 | Nedges, | ~~~~~~~ 15717 | tree_edge, | ~~~~~~~~~~ 15718 | edge_length, | ~~~~~~~~~~~~ 15719 | tips_to_keep, | ~~~~~~~~~~~~~ 15720 | collapse_monofurcations, | ~~~~~~~~~~~~~~~~~~~~~~~~ 15721 | force_keep_root, | ~~~~~~~~~~~~~~~~ 15722 | lvector(), | ~~~~~~~~~~ 15723 | new_tree_edge, | ~~~~~~~~~~~~~~ 15724 | new_edge_length, | ~~~~~~~~~~~~~~~~ 15725 | new2old_clade, | ~~~~~~~~~~~~~~ 15726 | new_root, | ~~~~~~~~~ 15727 | old_stem_edge, | ~~~~~~~~~~~~~~ 15728 | Ntips_kept, | ~~~~~~~~~~~ 15729 | Nnodes_kept, | ~~~~~~~~~~~~ 15730 | Nedges_kept, | ~~~~~~~~~~~~ 15731 | root_shift); | ~~~~~~~~~~~ phylogenetics_cpp_routines.cpp:15572:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 15572 | for(long t=0; t::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 15575 | for(long fn=0; fn::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 15648 | for(long fn=0, new_clade; fn; ARRAY_TYPE_D = std::vector; dvector = std::vector]’: phylogenetics_cpp_routines.cpp:16941:26: required from here 16941 | get_distances_from_root(Ntips, Nnodes, Nedges, tree_edge, edge_length, traversal, clade_times); | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ phylogenetics_cpp_routines.cpp:12742:31: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 12742 | for(long q=0, clade; q&, TYPE2, long int) [with TYPE1 = long int; TYPE2 = long int]’: phylogenetics_cpp_routines.cpp:18421:33: required from here 18421 | fa = find_in_ascending_list(membershipsA[nodeA],f,fa+1); | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ phylogenetics_cpp_routines.cpp:486:28: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 486 | for(long n=start; n operator/(std::vector, double) [with TYPE = double]’: phylogenetics_cpp_routines.cpp:22770:19: required from here 22770 | shape = initial/initial_mean; | ^~~~~~~~~~~~ phylogenetics_cpp_routines.cpp:3532:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 3532 | for(long i=0; i operator*(std::vector, double) [with TYPE = double]’: phylogenetics_cpp_routines.cpp:22833:27: required from here 22833 | rateY = YA - currentY*rateS; | ^~~~~ phylogenetics_cpp_routines.cpp:3432:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 3432 | for(long i=0; i operator-(std::vector, const std::vector&) [with TYPE = double]’: phylogenetics_cpp_routines.cpp:22833:27: required from here 22833 | rateY = YA - currentY*rateS; | ^~~~~ phylogenetics_cpp_routines.cpp:3486:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 3486 | for(long i=0; i operator+(std::vector, const std::vector&) [with TYPE = double]’: phylogenetics_cpp_routines.cpp:22942:66: required from here 22942 | candidate_state = previous_state*(1-lambda) + candidate_state*lambda; | ^~~~~~ phylogenetics_cpp_routines.cpp:3459:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 3459 | for(long i=0; i&) [with TYPE = double]’: phylogenetics_cpp_routines.cpp:23006:22: required from here 23006 | return contains_nan(state); | ~~~~~~~~~~~~^~~~~~~ phylogenetics_cpp_routines.cpp:865:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 865 | for(long i=0; i& operator*=(std::vector&, const std::vector&) [with TYPE = double]’: phylogenetics_cpp_routines.cpp:23366:32: required from here 23366 | posteriors[node] *= modelD.initial; | ^~~~~~~ phylogenetics_cpp_routines.cpp:3423:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 3423 | for(long i=0; i&) [with TYPE = double]’: phylogenetics_cpp_routines.cpp:23387:30: required from here 23387 | const double S = vector_sum(posteriors[node]); | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~ phylogenetics_cpp_routines.cpp:692:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 692 | for(long i=0; i& operator/=(std::vector&, double) [with TYPE = double]’: phylogenetics_cpp_routines.cpp:23388:23: required from here 23388 | posteriors[node] /= S; | ^ phylogenetics_cpp_routines.cpp:3541:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 3541 | for(long i=0; i operator*(std::vector, const std::vector&) [with TYPE = double]’: phylogenetics_cpp_routines.cpp:23396:56: required from here 23396 | loglikelihood += log(vector_sum(posteriors[root_node]*root_prior)); | ^~~~~~~~~~ phylogenetics_cpp_routines.cpp:3414:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 3414 | for(long i=0; i&, const std::vector&) [with TYPE = double]’: phylogenetics_cpp_routines.cpp:23906:38: required from here 23906 | loglikelihood += log(scalar_product(substem_D,substem_prior)); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ phylogenetics_cpp_routines.cpp:715:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘const long unsigned int’ [-Wsign-compare] 715 | for(long i=0; i& operator-=(std::vector&, const std::vector&) [with TYPE = double]’: phylogenetics_cpp_routines.cpp:24305:83: required from here 24305 | dvector coarse_diversification_rates = lambdas; coarse_diversification_rates -= mus; | ^~~ phylogenetics_cpp_routines.cpp:3504:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 3504 | for(long i=0; i abs(std::vector) [with TYPE = double]’: phylogenetics_cpp_routines.cpp:24925:48: required from here 24925 | dvector coarse_abs_diversification_rates = abs(coarse_diversification_rates); | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ phylogenetics_cpp_routines.cpp:3550:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 3550 | for(long i=0; i::getMaxAbs() const [with VALUE_TYPE = double]’: phylogenetics_cpp_routines.cpp:25417:26: required from here 25417 | return lambda.getMaxAbs() + mu.getMaxAbs() + psi.getMaxAbs(); | ~~~~~~~~~~~~~~~~^~ phylogenetics_cpp_routines.cpp:2646:32: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 2646 | for(long i=0; i::getMaxAbs(double, double) const [with VALUE_TYPE = double]’: phylogenetics_cpp_routines.cpp:25422:26: required from here 25422 | return lambda.getMaxAbs(start_time,end_time) + mu.getMaxAbs(start_time,end_time) + psi.getMaxAbs(start_time,end_time); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ phylogenetics_cpp_routines.cpp:2657:32: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 2657 | for(long i=0; i& operator+=(std::vector&, const TYPE&) [with TYPE = long int]’: phylogenetics_cpp_routines.cpp:25845:20: required from here 25845 | NCSAcrossings += 1l; | ^~ phylogenetics_cpp_routines.cpp:3477:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 3477 | for(long i=0; i operator-(std::vector, const TYPE&) [with TYPE = long int]’: phylogenetics_cpp_routines.cpp:27088:52: required from here 27088 | lvector force_keep_nodes = sampled_node_clades - Ntips; | ^~~~~ phylogenetics_cpp_routines.cpp:3495:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 3495 | for(long i=0; i&, long int) [with TYPE = long int]’: phylogenetics_cpp_routines.cpp:27554:27: required from here 27554 | remove_item_from_vector(extant_tips, tip); | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ phylogenetics_cpp_routines.cpp:918:17: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 918 | if(index==list.size()-1){ | ~~~~~^~~~~~~~~~~~~~~ phylogenetics_cpp_routines.cpp: In instantiation of ‘void simulate_SBM_on_tree(long int, long int, long int, const std::vector&, const std::vector&, double, const DFUNCTOR&, double, double, dvector&, dvector&) [with DFUNCTOR = PiecewisePolynomial; dvector = std::vector]’: phylogenetics_cpp_routines.cpp:31394:22: required from here 31394 | simulate_SBM_on_tree( Ntips, | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ 31395 | Nnodes, | ~~~~~~~ 31396 | Nedges, | ~~~~~~~ 31397 | tree_edge, | ~~~~~~~~~~ 31398 | edge_length, | ~~~~~~~~~~~~ 31399 | radius, | ~~~~~~~ 31400 | diffusivity_integral, | ~~~~~~~~~~~~~~~~~~~~~ 31401 | root_theta, | ~~~~~~~~~~~ 31402 | root_phi, | ~~~~~~~~~ 31403 | clade_theta, | ~~~~~~~~~~~~ 31404 | clade_phi); | ~~~~~~~~~~ phylogenetics_cpp_routines.cpp:31296:48: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 31296 | for(long q=0, parent, child, e, edge; q&, TYPE2) [with TYPE1 = double; TYPE2 = double]’: phylogenetics_cpp_routines.cpp:5400:27: required from ‘long int min_polynomials_for_positive_exponential_of_irreducible_matrix(long int, const ARRAY_TYPE&) [with ARRAY_TYPE = std::vector]’ 5400 | if(find_first_occurrence(sum_of_powers, 0.0)<0) return (p+1); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ phylogenetics_cpp_routines.cpp:21465:94: required from here 21465 | const long min_polynomials = min_polynomials_for_positive_exponential_of_irreducible_matrix(Nstates, transition_matrix); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ phylogenetics_cpp_routines.cpp:468:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 468 | for(long n=0; n operator*(double, std::vector) [with TYPE = double]’: phylogenetics_cpp_routines.cpp:10194:64: required from ‘LinearInterpolationFunctor::LinearInterpolationFunctor(const std::vector&, const std::vector&, bool, const VALUE_TYPE&, const VALUE_TYPE&, bool, double) [with VALUE_TYPE = std::vector]’ 10194 | referenceValues[0] = referenceValues[referenceCount-1] = 0.5*(referenceValues[0] + referenceValues[referenceCount-1]); | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ phylogenetics_cpp_routines.cpp:23339:141: required from here 23339 | modelD.E = LinearInterpolationFunctor(modelE.ages,modelE.trajectory,false,modelE.trajectory[0],modelE.trajectory.back(),true,0); | ^ phylogenetics_cpp_routines.cpp:3441:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 3441 | for(long i=0; i&, double, const std::vector&, std::vector&) [with TYPE = double]’: phylogenetics_cpp_routines.cpp:7458:21: required from ‘bool RungeKutta2(double, double, double, MODEL&, double, double, double, double, long int, double, const PROGRESS_REPORTER&, double, std::string&) [with COORDINATE = std::vector; MODEL = MuSSEmodelE; PROGRESS_REPORTER = ProgressReporter; std::string = std::__cxx11::basic_string]’ 7458 | linear_combination(1.0,currentPoint,current_dt1,k1,point2); // point2 = currentPoint + k1*current_dt1; | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ phylogenetics_cpp_routines.cpp:23441:9: required from here 23440 | bool success = RungeKutta2 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 23441 | (0, // start_time | ^~~~~~~~~~~~~~~~~ 23442 | oldest_age, // end_time | ~~~~~~~~~~~~~~~~~~~~~~~ 23443 | max(0.000001*oldest_age,min(0.2*oldest_age,relative_ODE_step/maxErate)), // default integration time step | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 23444 | modelE, | ~~~~~~~ 23445 | minRecordingTimeStep, | ~~~~~~~~~~~~~~~~~~~~~ 23446 | maxRecordingTimeStep, | ~~~~~~~~~~~~~~~~~~~~~ 23447 | guessNrecordings, | ~~~~~~~~~~~~~~~~~ 23448 | E_value_step, // recordingRelValueStep | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 23449 | 5, // maxTimeStepRefinements | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 23450 | 4, // refinement_factor | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 23451 | ProgressReporter(true), | ~~~~~~~~~~~~~~~~~~~~~~~ 23452 | (runtime_out_seconds>0 ? max(runtime_out_seconds*0.01, runtime_out_seconds+start_runtime-get_thread_monotonic_walltime_seconds()) : 0.0), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 23453 | warningMessage); | ~~~~~~~~~~~~~~~ phylogenetics_cpp_routines.cpp:431:24: warning: comparison of integer expressions of different signedness: ‘long int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 431 | for(long i=0; i&, const std::vector&)’: phylogenetics_cpp_routines.cpp:1322:25: warning: ‘t1’ may be used uninitialized [-Wmaybe-uninitialized] 1322 | W += (t2-t1) * abs(CDFY-CDFX); | ~~~^~~~ phylogenetics_cpp_routines.cpp:1306:32: note: ‘t1’ was declared here 1306 | double CDFX=0, CDFY=0, t1, t2; | ^~ phylogenetics_cpp_routines.cpp: In function ‘double solve_polynomial_via_bisection(const double*, long int, double, double, double, double, double, double, long int)’: phylogenetics_cpp_routines.cpp:2260:16: warning: ‘c’ may be used uninitialized [-Wmaybe-uninitialized] 2260 | return c; // did not converge, but the last c is the best estimate | ^ phylogenetics_cpp_routines.cpp:2206:36: note: ‘c’ was declared here 2206 | double a = Xmin, b = Xmax, c; | ^ phylogenetics_cpp_routines.cpp: In function ‘double legendre_polynomial(long int, double)’: phylogenetics_cpp_routines.cpp:30948:16: warning: ‘Pn’ may be used uninitialized [-Wmaybe-uninitialized] 30948 | return Pn; | ^~ phylogenetics_cpp_routines.cpp:30942:16: note: ‘Pn’ was declared here 30942 | double Pn; | ^~ phylogenetics_cpp_routines.cpp: In function ‘double solve_piecewise_polynomial_bisection(const dvector&, const dvector&, long int, bool, double, double, double, bool, double, double, long int, long int&, long int&)’: phylogenetics_cpp_routines.cpp:2343:16: warning: ‘c’ may be used uninitialized [-Wmaybe-uninitialized] 2343 | return c; // did not converge, but the last c is the best estimate | ^ phylogenetics_cpp_routines.cpp:2281:36: note: ‘c’ was declared here 2281 | double a = Xmin, b = Xmax, c; | ^ phylogenetics_cpp_routines.cpp: In function ‘double solve_piecewise_polynomial_sum_bisection(const dvector&, const std::vector >&, const lvector&, bool, const dvector&, double, double, double, bool, double, double, long int, long int&, long int&)’: phylogenetics_cpp_routines.cpp:2440:16: warning: ‘c’ may be used uninitialized [-Wmaybe-uninitialized] 2440 | return c; // did not converge, but the last c is the best estimate | ^ phylogenetics_cpp_routines.cpp:2373:36: note: ‘c’ was declared here 2373 | double a = Xmin, b = Xmax, c; | ^ phylogenetics_cpp_routines.cpp: In function ‘bool get_dominant_eigenvalue(long int, const dvector&, long int, double, dvector&, double&)’: phylogenetics_cpp_routines.cpp:6031:37: warning: ‘error’ may be used uninitialized [-Wmaybe-uninitialized] 6031 | return (best_error&, double, const std::vector&, const std::vector&, long int, const std::string&, double, double)’: phylogenetics_cpp_routines.cpp:25359:51: warning: ‘W_degree’ may be used uninitialized [-Wmaybe-uninitialized] 25359 | const double origin_W = polynomial_value(W_degree,&refined_W_coeff[origin_rg*(W_degree+1)],oldest_age-age_offset); | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ phylogenetics_cpp_routines.cpp:25287:24: note: ‘W_degree’ was declared here 25287 | long I_degree, W_degree, NRG; | ^~~~~~~~ phylogenetics_cpp_routines.cpp: In function ‘Rcpp::List HBD_PDR_loglikelihood_CPP(const std::vector&, double, double, const std::vector&, const std::vector&, long int, const std::string&, double, double, std::vector, long int)’: phylogenetics_cpp_routines.cpp:25186:102: warning: ‘Zdegree’ may be used uninitialized [-Wmaybe-uninitialized] 25186 | branching_Z = polynomial_value(Zdegree, &Zcoeff[d][current_g*(Zdegree+1)], branching_age-age_offset); | ~~~~~~~~^~~ phylogenetics_cpp_routines.cpp:25152:14: note: ‘Zdegree’ was declared here 25152 | long Zdegree, EZdegree, Wdegree; | ^~~~~~~ phylogenetics_cpp_routines.cpp:25187:102: warning: ‘Wdegree’ may be used uninitialized [-Wmaybe-uninitialized] 25187 | branching_W = polynomial_value(Wdegree, &Wcoeff[d][current_g*(Wdegree+1)], branching_age-age_offset); | ~~~~~~~~^~~ phylogenetics_cpp_routines.cpp:25152:33: note: ‘Wdegree’ was declared here 25152 | long Zdegree, EZdegree, Wdegree; | ^~~~~~~ phylogenetics_cpp_routines.cpp: In function ‘bool LUDecomposition(TYPE*, long unsigned int, long unsigned int*, int&) [with TYPE = double]’: phylogenetics_cpp_routines.cpp:4658:17: warning: ‘imax’ may be used uninitialized [-Wmaybe-uninitialized] 4658 | if(j != imax){ | ^~ phylogenetics_cpp_routines.cpp:4626:16: note: ‘imax’ was declared here 4626 | long i,imax,j,k; | ^~~~ phylogenetics_cpp_routines.cpp: In member function ‘void TreeSpeciationExtinctionModel::get_coalescent_trajectory(double, double, std::vector&) const’: phylogenetics_cpp_routines.cpp:10918:96: warning: ‘coalescent_diversity_at_resolution_age’ may be used uninitialized [-Wmaybe-uninitialized] 10918 | coalescent[t].Pmissing = coalescent_diversity_at_resolution_age/coalescent[t].diversity; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ phylogenetics_cpp_routines.cpp:10895:59: note: ‘coalescent_diversity_at_resolution_age’ was declared here 10895 | double total_diversity_at_resolution_age, coalescent_diversity_at_resolution_age; | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ phylogenetics_cpp_routines.cpp: In function ‘Rcpp::List simulate_fixed_rates_Markov_model_CPP(long int, long int, long int, long int, const std::vector&, const std::vector&, const std::vector&, const std::vector&, bool, bool, long int)’: phylogenetics_cpp_routines.cpp:26558:27: warning: ‘parent’ may be used uninitialized [-Wmaybe-uninitialized] 26558 | long clade, edge, parent, parent_state, state=0; | ^~~~~~ phylogenetics_cpp_routines.cpp: In function ‘Rcpp::List get_trait_richness_collectors_curve_CPP(long int, long int, long int, long int, long int, const std::vector&, const std::vector&, const std::vector&, const std::vector&, const std::vector&, const std::vector&, long int, const std::string&, bool)’: phylogenetics_cpp_routines.cpp:20142:49: warning: ‘tip’ may be used uninitialized [-Wmaybe-uninitialized] 20142 | tip_included[tip] = true; | ^ phylogenetics_cpp_routines.cpp:20005:14: note: ‘tip’ was declared here 20005 | long tip, clade, count_tips_remaining; | ^~~ In function ‘long int uniformIntWithin(long int, long int)’, inlined from ‘Rcpp::List get_trait_richness_collectors_curve_CPP(long int, long int, long int, long int, long int, const std::vector&, const std::vector&, const std::vector&, const std::vector&, const std::vector&, const std::vector&, long int, const std::string&, bool)’ at phylogenetics_cpp_routines.cpp:20102:41: phylogenetics_cpp_routines.cpp:3574:72: warning: ‘count_tips_remaining’ may be used uninitialized [-Wmaybe-uninitialized] 3574 | return min(maximum, (long) floor(minimum + (maximum-minimum+1) * R::runif(0.0,1.0))); | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ phylogenetics_cpp_routines.cpp: In function ‘Rcpp::List get_trait_richness_collectors_curve_CPP(long int, long int, long int, long int, long int, const std::vector&, const std::vector&, const std::vector&, const std::vector&, const std::vector&, const std::vector&, long int, const std::string&, bool)’: phylogenetics_cpp_routines.cpp:20005:26: note: ‘count_tips_remaining’ was declared here 20005 | long tip, clade, count_tips_remaining; | ^~~~~~~~~~~~~~~~~~~~ phylogenetics_cpp_routines.cpp: In function ‘Rcpp::List get_HBDS_model_loglikelihood_CPP(const std::vector&, const std::vector&, const std::vector&, const std::vector&, const std::vector&, const std::vector&, const std::vector&, const std::vector&, double, const std::vector&, const std::vector&, const std::vector&, const std::vector&, const std::vector&, long int, const std::string&, double, double, double)’: phylogenetics_cpp_routines.cpp:25908:110: warning: ‘logPhi_degree’ may be used uninitialized [-Wmaybe-uninitialized] 25908 | CSA_logPhi = polynomial_value(logPhi_degree, &logPhi_coeff[k][sg*(logPhi_degree+1)], age-(splines_slideX ? Phi_ages[k][sg] : 0.0)); | ~~~~~~~~~~~~~~^~~ phylogenetics_cpp_routines.cpp:25794:42: note: ‘logPhi_degree’ was declared here 25794 | long dummyL1, dummyL2, I_degree, logPhi_degree, E_degree; | ^~~~~~~~~~~~~ phylogenetics_cpp_routines.cpp: In function ‘Rcpp::List find_edge_splitting_tree_CPP(long int, long int, long int, std::vector, bool, const std::vector&, bool)’: phylogenetics_cpp_routines.cpp:16205:108: warning: ‘best_Ntargets_upstream’ may be used uninitialized [-Wmaybe-uninitialized] 16205 | else if((!descends_from_best_edge[tip]) && (Ntargets_downstream_per_clade[tip]==1) && (!targets_should_be_upstream)) misplaced_targets.push_back(tip); // misplaced upstream target | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ phylogenetics_cpp_routines.cpp:16167:30: note: ‘best_Ntargets_upstream’ was declared here 16167 | long best_edge = -1, best_Ntargets_upstream, best_Ntargets_downstream, best_Nmisplaced_targets, best_Nmisplaced_nontargets; | ^~~~~~~~~~~~~~~~~~~~~~ phylogenetics_cpp_routines.cpp: In function ‘Rcpp::List simulate_deterministic_diversity_growth_CPP(double, double, double, double, double, double, double, double, long int, const std::vector&, const std::vector&, const std::vector&, bool, const std::vector&, double, double, double, double, bool, bool, bool, bool, bool, bool, double)’: phylogenetics_cpp_routines.cpp:11139:86: warning: ‘Pmissing_at_resolution_age’ may be used uninitialized [-Wmaybe-uninitialized] 11139 | const double effective_rarefaction = rarefaction * (1-Pmissing_at_resolution_age); | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ phylogenetics_cpp_routines.cpp:11114:24: note: ‘Pmissing_at_resolution_age’ was declared here 11114 | double Pmissing_at_resolution_age, total_diversity_at_resolution_age, coalescent_diversity_at_resolution_age; | ^~~~~~~~~~~~~~~~~~~~~~~~~~ phylogenetics_cpp_routines.cpp:11147:88: warning: ‘coalescent_diversity_at_resolution_age’ may be used uninitialized [-Wmaybe-uninitialized] 11147 | Pmissing = 1.0 - coalescent_diversity_at_resolution_age/total_diversities[t]; // effective Pmissing, based on coalescent and total diversity after collapsing and rarefaction phylogenetics_cpp_routines.cpp:11114:87: note: ‘coalescent_diversity_at_resolution_age’ was declared here 11114 | double Pmissing_at_resolution_age, total_diversity_at_resolution_age, coalescent_diversity_at_resolution_age; | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include/RcppCommon.h:189, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include/Rcpp.h:27, from phylogenetics_cpp_routines.cpp:39: In function ‘SEXPREC* Rcpp::internal::primitive_wrap__impl__cast(const T&, Rcpp::traits::false_type) [with T = double]’, inlined from ‘SEXPREC* Rcpp::internal::primitive_wrap__impl(const T&, Rcpp::traits::r_type_primitive_tag) [with T = double]’ at /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include/Rcpp/internal/wrap.h:465:46, inlined from ‘SEXPREC* Rcpp::internal::primitive_wrap(const T&) [with T = double]’ at /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include/Rcpp/internal/wrap.h:489:40, inlined from ‘SEXPREC* Rcpp::internal::wrap_dispatch(const T&, Rcpp::traits::wrap_type_primitive_tag) [with T = double]’ at /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include/Rcpp/internal/wrap.h:744:34, inlined from ‘SEXPREC* Rcpp::wrap(const T&) [with T = double]’ at /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include/Rcpp/internal/wrap_end.h:30:38, inlined from ‘static SEXPREC* Rcpp::internal::generic_element_converter::get(const T&) [with T = double; int RTYPE = 19]’ at /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include/Rcpp/vector/converter.h:80:23, inlined from ‘static void Rcpp::Vector::replace_element__dispatch__isArgument(Rcpp::traits::false_type, iterator, SEXP, R_xlen_t, const U&) [with U = Rcpp::traits::named_object; int RTYPE = 19; StoragePolicy = Rcpp::PreserveStorage]’ at /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include/Rcpp/vector/Vector.h:532:13, inlined from ‘static void Rcpp::Vector::replace_element__dispatch(Rcpp::traits::true_type, iterator, SEXP, R_xlen_t, const U&) [with U = Rcpp::traits::named_object; int RTYPE = 19; StoragePolicy = Rcpp::PreserveStorage]’ at /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include/Rcpp/vector/Vector.h:525:46, inlined from ‘static void Rcpp::Vector::replace_element(iterator, SEXP, R_xlen_t, const U&) [with U = Rcpp::traits::named_object; int RTYPE = 19; StoragePolicy = Rcpp::PreserveStorage]’ at /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include/Rcpp/vector/Vector.h:514:34, inlined from ‘static void Rcpp::Vector::replace_element_impl(iterator&, Rcpp::Shield&, int&, const T&, const TArgs& ...) [with T = Rcpp::traits::named_object; TArgs = {Rcpp::traits::named_object}; int RTYPE = 19; StoragePolicy = Rcpp::PreserveStorage]’ at /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include/Rcpp/vector/Vector.h:1168:32, inlined from ‘static void Rcpp::Vector::replace_element_impl(iterator&, Rcpp::Shield&, int&, const T&, const TArgs& ...) [with T = Rcpp::traits::named_object; TArgs = {Rcpp::traits::named_object, Rcpp::traits::named_object}; int RTYPE = 19; StoragePolicy = Rcpp::PreserveStorage]’ at /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include/Rcpp/vector/Vector.h:1169:37, inlined from ‘static void Rcpp::Vector::replace_element_impl(iterator&, Rcpp::Shield&, int&, const T&, const TArgs& ...) [with T = Rcpp::traits::named_object; TArgs = {Rcpp::traits::named_object, Rcpp::traits::named_object, Rcpp::traits::named_object}; int RTYPE = 19; StoragePolicy = Rcpp::PreserveStorage]’ at /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include/Rcpp/vector/Vector.h:1169:37, inlined from ‘static void Rcpp::Vector::replace_element_impl(iterator&, Rcpp::Shield&, int&, const T&, const TArgs& ...) [with T = Rcpp::traits::named_object; TArgs = {Rcpp::traits::named_object, Rcpp::traits::named_object, Rcpp::traits::named_object, Rcpp::traits::named_object}; int RTYPE = 19; StoragePolicy = Rcpp::PreserveStorage]’ at /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include/Rcpp/vector/Vector.h:1169:37, inlined from ‘static void Rcpp::Vector::replace_element_impl(iterator&, Rcpp::Shield&, int&, const T&, const TArgs& ...) [with T = Rcpp::traits::named_object; TArgs = {Rcpp::traits::named_object, Rcpp::traits::named_object, Rcpp::traits::named_object, Rcpp::traits::named_object, Rcpp::traits::named_object}; int RTYPE = 19; StoragePolicy = Rcpp::PreserveStorage]’ at /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include/Rcpp/vector/Vector.h:1169:37, inlined from ‘static void Rcpp::Vector::replace_element_impl(iterator&, Rcpp::Shield&, int&, const T&, const TArgs& ...) [with T = Rcpp::traits::named_object; TArgs = {Rcpp::traits::named_object, Rcpp::traits::named_object, Rcpp::traits::named_object, Rcpp::traits::named_object, Rcpp::traits::named_object, Rcpp::traits::named_object}; int RTYPE = 19; StoragePolicy = Rcpp::PreserveStorage]’ at /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include/Rcpp/vector/Vector.h:1169:37, inlined from ‘static void Rcpp::Vector::replace_element_impl(iterator&, Rcpp::Shield&, int&, const T&, const TArgs& ...) [with T = Rcpp::traits::named_object; TArgs = {Rcpp::traits::named_object, Rcpp::traits::named_object, Rcpp::traits::named_object, Rcpp::traits::named_object, Rcpp::traits::named_object, Rcpp::traits::named_object, Rcpp::traits::named_object}; int RTYPE = 19; StoragePolicy = Rcpp::PreserveStorage]’ at /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include/Rcpp/vector/Vector.h:1169:37, inlined from ‘static void Rcpp::Vector::replace_element_impl(iterator&, Rcpp::Shield&, int&, const T&, const TArgs& ...) [with T = Rcpp::traits::named_object; TArgs = {Rcpp::traits::named_object, Rcpp::traits::named_object, Rcpp::traits::named_object, Rcpp::traits::named_object, Rcpp::traits::named_object, Rcpp::traits::named_object, Rcpp::traits::named_object, Rcpp::traits::named_object}; int RTYPE = 19; StoragePolicy = Rcpp::PreserveStorage]’ at /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include/Rcpp/vector/Vector.h:1169:37, inlined from ‘static void Rcpp::Vector::replace_element_impl(iterator&, Rcpp::Shield&, int&, const T&, const TArgs& ...) [with T = Rcpp::traits::named_object; TArgs = {Rcpp::traits::named_object, Rcpp::traits::named_object, Rcpp::traits::named_object, Rcpp::traits::named_object, Rcpp::traits::named_object, Rcpp::traits::named_object, Rcpp::traits::named_object, Rcpp::traits::named_object, Rcpp::traits::named_object}; int RTYPE = 19; StoragePolicy = Rcpp::PreserveStorage]’ at /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include/Rcpp/vector/Vector.h:1169:37, inlined from ‘static void Rcpp::Vector::replace_element_impl(iterator&, Rcpp::Shield&, int&, const T&, const TArgs& ...) [with T = Rcpp::traits::named_object; TArgs = {Rcpp::traits::named_object, Rcpp::traits::named_object, Rcpp::traits::named_object, Rcpp::traits::named_object, Rcpp::traits::named_object, Rcpp::traits::named_object, Rcpp::traits::named_object, Rcpp::traits::named_object, Rcpp::traits::named_object, Rcpp::traits::named_object}; int RTYPE = 19; StoragePolicy = Rcpp::PreserveStorage]’ at /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include/Rcpp/vector/Vector.h:1169:37, inlined from ‘static void Rcpp::Vector::replace_element_impl(iterator&, Rcpp::Shield&, int&, const T&, const TArgs& ...) [with T = Rcpp::traits::named_object; TArgs = {Rcpp::traits::named_object, Rcpp::traits::named_object, Rcpp::traits::named_object, Rcpp::traits::named_object, Rcpp::traits::named_object, Rcpp::traits::named_object, Rcpp::traits::named_object, Rcpp::traits::named_object, Rcpp::traits::named_object, Rcpp::traits::named_object, Rcpp::traits::named_object}; int RTYPE = 19; StoragePolicy = Rcpp::PreserveStorage]’ at /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include/Rcpp/vector/Vector.h:1169:37, inlined from ‘static Rcpp::Vector Rcpp::Vector::create__dispatch(Rcpp::traits::true_type, const T& ...) [with T = {Rcpp::traits::named_object, Rcpp::traits::named_object, Rcpp::traits::named_object, Rcpp::traits::named_object, Rcpp::traits::named_object, Rcpp::traits::named_object, Rcpp::traits::named_object, Rcpp::traits::named_object, Rcpp::traits::named_object, Rcpp::traits::named_object, Rcpp::traits::named_object, Rcpp::traits::named_object}; int RTYPE = 19; StoragePolicy = Rcpp::PreserveStorage]’ at /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include/Rcpp/vector/Vector.h:1148:37, inlined from ‘static Rcpp::Vector Rcpp::Vector::create(const T& ...) [with T = {Rcpp::traits::named_object, Rcpp::traits::named_object, Rcpp::traits::named_object, Rcpp::traits::named_object, Rcpp::traits::named_object, Rcpp::traits::named_object, Rcpp::traits::named_object, Rcpp::traits::named_object, Rcpp::traits::named_object, Rcpp::traits::named_object, Rcpp::traits::named_object, Rcpp::traits::named_object}; int RTYPE = 19; StoragePolicy = Rcpp::PreserveStorage]’ at /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include/Rcpp/vector/Vector.h:1131:33, inlined from ‘Rcpp::List read_Newick_string_CPP(std::string, bool, bool, bool, bool)’ at phylogenetics_cpp_routines.cpp:19126:39: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include/Rcpp/internal/wrap.h:442:41: warning: ‘root_edge’ may be used uninitialized [-Wmaybe-uninitialized] 442 | r_vector_start(x)[0] = object; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~ phylogenetics_cpp_routines.cpp: In function ‘Rcpp::List read_Newick_string_CPP(std::string, bool, bool, bool, bool)’: phylogenetics_cpp_routines.cpp:19042:29: note: ‘root_edge’ was declared here 19042 | double edge_length, root_edge; | ^~~~~~~~~ phylogenetics_cpp_routines.cpp: In function ‘Rcpp::NumericMatrix get_distance_matrix_between_clades_CPP(long int, long int, long int, const std::vector&, const std::vector&, const std::vector&, bool, const std::string&)’: phylogenetics_cpp_routines.cpp:13326:155: warning: ‘mrca’ may be used uninitialized [-Wmaybe-uninitialized] 13326 | distances(i,j) = distance_from_root_per_clade[cladeA] + distance_from_root_per_clade[cladeB] - 2*distance_from_root_per_clade[mrca]; | ^ phylogenetics_cpp_routines.cpp:13299:30: note: ‘mrca’ was declared here 13299 | long cladeA, cladeB, mrca; | ^~~~ gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c registerDynamicSymbol.c -o registerDynamicSymbol.o g++-14 -std=gnu++17 -shared -L/home/hornik/tmp/R-d-gcc-14/lib -Wl,-O1 -o castor.so RcppExports.o STMathExpression.o phylogenetics_cpp_routines.o registerDynamicSymbol.o -L/home/hornik/tmp/R-d-gcc-14/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpcCh1HT/R.INSTALL316e4916c1c42f/castor/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-castor/00new/castor/libs ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (castor) * installing *source* package ‘biovizBase’ ... ** this is package ‘biovizBase’ version ‘1.56.0’ ** using staged installation ** libs using C compiler: ‘gcc-14 (Debian 14.2.0-19) 14.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpzDO9CE/R.INSTALL31971777dd7b23/biovizBase/src' gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c R_init_biovizBase.c -o R_init_biovizBase.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c bin_offsets.c -o bin_offsets.o bin_offsets.c: In function ‘scan_bam_bin_offsets’: bin_offsets.c:57:15: warning: pointer targets in passing argument 1 of ‘strncmp’ differ in signedness [-Wpointer-sign] 57 | if (strncmp(b, "BAI\1", 4)) | ^ | | | Rbyte * {aka unsigned char *} In file included from /home/hornik/tmp/R-d-gcc-14/include/R_ext/RS.h:34, from /home/hornik/tmp/R-d-gcc-14/include/Rdefines.h:38, from bin_offsets.h:1, from bin_offsets.c:3: /usr/include/string.h:159:33: note: expected ‘const char *’ but argument is of type ‘Rbyte *’ {aka ‘unsigned char *’} 159 | extern int strncmp (const char *__s1, const char *__s2, size_t __n) | ~~~~~~~~~~~~^~~~ gcc-14 -std=gnu23 -shared -L/home/hornik/tmp/R-d-gcc-14/lib -Wl,-O1 -o biovizBase.so R_init_biovizBase.o bin_offsets.o -L/home/hornik/tmp/R-d-gcc-14/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpzDO9CE/R.INSTALL31971777dd7b23/biovizBase/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-biovizBase/00new/biovizBase/libs ** R ** data *** moving datasets to lazyload DB ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (biovizBase) * installing *source* package ‘pd.hg.u133.plus.2’ ... ** this is package ‘pd.hg.u133.plus.2’ version ‘3.12.0’ ** using staged installation ** R ** data ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (pd.hg.u133.plus.2) begin installing package ‘Gviz’ * installing *source* package ‘MsExperiment’ ... ** this is package ‘MsExperiment’ version ‘1.10.0’ ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (MsExperiment) * installing *source* package ‘PSMatch’ ... ** this is package ‘PSMatch’ version ‘1.12.0’ ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (PSMatch) * installing *source* package ‘pdInfoBuilder’ ... ** this is package ‘pdInfoBuilder’ version ‘1.72.0’ ** using staged installation ** libs using C compiler: ‘gcc-14 (Debian 14.2.0-19) 14.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpYfXPMK/R.INSTALL3199d522adbfe0/pdInfoBuilder/src' gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c pdInfoBuilder.c -o pdInfoBuilder.o gcc-14 -std=gnu23 -shared -L/home/hornik/tmp/R-d-gcc-14/lib -Wl,-O1 -o pdInfoBuilder.so pdInfoBuilder.o -L/home/hornik/tmp/R-d-gcc-14/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpYfXPMK/R.INSTALL3199d522adbfe0/pdInfoBuilder/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-pdInfoBuilder/00new/pdInfoBuilder/libs ** R ** inst ** byte-compile and prepare package for lazy loading No methods found in package ‘RSQLite’ for request: ‘dbGetQuery’ when loading ‘pdInfoBuilder’ ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location No methods found in package ‘RSQLite’ for request: ‘dbGetQuery’ when loading ‘pdInfoBuilder’ ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location No methods found in package ‘RSQLite’ for request: ‘dbGetQuery’ when loading ‘pdInfoBuilder’ ** testing if installed package keeps a record of temporary installation path * DONE (pdInfoBuilder) * installing *source* package ‘mia’ ... ** this is package ‘mia’ version ‘1.16.0’ ** using staged installation ** libs using C++ compiler: ‘g++-14 (Debian 14.2.0-19) 14.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpJ0nNa6/R.INSTALL3198a1333b41a7/mia/src' g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c RcppExports.cpp -o RcppExports.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c assay.cpp -o assay.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c faith_R.cpp -o faith_R.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c propmap.cpp -o propmap.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c tree.cpp -o tree.o g++-14 -std=gnu++17 -shared -L/home/hornik/tmp/R-d-gcc-14/lib -Wl,-O1 -o mia.so RcppExports.o assay.o faith_R.o propmap.o tree.o -L/home/hornik/tmp/R-d-gcc-14/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpJ0nNa6/R.INSTALL3198a1333b41a7/mia/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-mia/00new/mia/libs ** R ** data ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (mia) * installing *source* package ‘methylumi’ ... ** this is package ‘methylumi’ version ‘2.54.0’ ** using staged installation ** R ** data ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (methylumi) begin installing package ‘lumi’ * installing *source* package ‘dada2’ ... ** this is package ‘dada2’ version ‘1.36.0’ ** using staged installation ** libs using C++ compiler: ‘g++-14 (Debian 14.2.0-19) 14.2.0’ using C++11 make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpEn6GJG/R.INSTALL3198581c47a2fd/dada2/src' g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c RcppExports.cpp -o RcppExports.o In file included from ../inst/include/dada2.h:7, from RcppExports.cpp:4: ../inst/include/dada2_RcppExports.h:14:14: warning: ‘void dada2::{anonymous}::validateSignature(const char*)’ defined but not used [-Wunused-function] 14 | void validateSignature(const char* sig) { | ^~~~~~~~~~~~~~~~~ g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c Rmain.cpp -o Rmain.o Rmain.cpp: In function ‘Rcpp::List dada_uniques(std::vector >, std::vector, std::vector, Rcpp::NumericMatrix, Rcpp::NumericMatrix, int, int, int, bool, double, int, double, double, double, bool, int, double, int, int, bool, bool, bool, int, bool, bool, int, bool, bool)’: Rmain.cpp:71:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 71 | if(quals.nrow() != maxlen) { | ~~~~~~~~~~~~~^~~~~~~~~ Rmain.cpp: In function ‘B* run_dada(Raw**, int, Rcpp::NumericMatrix, int, int, int, int, bool, double, int, double, double, bool, int, double, int, int, bool, bool, bool, bool, bool, int, bool, bool)’: Rmain.cpp:316:22: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 316 | while( (bb->nclust < max_clust) && (newi = b_bud(bb, min_fold, min_hamming, min_abund, verbose)) ) { | ~~~~~~~~~~~^~~~~~~~~~~ In file included from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/tbb/tbb.h:32, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/RcppParallel/TBB.h:10, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/RcppParallel.h:24, from dada.h:9, from Rmain.cpp:1: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/tbb/atomic.h: In instantiation of ‘tbb::atomic& tbb::internal::as_atomic(T&) [with T = long unsigned int]’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/tbb/tbb_thread.h:251:29: required from here 251 | return as_atomic(location.my_id).compare_and_swap(value.my_id, comparand.my_id); | ~~~~~~~~~^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/tbb/atomic.h:544:12: warning: casting ‘long unsigned int’ to ‘tbb::atomic&’ does not use ‘constexpr tbb::atomic::atomic(long unsigned int)’ [-Wcast-user-defined] 544 | return (atomic&)t; | ^~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/tbb/atomic.h: In instantiation of ‘tbb::atomic& tbb::internal::as_atomic(T&) [with T = tbb::interface5::internal::hash_map_base::bucket*]’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/tbb/concurrent_hash_map.h:291:31: required from here 291 | && as_atomic(my_table[new_seg]).compare_and_swap(is_allocating, NULL) == NULL ) | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/tbb/atomic.h:544:12: warning: casting ‘tbb::interface5::internal::hash_map_base::bucket*’ to ‘tbb::atomic&’ does not use ‘constexpr tbb::atomic::atomic(T*) [with T = tbb::interface5::internal::hash_map_base::bucket]’ [-Wcast-user-defined] 544 | return (atomic&)t; | ^~~~~~~~~~~~~ Rmain.cpp: In function ‘Rcpp::List dada_uniques(std::vector >, std::vector, std::vector, Rcpp::NumericMatrix, Rcpp::NumericMatrix, int, int, int, bool, double, int, double, double, double, bool, int, double, int, int, bool, bool, bool, int, bool, bool, int, bool, bool)’: Rmain.cpp:288:9: warning: ‘k8’ may be used uninitialized [-Wmaybe-uninitialized] 288 | free(k8); | ~~~~^~~~ Rmain.cpp:122:12: note: ‘k8’ was declared here 122 | uint8_t *k8; | ^~ Rmain.cpp:289:9: warning: ‘k16’ may be used uninitialized [-Wmaybe-uninitialized] 289 | free(k16); | ~~~~^~~~~ Rmain.cpp:123:13: note: ‘k16’ was declared here 123 | uint16_t *k16; | ^~~ Rmain.cpp:290:9: warning: ‘kord’ may be used uninitialized [-Wmaybe-uninitialized] 290 | free(kord); | ~~~~^~~~~~ Rmain.cpp:124:13: note: ‘kord’ was declared here 124 | uint16_t *kord; | ^~~~ g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c chimera.cpp -o chimera.o chimera.cpp: In function ‘bool C_is_bimera(std::string, std::vector >, bool, int, int, int, int, int)’: chimera.cpp:25:12: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 25 | for(i=0;i::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 29 | if((left+right) >= sq.size()) { // Toss id/pure-shift/internal-indel "parents" | ~~~~~~~~~~~~~^~~~~~~~~~~~ chimera.cpp:44:28: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::__cxx11::basic_string::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 44 | if((max_right+max_left)>=sq.size()) { | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~ chimera.cpp:48:39: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::__cxx11::basic_string::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 48 | if((oo_max_left+oo_max_right_oo)>=sq.size() || (oo_max_left_oo+oo_max_right)>=sq.size()) { | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~ chimera.cpp:48:83: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::__cxx11::basic_string::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 48 | if((oo_max_left+oo_max_right_oo)>=sq.size() || (oo_max_left_oo+oo_max_right)>=sq.size()) { | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~ chimera.cpp: In function ‘void get_lr(char**, int&, int&, int&, int&, bool, int)’: chimera.cpp:231:33: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 231 | while(al[0][pos] == '-' && pos+(len-max_shift)) { | ~~~^~~~~~~~~~~~~~~~~ In file included from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/tbb/tbb.h:32, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/RcppParallel/TBB.h:10, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/RcppParallel.h:24, from dada.h:9, from chimera.cpp:1: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/tbb/atomic.h: In instantiation of ‘tbb::atomic& tbb::internal::as_atomic(T&) [with T = long unsigned int]’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/tbb/tbb_thread.h:251:29: required from here 251 | return as_atomic(location.my_id).compare_and_swap(value.my_id, comparand.my_id); | ~~~~~~~~~^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/tbb/atomic.h:544:12: warning: casting ‘long unsigned int’ to ‘tbb::atomic&’ does not use ‘constexpr tbb::atomic::atomic(long unsigned int)’ [-Wcast-user-defined] 544 | return (atomic&)t; | ^~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/tbb/atomic.h: In instantiation of ‘tbb::atomic& tbb::internal::as_atomic(T&) [with T = tbb::interface5::internal::hash_map_base::bucket*]’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/tbb/concurrent_hash_map.h:291:31: required from here 291 | && as_atomic(my_table[new_seg]).compare_and_swap(is_allocating, NULL) == NULL ) | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/tbb/atomic.h:544:12: warning: casting ‘tbb::interface5::internal::hash_map_base::bucket*’ to ‘tbb::atomic&’ does not use ‘constexpr tbb::atomic::atomic(T*) [with T = tbb::interface5::internal::hash_map_base::bucket]’ [-Wcast-user-defined] 544 | return (atomic&)t; | ^~~~~~~~~~~~~ g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c cluster.cpp -o cluster.o cluster.cpp: In function ‘void b_compare(B*, unsigned int, Rcpp::NumericMatrix, int, int, int, int, bool, double, int, bool, int, bool, bool, bool)’: cluster.cpp:17:23: warning: variable ‘cind’ set but not used [-Wunused-but-set-variable] 17 | unsigned int index, cind, center_reads; | ^~~~ cluster.cpp: In function ‘void b_compare_parallel(B*, unsigned int, Rcpp::NumericMatrix, int, int, int, int, bool, double, int, bool, int, bool, bool, bool)’: cluster.cpp:166:16: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 166 | for(row=0;rownclust;i++) { | ~^~~~~~~~~~ cluster.cpp:285:15: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 285 | for(r=1; rbi[i]->nraw; r++) { // r=0 is the center | ~^~~~~~~~~~~~~~~ cluster.cpp:288:21: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 288 | if(raw->reads < min_abund) { continue; } | ~~~~~~~~~~~^~~~~~~~~~~ In file included from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/tbb/tbb.h:32, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/RcppParallel/TBB.h:10, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/RcppParallel.h:24, from cluster.cpp:2: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/tbb/atomic.h: In instantiation of ‘tbb::atomic& tbb::internal::as_atomic(T&) [with T = long unsigned int]’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/tbb/tbb_thread.h:251:29: required from here 251 | return as_atomic(location.my_id).compare_and_swap(value.my_id, comparand.my_id); | ~~~~~~~~~^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/tbb/atomic.h:544:12: warning: casting ‘long unsigned int’ to ‘tbb::atomic&’ does not use ‘constexpr tbb::atomic::atomic(long unsigned int)’ [-Wcast-user-defined] 544 | return (atomic&)t; | ^~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/tbb/atomic.h: In instantiation of ‘tbb::atomic& tbb::internal::as_atomic(T&) [with T = tbb::interface5::internal::hash_map_base::bucket*]’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/tbb/concurrent_hash_map.h:291:31: required from here 291 | && as_atomic(my_table[new_seg]).compare_and_swap(is_allocating, NULL) == NULL ) | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/tbb/atomic.h:544:12: warning: casting ‘tbb::interface5::internal::hash_map_base::bucket*’ to ‘tbb::atomic&’ does not use ‘constexpr tbb::atomic::atomic(T*) [with T = tbb::interface5::internal::hash_map_base::bucket]’ [-Wcast-user-defined] 544 | return (atomic&)t; | ^~~~~~~~~~~~~ g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c containers.cpp -o containers.o containers.cpp: In function ‘void b_free(B*)’: containers.cpp:141:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 141 | for(int i=0;inclust;i++) { bi_free(b->bi[i]); } | ~^~~~~~~~~~ In file included from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/tbb/tbb.h:32, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/RcppParallel/TBB.h:10, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/RcppParallel.h:24, from containers.cpp:2: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/tbb/atomic.h: In instantiation of ‘tbb::atomic& tbb::internal::as_atomic(T&) [with T = long unsigned int]’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/tbb/tbb_thread.h:251:29: required from here 251 | return as_atomic(location.my_id).compare_and_swap(value.my_id, comparand.my_id); | ~~~~~~~~~^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/tbb/atomic.h:544:12: warning: casting ‘long unsigned int’ to ‘tbb::atomic&’ does not use ‘constexpr tbb::atomic::atomic(long unsigned int)’ [-Wcast-user-defined] 544 | return (atomic&)t; | ^~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/tbb/atomic.h: In instantiation of ‘tbb::atomic& tbb::internal::as_atomic(T&) [with T = tbb::interface5::internal::hash_map_base::bucket*]’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/tbb/concurrent_hash_map.h:291:31: required from here 291 | && as_atomic(my_table[new_seg]).compare_and_swap(is_allocating, NULL) == NULL ) | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/tbb/atomic.h:544:12: warning: casting ‘tbb::interface5::internal::hash_map_base::bucket*’ to ‘tbb::atomic&’ does not use ‘constexpr tbb::atomic::atomic(T*) [with T = tbb::interface5::internal::hash_map_base::bucket]’ [-Wcast-user-defined] 544 | return (atomic&)t; | ^~~~~~~~~~~~~ g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c error.cpp -o error.o In file included from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/tbb/tbb.h:32, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/RcppParallel/TBB.h:10, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/RcppParallel.h:24, from dada.h:9, from error.cpp:2: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/tbb/atomic.h: In instantiation of ‘tbb::atomic& tbb::internal::as_atomic(T&) [with T = long unsigned int]’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/tbb/tbb_thread.h:251:29: required from here 251 | return as_atomic(location.my_id).compare_and_swap(value.my_id, comparand.my_id); | ~~~~~~~~~^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/tbb/atomic.h:544:12: warning: casting ‘long unsigned int’ to ‘tbb::atomic&’ does not use ‘constexpr tbb::atomic::atomic(long unsigned int)’ [-Wcast-user-defined] 544 | return (atomic&)t; | ^~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/tbb/atomic.h: In instantiation of ‘tbb::atomic& tbb::internal::as_atomic(T&) [with T = tbb::interface5::internal::hash_map_base::bucket*]’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/tbb/concurrent_hash_map.h:291:31: required from here 291 | && as_atomic(my_table[new_seg]).compare_and_swap(is_allocating, NULL) == NULL ) | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/tbb/atomic.h:544:12: warning: casting ‘tbb::interface5::internal::hash_map_base::bucket*’ to ‘tbb::atomic&’ does not use ‘constexpr tbb::atomic::atomic(T*) [with T = tbb::interface5::internal::hash_map_base::bucket]’ [-Wcast-user-defined] 544 | return (atomic&)t; | ^~~~~~~~~~~~~ g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c evaluate.cpp -o evaluate.o evaluate.cpp: In function ‘Rcpp::IntegerVector C_eval_pair(std::string, std::string)’: evaluate.cpp:88:36: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::__cxx11::basic_string::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 88 | } while((s1gap || s2gap) && start::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 133 | for(i=0;i::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 152 | for(i=0;i::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 163 | for(i=0;i >, std::vector >, int)’: evaluate.cpp:219:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 219 | for(int i=0;i >, std::vector >, int, int)’: evaluate.cpp:243:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 243 | for(int i=0;i >, std::vector >, int)’: evaluate.cpp:286:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 286 | for(int i=0;i >, std::vector >, int)’: evaluate.cpp:338:12: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 338 | for(i=0;i& tbb::internal::as_atomic(T&) [with T = long unsigned int]’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/tbb/tbb_thread.h:251:29: required from here 251 | return as_atomic(location.my_id).compare_and_swap(value.my_id, comparand.my_id); | ~~~~~~~~~^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/tbb/atomic.h:544:12: warning: casting ‘long unsigned int’ to ‘tbb::atomic&’ does not use ‘constexpr tbb::atomic::atomic(long unsigned int)’ [-Wcast-user-defined] 544 | return (atomic&)t; | ^~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/tbb/atomic.h: In instantiation of ‘tbb::atomic& tbb::internal::as_atomic(T&) [with T = tbb::interface5::internal::hash_map_base::bucket*]’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/tbb/concurrent_hash_map.h:291:31: required from here 291 | && as_atomic(my_table[new_seg]).compare_and_swap(is_allocating, NULL) == NULL ) | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/tbb/atomic.h:544:12: warning: casting ‘tbb::interface5::internal::hash_map_base::bucket*’ to ‘tbb::atomic&’ does not use ‘constexpr tbb::atomic::atomic(T*) [with T = tbb::interface5::internal::hash_map_base::bucket]’ [-Wcast-user-defined] 544 | return (atomic&)t; | ^~~~~~~~~~~~~ g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c filter.cpp -o filter.o filter.cpp: In function ‘Rcpp::IntegerVector C_matchRef(std::vector >, std::string, unsigned int, bool)’: filter.cpp:16:12: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 16 | for(i=0;i >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 20 | for(i=0;i& tbb::internal::as_atomic(T&) [with T = long unsigned int]’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/tbb/tbb_thread.h:251:29: required from here 251 | return as_atomic(location.my_id).compare_and_swap(value.my_id, comparand.my_id); | ~~~~~~~~~^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/tbb/atomic.h:544:12: warning: casting ‘long unsigned int’ to ‘tbb::atomic&’ does not use ‘constexpr tbb::atomic::atomic(long unsigned int)’ [-Wcast-user-defined] 544 | return (atomic&)t; | ^~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/tbb/atomic.h: In instantiation of ‘tbb::atomic& tbb::internal::as_atomic(T&) [with T = tbb::interface5::internal::hash_map_base::bucket*]’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/tbb/concurrent_hash_map.h:291:31: required from here 291 | && as_atomic(my_table[new_seg]).compare_and_swap(is_allocating, NULL) == NULL ) | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/tbb/atomic.h:544:12: warning: casting ‘tbb::interface5::internal::hash_map_base::bucket*’ to ‘tbb::atomic&’ does not use ‘constexpr tbb::atomic::atomic(T*) [with T = tbb::interface5::internal::hash_map_base::bucket]’ [-Wcast-user-defined] 544 | return (atomic&)t; | ^~~~~~~~~~~~~ g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c kmers.cpp -o kmers.o kmers.cpp: In function ‘double kmer_dist_SSEi_8(uint8_t*, int, uint8_t*, int, int)’: kmers.cpp:85:12: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 85 | for(i=0;i= len || k < 3 || k > 8) { Rcpp::stop("Invalid kmer-size."); } | ~~^~~~~~ kmers.cpp:174:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 174 | for(i=0; i= len || k < 3 || k > 8) { Rcpp::stop("Invalid kmer-size."); } | ~~^~~~~~ kmers.cpp:221:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 221 | for(i=0; i= len || k < 1 || k > 8) { Rcpp::stop("Invalid kmer-size."); } | ~~^~~~~~ kmers.cpp:255:12: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 255 | for(i=0;i& tbb::internal::as_atomic(T&) [with T = long unsigned int]’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/tbb/tbb_thread.h:251:29: required from here 251 | return as_atomic(location.my_id).compare_and_swap(value.my_id, comparand.my_id); | ~~~~~~~~~^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/tbb/atomic.h:544:12: warning: casting ‘long unsigned int’ to ‘tbb::atomic&’ does not use ‘constexpr tbb::atomic::atomic(long unsigned int)’ [-Wcast-user-defined] 544 | return (atomic&)t; | ^~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/tbb/atomic.h: In instantiation of ‘tbb::atomic& tbb::internal::as_atomic(T&) [with T = tbb::interface5::internal::hash_map_base::bucket*]’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/tbb/concurrent_hash_map.h:291:31: required from here 291 | && as_atomic(my_table[new_seg]).compare_and_swap(is_allocating, NULL) == NULL ) | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/tbb/atomic.h:544:12: warning: casting ‘tbb::interface5::internal::hash_map_base::bucket*’ to ‘tbb::atomic&’ does not use ‘constexpr tbb::atomic::atomic(T*) [with T = tbb::interface5::internal::hash_map_base::bucket]’ [-Wcast-user-defined] 544 | return (atomic&)t; | ^~~~~~~~~~~~~ g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c misc.cpp -o misc.o misc.cpp: In function ‘void align_print(char**)’: misc.cpp:24:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 24 | for(int i=0;i& tbb::internal::as_atomic(T&) [with T = long unsigned int]’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/tbb/tbb_thread.h:251:29: required from here 251 | return as_atomic(location.my_id).compare_and_swap(value.my_id, comparand.my_id); | ~~~~~~~~~^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/tbb/atomic.h:544:12: warning: casting ‘long unsigned int’ to ‘tbb::atomic&’ does not use ‘constexpr tbb::atomic::atomic(long unsigned int)’ [-Wcast-user-defined] 544 | return (atomic&)t; | ^~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/tbb/atomic.h: In instantiation of ‘tbb::atomic& tbb::internal::as_atomic(T&) [with T = tbb::interface5::internal::hash_map_base::bucket*]’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/tbb/concurrent_hash_map.h:291:31: required from here 291 | && as_atomic(my_table[new_seg]).compare_and_swap(is_allocating, NULL) == NULL ) | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/tbb/atomic.h:544:12: warning: casting ‘tbb::interface5::internal::hash_map_base::bucket*’ to ‘tbb::atomic&’ does not use ‘constexpr tbb::atomic::atomic(T*) [with T = tbb::interface5::internal::hash_map_base::bucket]’ [-Wcast-user-defined] 544 | return (atomic&)t; | ^~~~~~~~~~~~~ g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c nwalign_endsfree.cpp -o nwalign_endsfree.o nwalign_endsfree.cpp: In function ‘char** nwalign_endsfree(const char*, size_t, const char*, size_t, int (*)[4], int, int)’: nwalign_endsfree.cpp:89:17: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 89 | for (i = 0; i <= len1; i++) { | ~~^~~~~~~ nwalign_endsfree.cpp:95:17: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 95 | for (j = 0; j <= len2; j++) { | ~~^~~~~~~ nwalign_endsfree.cpp:114:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 114 | if(band>=0 && (band=0 && (bandlen2) { r = len2; } | ~^~~~~ nwalign_endsfree.cpp:130:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 130 | if (i == len1) { | ~~^~~~~~~ nwalign_endsfree.cpp:137:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 137 | if (j == len2) { | ~~^~~~~~~ nwalign_endsfree.cpp:201:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 201 | for (i=0;i=0 && (band=0 && (bandlen2) { r = len2; } | ~^~~~~ nwalign_endsfree.cpp:305:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 305 | if (i == len1) { | ~~^~~~~~~ nwalign_endsfree.cpp:314:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 314 | if (j == len2) { | ~~^~~~~~~ nwalign_endsfree.cpp:379:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 379 | for (i=0;i=0 && (band=0 && (bandlen2) { r = len2; } | ~^~~~~ nwalign_endsfree.cpp:522:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 522 | for (i=0;insubs;s++) { | ~^~~~~~~~~~~ In file included from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/tbb/tbb.h:32, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/RcppParallel/TBB.h:10, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/RcppParallel.h:24, from dada.h:9, from nwalign_endsfree.cpp:3: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/tbb/atomic.h: In instantiation of ‘tbb::atomic& tbb::internal::as_atomic(T&) [with T = long unsigned int]’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/tbb/tbb_thread.h:251:29: required from here 251 | return as_atomic(location.my_id).compare_and_swap(value.my_id, comparand.my_id); | ~~~~~~~~~^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/tbb/atomic.h:544:12: warning: casting ‘long unsigned int’ to ‘tbb::atomic&’ does not use ‘constexpr tbb::atomic::atomic(long unsigned int)’ [-Wcast-user-defined] 544 | return (atomic&)t; | ^~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/tbb/atomic.h: In instantiation of ‘tbb::atomic& tbb::internal::as_atomic(T&) [with T = tbb::interface5::internal::hash_map_base::bucket*]’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/tbb/concurrent_hash_map.h:291:31: required from here 291 | && as_atomic(my_table[new_seg]).compare_and_swap(is_allocating, NULL) == NULL ) | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/tbb/atomic.h:544:12: warning: casting ‘tbb::interface5::internal::hash_map_base::bucket*’ to ‘tbb::atomic&’ does not use ‘constexpr tbb::atomic::atomic(T*) [with T = tbb::interface5::internal::hash_map_base::bucket]’ [-Wcast-user-defined] 544 | return (atomic&)t; | ^~~~~~~~~~~~~ g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c nwalign_vectorized.cpp -o nwalign_vectorized.o nwalign_vectorized.cpp: In function ‘char** nwalign_vectorized2(const char*, size_t, const char*, size_t, int16_t, int16_t, int16_t, int16_t, int)’: nwalign_vectorized.cpp:96:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 96 | start_col = 1 + (1+(band >, std::vector >, int16_t, int16_t, int16_t, int, bool)’: nwalign_vectorized.cpp:329:12: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 329 | for(i=0;i& tbb::internal::as_atomic(T&) [with T = long unsigned int]’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/tbb/tbb_thread.h:251:29: required from here 251 | return as_atomic(location.my_id).compare_and_swap(value.my_id, comparand.my_id); | ~~~~~~~~~^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/tbb/atomic.h:544:12: warning: casting ‘long unsigned int’ to ‘tbb::atomic&’ does not use ‘constexpr tbb::atomic::atomic(long unsigned int)’ [-Wcast-user-defined] 544 | return (atomic&)t; | ^~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/tbb/atomic.h: In instantiation of ‘tbb::atomic& tbb::internal::as_atomic(T&) [with T = tbb::interface5::internal::hash_map_base::bucket*]’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/tbb/concurrent_hash_map.h:291:31: required from here 291 | && as_atomic(my_table[new_seg]).compare_and_swap(is_allocating, NULL) == NULL ) | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/tbb/atomic.h:544:12: warning: casting ‘tbb::interface5::internal::hash_map_base::bucket*’ to ‘tbb::atomic&’ does not use ‘constexpr tbb::atomic::atomic(T*) [with T = tbb::interface5::internal::hash_map_base::bucket]’ [-Wcast-user-defined] 544 | return (atomic&)t; | ^~~~~~~~~~~~~ g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c pval.cpp -o pval.o pval.cpp: In function ‘double compute_lambda(Raw*, Sub*, Rcpp::NumericMatrix, bool, unsigned int)’: pval.cpp:121:12: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 121 | for(s=0;snsubs;s++) { | ~^~~~~~~~~~~ pval.cpp:123:25: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 123 | if(pos0 < 0 || pos0 >= sub->len0) { Rcpp::stop("CL: Bad pos0: %i (len0=%i).", pos0, sub->len0); } | ~~~~~^~~~~~~~~~~~ pval.cpp: In function ‘double compute_lambda_ts(Raw*, Sub*, unsigned int, double*, bool)’: pval.cpp:177:12: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 177 | for(s=0;snsubs;s++) { | ~^~~~~~~~~~~ pval.cpp:179:25: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 179 | if(pos0 < 0 || pos0 >= sub->len0) { Rcpp::stop("CL: Bad pos0: %i (len0=%i).", pos0, sub->len0); } | ~~~~~^~~~~~~~~~~~ In file included from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/tbb/tbb.h:32, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/RcppParallel/TBB.h:10, from /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/RcppParallel.h:24, from dada.h:9, from pval.cpp:6: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/tbb/atomic.h: In instantiation of ‘tbb::atomic& tbb::internal::as_atomic(T&) [with T = long unsigned int]’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/tbb/tbb_thread.h:251:29: required from here 251 | return as_atomic(location.my_id).compare_and_swap(value.my_id, comparand.my_id); | ~~~~~~~~~^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/tbb/atomic.h:544:12: warning: casting ‘long unsigned int’ to ‘tbb::atomic&’ does not use ‘constexpr tbb::atomic::atomic(long unsigned int)’ [-Wcast-user-defined] 544 | return (atomic&)t; | ^~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/tbb/atomic.h: In instantiation of ‘tbb::atomic& tbb::internal::as_atomic(T&) [with T = tbb::interface5::internal::hash_map_base::bucket*]’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/tbb/concurrent_hash_map.h:291:31: required from here 291 | && as_atomic(my_table[new_seg]).compare_and_swap(is_allocating, NULL) == NULL ) | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/tbb/atomic.h:544:12: warning: casting ‘tbb::interface5::internal::hash_map_base::bucket*’ to ‘tbb::atomic&’ does not use ‘constexpr tbb::atomic::atomic(T*) [with T = tbb::interface5::internal::hash_map_base::bucket]’ [-Wcast-user-defined] 544 | return (atomic&)t; | ^~~~~~~~~~~~~ g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c taxonomy.cpp -o taxonomy.o taxonomy.cpp: In function ‘void tax_kvec(const char*, unsigned int, unsigned char*)’: taxonomy.cpp:48:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 48 | if(kmer>=0 && kmer >, std::vector >, std::vector >, std::vector, Rcpp::IntegerMatrix, bool, bool)’: taxonomy.cpp:221:45: warning: comparison of integer expressions of different signedness: ‘__gnu_cxx::__alloc_traits, int>::value_type’ {aka ‘int’} and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 221 | if(ref_to_genus[i]<0 || ref_to_genus[i] >= ngenus) { taxonomy.cpp:251:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 251 | for(kmer=0;kmer& tbb::internal::as_atomic(T&) [with T = long unsigned int]’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/tbb/tbb_thread.h:251:29: required from here 251 | return as_atomic(location.my_id).compare_and_swap(value.my_id, comparand.my_id); | ~~~~~~~~~^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/tbb/atomic.h:544:12: warning: casting ‘long unsigned int’ to ‘tbb::atomic&’ does not use ‘constexpr tbb::atomic::atomic(long unsigned int)’ [-Wcast-user-defined] 544 | return (atomic&)t; | ^~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/tbb/atomic.h: In instantiation of ‘tbb::atomic& tbb::internal::as_atomic(T&) [with T = tbb::interface5::internal::hash_map_base::bucket*]’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/tbb/concurrent_hash_map.h:291:31: required from here 291 | && as_atomic(my_table[new_seg]).compare_and_swap(is_allocating, NULL) == NULL ) | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include/tbb/atomic.h:544:12: warning: casting ‘tbb::interface5::internal::hash_map_base::bucket*’ to ‘tbb::atomic&’ does not use ‘constexpr tbb::atomic::atomic(T*) [with T = tbb::interface5::internal::hash_map_base::bucket]’ [-Wcast-user-defined] 544 | return (atomic&)t; | ^~~~~~~~~~~~~ g++-14 -std=gnu++11 -shared -L/home/hornik/tmp/R-d-gcc-14/lib -Wl,-O1 -o dada2.so RcppExports.o Rmain.o chimera.o cluster.o containers.o error.o evaluate.o filter.o kmers.o misc.o nwalign_endsfree.o nwalign_vectorized.o pval.o taxonomy.o -L/home/hornik/tmp/R-d-gcc-14/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpEn6GJG/R.INSTALL3198581c47a2fd/dada2/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-dada2/00new/dada2/libs ** R ** data *** moving datasets to lazyload DB ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (dada2) * installing *source* package ‘Gviz’ ... ** this is package ‘Gviz’ version ‘1.52.0’ ** using staged installation ** R ** data ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (Gviz) begin installing package ‘GenomicInteractions’ * installing *source* package ‘RSiena’ ... ** this is package ‘RSiena’ version ‘1.4.7’ ** package ‘RSiena’ successfully unpacked and MD5 sums checked ** using staged installation checking whether the C++ compiler works... yes checking for C++ compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... no checking for suffix of object files... o checking whether the compiler supports GNU C++... yes checking whether g++-14 -std=gnu++17 accepts -g... yes checking for g++-14 -std=gnu++17 option to enable C++11 features... none needed checking how to run the C++ preprocessor... g++-14 -std=gnu++17 -E checking whether the compiler supports GNU C++... (cached) yes checking whether g++-14 -std=gnu++17 accepts -g... (cached) yes checking for g++-14 -std=gnu++17 option to enable C++11 features... (cached) none needed checking for stdio.h... yes checking for stdlib.h... yes checking for string.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for strings.h... yes checking for sys/stat.h... yes checking for sys/types.h... yes checking for unistd.h... yes checking for sys/time.h... yes configure: creating ./config.status config.status: creating src/Makevars.tmp config.status: creating src/Makevars -------------------------------------------------- Configuration for RSiena ================ cppflags: -I/usr/local/include cxxflags: -g -O2 -Wall -pedantic -mtune=native libs: -------------------------------------------------- ** libs using C++ compiler: ‘g++-14 (Debian 14.2.0-19) 14.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpRiwWYY/R.INSTALL31632b497e1f1/RSiena/src' g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c init.cpp -o init.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c siena07internals.cpp -o siena07internals.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c siena07models.cpp -o siena07models.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c siena07setup.cpp -o siena07setup.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c siena07utilities.cpp -o siena07utilities.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c data/ChangingDyadicCovariate.cpp -o data/ChangingDyadicCovariate.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c data/ConstantDyadicCovariate.cpp -o data/ConstantDyadicCovariate.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c data/ContinuousLongitudinalData.cpp -o data/ContinuousLongitudinalData.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c data/OneModeNetworkLongitudinalData.cpp -o data/OneModeNetworkLongitudinalData.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c data/DyadicCovariateValueIterator.cpp -o data/DyadicCovariateValueIterator.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c data/LongitudinalData.cpp -o data/LongitudinalData.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c data/NetworkLongitudinalData.cpp -o data/NetworkLongitudinalData.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c data/ExogenousEvent.cpp -o data/ExogenousEvent.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c data/Covariate.cpp -o data/Covariate.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c data/DyadicCovariate.cpp -o data/DyadicCovariate.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c data/BehaviorLongitudinalData.cpp -o data/BehaviorLongitudinalData.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c data/ChangingCovariate.cpp -o data/ChangingCovariate.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c data/Data.cpp -o data/Data.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c data/NetworkConstraint.cpp -o data/NetworkConstraint.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c data/ActorSet.cpp -o data/ActorSet.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c data/ConstantCovariate.cpp -o data/ConstantCovariate.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/ml/BehaviorChange.cpp -o model/ml/BehaviorChange.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/ml/Chain.cpp -o model/ml/Chain.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/ml/NetworkChange.cpp -o model/ml/NetworkChange.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/ml/MiniStep.cpp -o model/ml/MiniStep.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/ml/Option.cpp -o model/ml/Option.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/ml/MLSimulation.cpp -o model/ml/MLSimulation.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/variables/DiffusionEffectValueTable.cpp -o model/variables/DiffusionEffectValueTable.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/variables/EffectValueTable.cpp -o model/variables/EffectValueTable.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/variables/BehaviorVariable.cpp -o model/variables/BehaviorVariable.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/variables/NetworkVariable.cpp -o model/variables/NetworkVariable.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/variables/DependentVariable.cpp -o model/variables/DependentVariable.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/EpochSimulation.cpp -o model/EpochSimulation.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/OutOutDegreeAssortativityEffect.cpp -o model/effects/OutOutDegreeAssortativityEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/ReciprocatedSimilarityEffect.cpp -o model/effects/ReciprocatedSimilarityEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/AverageInAlterEffect.cpp -o model/effects/AverageInAlterEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/NetworkEffect.cpp -o model/effects/NetworkEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/EffectFactory.cpp -o model/effects/EffectFactory.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/DyadicCovariateDependentNetworkEffect.cpp -o model/effects/DyadicCovariateDependentNetworkEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/InteractionCovariateEffect.cpp -o model/effects/InteractionCovariateEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/ReciprocalDegreeBehaviorEffect.cpp -o model/effects/ReciprocalDegreeBehaviorEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/OutdegreeActivityEffect.cpp -o model/effects/OutdegreeActivityEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/AverageDegreeEffect.cpp -o model/effects/AverageDegreeEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/TransitiveTriadsEffect.cpp -o model/effects/TransitiveTriadsEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/RecipdegreePopularityEffect.cpp -o model/effects/RecipdegreePopularityEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/SimilarityEffect.cpp -o model/effects/SimilarityEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/AllSimilarityEffect.cpp -o model/effects/AllSimilarityEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/SimilarityIndegreeEffect.cpp -o model/effects/SimilarityIndegreeEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/IsolateNetEffect.cpp -o model/effects/IsolateNetEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/DenseTriadsBehaviorEffect.cpp -o model/effects/DenseTriadsBehaviorEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/AverageAlterInDist2Effect.cpp -o model/effects/AverageAlterInDist2Effect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/AverageSimilarityInDist2Effect.cpp -o model/effects/AverageSimilarityInDist2Effect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/AverageAlterEffect.cpp -o model/effects/AverageAlterEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/TruncatedOutdegreeEffect.cpp -o model/effects/TruncatedOutdegreeEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/TruncatedOutXEffect.cpp -o model/effects/TruncatedOutXEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/DyadicCovariateAndNetworkBehaviorEffect.cpp -o model/effects/DyadicCovariateAndNetworkBehaviorEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/OutdegreeActivitySqrtEffect.cpp -o model/effects/OutdegreeActivitySqrtEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/LinearShapeEffect.cpp -o model/effects/LinearShapeEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/ConstantEffect.cpp -o model/effects/ConstantEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/Effect.cpp -o model/effects/Effect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/InStructuralEquivalenceEffect.cpp -o model/effects/InStructuralEquivalenceEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/IsolateEffect.cpp -o model/effects/IsolateEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/HomCovariateActivityEffect.cpp -o model/effects/HomCovariateActivityEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/NetworkDependentBehaviorEffect.cpp -o model/effects/NetworkDependentBehaviorEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/BetweennessEffect.cpp -o model/effects/BetweennessEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/BothDegreesEffect.cpp -o model/effects/BothDegreesEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/CovariateIndirectTiesEffect.cpp -o model/effects/CovariateIndirectTiesEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/QuadraticShapeEffect.cpp -o model/effects/QuadraticShapeEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/ThresholdShapeEffect.cpp -o model/effects/ThresholdShapeEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/SameCovariateActivityEffect.cpp -o model/effects/SameCovariateActivityEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/IndegreeEffect.cpp -o model/effects/IndegreeEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/AltersInDist2CovariateAverageEffect.cpp -o model/effects/AltersInDist2CovariateAverageEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/AverageAlterDist2Effect.cpp -o model/effects/AverageAlterDist2Effect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/DyadicCovariateAvAltEffect.cpp -o model/effects/DyadicCovariateAvAltEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/PopularityAlterEffect.cpp -o model/effects/PopularityAlterEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/WXXClosureEffect.cpp -o model/effects/WXXClosureEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/AltersCovariateAvSimEffect.cpp -o model/effects/AltersCovariateAvSimEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/XWXClosureEffect.cpp -o model/effects/XWXClosureEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/XXWClosureEffect.cpp -o model/effects/XXWClosureEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/IndegreePopularityEffect.cpp -o model/effects/IndegreePopularityEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/AltersCovariateAvAltEffect.cpp -o model/effects/AltersCovariateAvAltEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/CovariateDiffEgoEffect.cpp -o model/effects/CovariateDiffEgoEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/InverseSquaredOutdegreeEffect.cpp -o model/effects/InverseSquaredOutdegreeEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/InverseOutdegreeEffect.cpp -o model/effects/InverseOutdegreeEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/CovariateAndNetworkBehaviorEffect.cpp -o model/effects/CovariateAndNetworkBehaviorEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/CovariateAlterEffect.cpp -o model/effects/CovariateAlterEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/SimilarityTransitiveTripletsEffect.cpp -o model/effects/SimilarityTransitiveTripletsEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/SameCovariateTransitiveTripletsEffect.cpp -o model/effects/SameCovariateTransitiveTripletsEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/AlterCovariateActivityEffect.cpp -o model/effects/AlterCovariateActivityEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/IndegreeActivityEffect.cpp -o model/effects/IndegreeActivityEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/HomCovariateTransitiveTripletsEffect.cpp -o model/effects/HomCovariateTransitiveTripletsEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/HigherCovariateEffect.cpp -o model/effects/HigherCovariateEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/SimilarityWEffect.cpp -o model/effects/SimilarityWEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/SameCovariateEffect.cpp -o model/effects/SameCovariateEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/AltersDist2CovariateAverageEffect.cpp -o model/effects/AltersDist2CovariateAverageEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/DistanceTwoEffect.cpp -o model/effects/DistanceTwoEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/DoubleInPopEffect.cpp -o model/effects/DoubleInPopEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/DoubleRecDegreeBehaviorEffect.cpp -o model/effects/DoubleRecDegreeBehaviorEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/OutdegreePopularityEffect.cpp -o model/effects/OutdegreePopularityEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/AverageGroupEffect.cpp -o model/effects/AverageGroupEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/AltersCovariateMinimumEffect.cpp -o model/effects/AltersCovariateMinimumEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/AltersCovariateMaximumEffect.cpp -o model/effects/AltersCovariateMaximumEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/CovariateTransitiveTripletsEffect.cpp -o model/effects/CovariateTransitiveTripletsEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/SameCovariateTransitiveReciprocatedTripletsEffect.cpp -o model/effects/SameCovariateTransitiveReciprocatedTripletsEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/generic/ProductFunction.cpp -o model/effects/generic/ProductFunction.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/generic/InTieFunction.cpp -o model/effects/generic/InTieFunction.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/generic/CovariateDegreeFunction.cpp -o model/effects/generic/CovariateDegreeFunction.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/generic/SameCovariateInStarFunction.cpp -o model/effects/generic/SameCovariateInStarFunction.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/generic/DifferentCovariateInStarFunction.cpp -o model/effects/generic/DifferentCovariateInStarFunction.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/generic/EqualCovariatePredicate.cpp -o model/effects/generic/EqualCovariatePredicate.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/generic/HomCovariateMixedTwoPathFunction.cpp -o model/effects/generic/HomCovariateMixedTwoPathFunction.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/generic/CovariateDistance2SimilarityNetworkFunction.cpp -o model/effects/generic/CovariateDistance2SimilarityNetworkFunction.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/generic/SameCovariateTwoPathFunction.cpp -o model/effects/generic/SameCovariateTwoPathFunction.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/generic/OutStarFunction.cpp -o model/effects/generic/OutStarFunction.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/generic/InDegreeFunction.cpp -o model/effects/generic/InDegreeFunction.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/generic/EgoInDegreeFunction.cpp -o model/effects/generic/EgoInDegreeFunction.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/generic/DegreeFunction.cpp -o model/effects/generic/DegreeFunction.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/generic/OutTieFunction.cpp -o model/effects/generic/OutTieFunction.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/generic/CovariateDistance2InAlterNetworkFunction.cpp -o model/effects/generic/CovariateDistance2InAlterNetworkFunction.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/generic/DifferenceFunction.cpp -o model/effects/generic/DifferenceFunction.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/generic/ReciprocalFunction.cpp -o model/effects/generic/ReciprocalFunction.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/generic/AbsDiffFunction.cpp -o model/effects/generic/AbsDiffFunction.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/generic/CovariateDistance2EgoAltSameNetworkFunction.cpp -o model/effects/generic/CovariateDistance2EgoAltSameNetworkFunction.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/generic/CovariateDistance2EgoAltSimNetworkFunction.cpp -o model/effects/generic/CovariateDistance2EgoAltSimNetworkFunction.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/generic/CovariateMixedNetworkAlterFunction.cpp -o model/effects/generic/CovariateMixedNetworkAlterFunction.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/generic/DyadicCovariateMixedNetworkAlterFunction.cpp -o model/effects/generic/DyadicCovariateMixedNetworkAlterFunction.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/generic/InJaccardFunction.cpp -o model/effects/generic/InJaccardFunction.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/generic/CovariateDistance2AlterNetworkFunction.cpp -o model/effects/generic/CovariateDistance2AlterNetworkFunction.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/generic/OutActDistance2Function.cpp -o model/effects/generic/OutActDistance2Function.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/generic/TwoStepFunction.cpp -o model/effects/generic/TwoStepFunction.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/generic/TwoPathFunction.cpp -o model/effects/generic/TwoPathFunction.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/generic/GenericNetworkEffect.cpp -o model/effects/generic/GenericNetworkEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/generic/MissingCovariatePredicate.cpp -o model/effects/generic/MissingCovariatePredicate.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/generic/CovariatePredicate.cpp -o model/effects/generic/CovariatePredicate.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/generic/IntAlterFunction.cpp -o model/effects/generic/IntAlterFunction.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/generic/SameCovariateInTiesFunction.cpp -o model/effects/generic/SameCovariateInTiesFunction.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/generic/SameCovariateOutTiesFunction.cpp -o model/effects/generic/SameCovariateOutTiesFunction.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/generic/BetweennessFunction.cpp -o model/effects/generic/BetweennessFunction.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/generic/EgoOutDegreeFunction.cpp -o model/effects/generic/EgoOutDegreeFunction.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/generic/EgoRecipDegreeFunction.cpp -o model/effects/generic/EgoRecipDegreeFunction.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/generic/OutJaccardFunction.cpp -o model/effects/generic/OutJaccardFunction.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/generic/SameCovariateOutStarFunction.cpp -o model/effects/generic/SameCovariateOutStarFunction.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/generic/DifferentCovariateOutStarFunction.cpp -o model/effects/generic/DifferentCovariateOutStarFunction.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/generic/SumFunction.cpp -o model/effects/generic/SumFunction.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/generic/EgoFunction.cpp -o model/effects/generic/EgoFunction.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/generic/ReciprocatedTwoPathFunction.cpp -o model/effects/generic/ReciprocatedTwoPathFunction.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/generic/ConditionalFunction.cpp -o model/effects/generic/ConditionalFunction.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/generic/MixedThreeCyclesFunction.cpp -o model/effects/generic/MixedThreeCyclesFunction.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/generic/CovariateDistance2NetworkFunction.cpp -o model/effects/generic/CovariateDistance2NetworkFunction.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/generic/AlterFunction.cpp -o model/effects/generic/AlterFunction.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/generic/IntSqrtFunction.cpp -o model/effects/generic/IntSqrtFunction.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/generic/MixedNetworkAlterFunction.cpp -o model/effects/generic/MixedNetworkAlterFunction.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/generic/OutDegreeFunction.cpp -o model/effects/generic/OutDegreeFunction.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/generic/SameCovariateMixedTwoPathFunction.cpp -o model/effects/generic/SameCovariateMixedTwoPathFunction.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/generic/InStarsTimesDegreesFunction.cpp -o model/effects/generic/InStarsTimesDegreesFunction.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/generic/ConstantFunction.cpp -o model/effects/generic/ConstantFunction.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/generic/MixedTwoStepFunction.cpp -o model/effects/generic/MixedTwoStepFunction.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/generic/WeightedMixedTwoPathFunction.cpp -o model/effects/generic/WeightedMixedTwoPathFunction.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/generic/ReverseTwoPathFunction.cpp -o model/effects/generic/ReverseTwoPathFunction.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/generic/AlterPredicate.cpp -o model/effects/generic/AlterPredicate.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/generic/CovariateNetworkAlterFunction.cpp -o model/effects/generic/CovariateNetworkAlterFunction.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/generic/GwespFunction.cpp -o model/effects/generic/GwespFunction.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/generic/NetworkAlterFunction.cpp -o model/effects/generic/NetworkAlterFunction.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/generic/DoubleOutActFunction.cpp -o model/effects/generic/DoubleOutActFunction.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/generic/OneModeNetworkAlterFunction.cpp -o model/effects/generic/OneModeNetworkAlterFunction.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/generic/InStarFunction.cpp -o model/effects/generic/InStarFunction.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/TransitiveMediatedTripletsEffect.cpp -o model/effects/TransitiveMediatedTripletsEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/TransitiveTiesEffect.cpp -o model/effects/TransitiveTiesEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/ReciprocityEffect.cpp -o model/effects/ReciprocityEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/MaxAlterEffect.cpp -o model/effects/MaxAlterEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/DenseTriadsSimilarityEffect.cpp -o model/effects/DenseTriadsSimilarityEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/RecipdegreeActivityEffect.cpp -o model/effects/RecipdegreeActivityEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/TransitiveTripletsEffect.cpp -o model/effects/TransitiveTripletsEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/OutdegreeEffect.cpp -o model/effects/OutdegreeEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/CovariateEgoSquaredEffect.cpp -o model/effects/CovariateEgoSquaredEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/CovariateDependentNetworkEffect.cpp -o model/effects/CovariateDependentNetworkEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/GwdspEffect.cpp -o model/effects/GwdspEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/WWXClosureEffect.cpp -o model/effects/WWXClosureEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/CovariateDependentBehaviorEffect.cpp -o model/effects/CovariateDependentBehaviorEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/OutInDegreeAssortativityEffect.cpp -o model/effects/OutInDegreeAssortativityEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/DyadicCovariateReciprocityEffect.cpp -o model/effects/DyadicCovariateReciprocityEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/AntiIsolateEffect.cpp -o model/effects/AntiIsolateEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/NetworkInteractionEffect.cpp -o model/effects/NetworkInteractionEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/InInDegreeAssortativityEffect.cpp -o model/effects/InInDegreeAssortativityEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/AltersCovariateAverageEffect.cpp -o model/effects/AltersCovariateAverageEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/DyadicCovariateMainEffect.cpp -o model/effects/DyadicCovariateMainEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/FourCyclesEffect.cpp -o model/effects/FourCyclesEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/SameCovariateFourCyclesEffect.cpp -o model/effects/SameCovariateFourCyclesEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/CovariateEgoAlterEffect.cpp -o model/effects/CovariateEgoAlterEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/InIsolateDegreeEffect.cpp -o model/effects/InIsolateDegreeEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/ThreeCyclesEffect.cpp -o model/effects/ThreeCyclesEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/TwoNetworkDependentBehaviorEffect.cpp -o model/effects/TwoNetworkDependentBehaviorEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/BalanceEffect.cpp -o model/effects/BalanceEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/CovariateEgoEffect.cpp -o model/effects/CovariateEgoEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/CovariateEgoDiffEffect.cpp -o model/effects/CovariateEgoDiffEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/DenseTriadsEffect.cpp -o model/effects/DenseTriadsEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/JumpCovariateTransitiveTripletsEffect.cpp -o model/effects/JumpCovariateTransitiveTripletsEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/AverageReciprocatedAlterEffect.cpp -o model/effects/AverageReciprocatedAlterEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/DoubleDegreeBehaviorEffect.cpp -o model/effects/DoubleDegreeBehaviorEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/StructuralRateEffect.cpp -o model/effects/StructuralRateEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/BehaviorInteractionEffect.cpp -o model/effects/BehaviorInteractionEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/TransitiveReciprocatedTriplets2Effect.cpp -o model/effects/TransitiveReciprocatedTriplets2Effect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/CovariateSimilarityEffect.cpp -o model/effects/CovariateSimilarityEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/InAltersCovariateAverageEffect.cpp -o model/effects/InAltersCovariateAverageEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/BehaviorEffect.cpp -o model/effects/BehaviorEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/MixedNetworkEffect.cpp -o model/effects/MixedNetworkEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/MixedOnlyTwoPathEffect.cpp -o model/effects/MixedOnlyTwoPathEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/TransitiveReciprocatedTripletsEffect.cpp -o model/effects/TransitiveReciprocatedTripletsEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/DiffusionRateEffect.cpp -o model/effects/DiffusionRateEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/IsolatePopEffect.cpp -o model/effects/IsolatePopEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/DensityEffect.cpp -o model/effects/DensityEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/InOutDegreeAssortativityEffect.cpp -o model/effects/InOutDegreeAssortativityEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/CovariateContrastEffect.cpp -o model/effects/CovariateContrastEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/CovariateDiffEffect.cpp -o model/effects/CovariateDiffEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/DoubleOutActEffect.cpp -o model/effects/DoubleOutActEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/MainCovariateContinuousEffect.cpp -o model/effects/MainCovariateContinuousEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/MainCovariateEffect.cpp -o model/effects/MainCovariateEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/AverageAlterContinuousEffect.cpp -o model/effects/AverageAlterContinuousEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/CovariateDependentContinuousEffect.cpp -o model/effects/CovariateDependentContinuousEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/IsolateOutContinuousEffect.cpp -o model/effects/IsolateOutContinuousEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/MaxAlterContinuousEffect.cpp -o model/effects/MaxAlterContinuousEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/ReciprocalDegreeContinuousEffect.cpp -o model/effects/ReciprocalDegreeContinuousEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/IndegreeContinuousEffect.cpp -o model/effects/IndegreeContinuousEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/AltersCovariateTotSimEffect.cpp -o model/effects/AltersCovariateTotSimEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/EffectInfo.cpp -o model/EffectInfo.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/OutdegreeContinuousEffect.cpp -o model/effects/OutdegreeContinuousEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/State.cpp -o model/State.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/filters/PermittedChangeFilter.cpp -o model/filters/PermittedChangeFilter.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/filters/LowerFilter.cpp -o model/filters/LowerFilter.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/filters/DisjointFilter.cpp -o model/filters/DisjointFilter.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/filters/NetworkDependentFilter.cpp -o model/filters/NetworkDependentFilter.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/filters/HigherFilter.cpp -o model/filters/HigherFilter.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/filters/AtLeastOneFilter.cpp -o model/filters/AtLeastOneFilter.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/Function.cpp -o model/Function.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/Model.cpp -o model/Model.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/NetworkDependentContinuousEffect.cpp -o model/effects/NetworkDependentContinuousEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/SdeSimulation.cpp -o model/SdeSimulation.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/settings/ComposableSetting.cpp -o model/settings/ComposableSetting.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/settings/DyadicSetting.cpp -o model/settings/DyadicSetting.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/settings/GeneralSetting.cpp -o model/settings/GeneralSetting.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/settings/MeetingSetting.cpp -o model/settings/MeetingSetting.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/settings/PrimarySetting.cpp -o model/settings/PrimarySetting.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/settings/Setting.cpp -o model/settings/Setting.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/settings/SettingInfo.cpp -o model/settings/SettingInfo.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/settings/SettingsFactory.cpp -o model/settings/SettingsFactory.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/settings/UniversalSetting.cpp -o model/settings/UniversalSetting.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/SimulationActorSet.cpp -o model/SimulationActorSet.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/StatisticCalculator.cpp -o model/StatisticCalculator.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/tables/EgocentricConfigurationTable.cpp -o model/tables/EgocentricConfigurationTable.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/tables/NetworkCache.cpp -o model/tables/NetworkCache.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/tables/ConfigurationTable.cpp -o model/tables/ConfigurationTable.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/tables/MixedConfigurationTable.cpp -o model/tables/MixedConfigurationTable.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/tables/Cache.cpp -o model/tables/Cache.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/tables/BetweennessTable.cpp -o model/tables/BetweennessTable.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/tables/TwoPathTable.cpp -o model/tables/TwoPathTable.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/tables/TwoNetworkCache.cpp -o model/tables/TwoNetworkCache.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/tables/CriticalInStarTable.cpp -o model/tables/CriticalInStarTable.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/tables/MixedTwoPathTable.cpp -o model/tables/MixedTwoPathTable.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/tables/MixedEgocentricConfigurationTable.cpp -o model/tables/MixedEgocentricConfigurationTable.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c network/NetworkUtils.cpp -o network/NetworkUtils.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c network/UnionNeighborIterator.cpp -o network/UnionNeighborIterator.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c network/CommonNeighborIterator.cpp -o network/CommonNeighborIterator.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c network/IncidentTieIterator.cpp -o network/IncidentTieIterator.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c network/iterators/AdvUnionTieIterator.cpp -o network/iterators/AdvUnionTieIterator.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c network/iterators/GeneralTieIterator.cpp -o network/iterators/GeneralTieIterator.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c network/layers/DistanceTwoLayer.cpp -o network/layers/DistanceTwoLayer.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c network/layers/PrimaryLayer.cpp -o network/layers/PrimaryLayer.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c network/Network.cpp -o network/Network.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c network/OneModeNetwork.cpp -o network/OneModeNetwork.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c network/TieIterator.cpp -o network/TieIterator.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c utils/Utils.cpp -o utils/Utils.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c utils/NamedObject.cpp -o utils/NamedObject.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c utils/Random.cpp -o utils/Random.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c utils/SqrtTable.cpp -o utils/SqrtTable.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/ContinuousEffect.cpp -o model/effects/ContinuousEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/variables/ContinuousVariable.cpp -o model/variables/ContinuousVariable.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/WienerEffect.cpp -o model/effects/WienerEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/FeedbackEffect.cpp -o model/effects/FeedbackEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/InterceptEffect.cpp -o model/effects/InterceptEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/SettingSizeEffect.cpp -o model/effects/SettingSizeEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/AverageGroupEgoEffect.cpp -o model/effects/AverageGroupEgoEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/SettingsNetworkEffect.cpp -o model/effects/SettingsNetworkEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/PrimarySettingEffect.cpp -o model/effects/PrimarySettingEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/NetworkWithPrimaryEffect.cpp -o model/effects/NetworkWithPrimaryEffect.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c model/effects/PrimaryCompressionEffect.cpp -o model/effects/PrimaryCompressionEffect.o g++-14 -std=gnu++17 -shared -L/home/hornik/tmp/R-d-gcc-14/lib -Wl,-O1 -o RSiena.so init.o siena07internals.o siena07models.o siena07setup.o siena07utilities.o data/ChangingDyadicCovariate.o data/ConstantDyadicCovariate.o data/ContinuousLongitudinalData.o data/OneModeNetworkLongitudinalData.o data/DyadicCovariateValueIterator.o data/LongitudinalData.o data/NetworkLongitudinalData.o data/ExogenousEvent.o data/Covariate.o data/DyadicCovariate.o data/BehaviorLongitudinalData.o data/ChangingCovariate.o data/Data.o data/NetworkConstraint.o data/ActorSet.o data/ConstantCovariate.o model/ml/BehaviorChange.o model/ml/Chain.o model/ml/NetworkChange.o model/ml/MiniStep.o model/ml/Option.o model/ml/MLSimulation.o model/variables/DiffusionEffectValueTable.o model/variables/EffectValueTable.o model/variables/BehaviorVariable.o model/variables/NetworkVariable.o model/variables/DependentVariable.o model/EpochSimulation.o model/effects/OutOutDegreeAssortativityEffect.o model/effects/ReciprocatedSimilarityEffect.o model/effects/AverageInAlterEffect.o model/effects/NetworkEffect.o model/effects/EffectFactory.o model/effects/DyadicCovariateDependentNetworkEffect.o model/effects/InteractionCovariateEffect.o model/effects/ReciprocalDegreeBehaviorEffect.o model/effects/OutdegreeActivityEffect.o model/effects/AverageDegreeEffect.o model/effects/TransitiveTriadsEffect.o model/effects/RecipdegreePopularityEffect.o model/effects/SimilarityEffect.o model/effects/AllSimilarityEffect.o model/effects/SimilarityIndegreeEffect.o model/effects/IsolateNetEffect.o model/effects/DenseTriadsBehaviorEffect.o model/effects/AverageAlterInDist2Effect.o model/effects/AverageSimilarityInDist2Effect.o model/effects/AverageAlterEffect.o model/effects/TruncatedOutdegreeEffect.o model/effects/TruncatedOutXEffect.o model/effects/DyadicCovariateAndNetworkBehaviorEffect.o model/effects/OutdegreeActivitySqrtEffect.o model/effects/LinearShapeEffect.o model/effects/ConstantEffect.o model/effects/Effect.o model/effects/InStructuralEquivalenceEffect.o model/effects/IsolateEffect.o model/effects/HomCovariateActivityEffect.o model/effects/NetworkDependentBehaviorEffect.o model/effects/BetweennessEffect.o model/effects/BothDegreesEffect.o model/effects/CovariateIndirectTiesEffect.o model/effects/QuadraticShapeEffect.o model/effects/ThresholdShapeEffect.o model/effects/SameCovariateActivityEffect.o model/effects/IndegreeEffect.o model/effects/AltersInDist2CovariateAverageEffect.o model/effects/AverageAlterDist2Effect.o model/effects/DyadicCovariateAvAltEffect.o model/effects/PopularityAlterEffect.o model/effects/WXXClosureEffect.o model/effects/AltersCovariateAvSimEffect.o model/effects/XWXClosureEffect.o model/effects/XXWClosureEffect.o model/effects/IndegreePopularityEffect.o model/effects/AltersCovariateAvAltEffect.o model/effects/CovariateDiffEgoEffect.o model/effects/InverseSquaredOutdegreeEffect.o model/effects/InverseOutdegreeEffect.o model/effects/CovariateAndNetworkBehaviorEffect.o model/effects/CovariateAlterEffect.o model/effects/SimilarityTransitiveTripletsEffect.o model/effects/SameCovariateTransitiveTripletsEffect.o model/effects/AlterCovariateActivityEffect.o model/effects/IndegreeActivityEffect.o model/effects/HomCovariateTransitiveTripletsEffect.o model/effects/HigherCovariateEffect.o model/effects/SimilarityWEffect.o model/effects/SameCovariateEffect.o model/effects/AltersDist2CovariateAverageEffect.o model/effects/DistanceTwoEffect.o model/effects/DoubleInPopEffect.o model/effects/DoubleRecDegreeBehaviorEffect.o model/effects/OutdegreePopularityEffect.o model/effects/AverageGroupEffect.o model/effects/AltersCovariateMinimumEffect.o model/effects/AltersCovariateMaximumEffect.o model/effects/CovariateTransitiveTripletsEffect.o model/effects/SameCovariateTransitiveReciprocatedTripletsEffect.o model/effects/generic/ProductFunction.o model/effects/generic/InTieFunction.o model/effects/generic/CovariateDegreeFunction.o model/effects/generic/SameCovariateInStarFunction.o model/effects/generic/DifferentCovariateInStarFunction.o model/effects/generic/EqualCovariatePredicate.o model/effects/generic/HomCovariateMixedTwoPathFunction.o model/effects/generic/CovariateDistance2SimilarityNetworkFunction.o model/effects/generic/SameCovariateTwoPathFunction.o model/effects/generic/OutStarFunction.o model/effects/generic/InDegreeFunction.o model/effects/generic/EgoInDegreeFunction.o model/effects/generic/DegreeFunction.o model/effects/generic/OutTieFunction.o model/effects/generic/CovariateDistance2InAlterNetworkFunction.o model/effects/generic/DifferenceFunction.o model/effects/generic/ReciprocalFunction.o model/effects/generic/AbsDiffFunction.o model/effects/generic/CovariateDistance2EgoAltSameNetworkFunction.o model/effects/generic/CovariateDistance2EgoAltSimNetworkFunction.o model/effects/generic/CovariateMixedNetworkAlterFunction.o model/effects/generic/DyadicCovariateMixedNetworkAlterFunction.o model/effects/generic/InJaccardFunction.o model/effects/generic/CovariateDistance2AlterNetworkFunction.o model/effects/generic/OutActDistance2Function.o model/effects/generic/TwoStepFunction.o model/effects/generic/TwoPathFunction.o model/effects/generic/GenericNetworkEffect.o model/effects/generic/MissingCovariatePredicate.o model/effects/generic/CovariatePredicate.o model/effects/generic/IntAlterFunction.o model/effects/generic/SameCovariateInTiesFunction.o model/effects/generic/SameCovariateOutTiesFunction.o model/effects/generic/BetweennessFunction.o model/effects/generic/EgoOutDegreeFunction.o model/effects/generic/EgoRecipDegreeFunction.o model/effects/generic/OutJaccardFunction.o model/effects/generic/SameCovariateOutStarFunction.o model/effects/generic/DifferentCovariateOutStarFunction.o model/effects/generic/SumFunction.o model/effects/generic/EgoFunction.o model/effects/generic/ReciprocatedTwoPathFunction.o model/effects/generic/ConditionalFunction.o model/effects/generic/MixedThreeCyclesFunction.o model/effects/generic/CovariateDistance2NetworkFunction.o model/effects/generic/AlterFunction.o model/effects/generic/IntSqrtFunction.o model/effects/generic/MixedNetworkAlterFunction.o model/effects/generic/OutDegreeFunction.o model/effects/generic/SameCovariateMixedTwoPathFunction.o model/effects/generic/InStarsTimesDegreesFunction.o model/effects/generic/ConstantFunction.o model/effects/generic/MixedTwoStepFunction.o model/effects/generic/WeightedMixedTwoPathFunction.o model/effects/generic/ReverseTwoPathFunction.o model/effects/generic/AlterPredicate.o model/effects/generic/CovariateNetworkAlterFunction.o model/effects/generic/GwespFunction.o model/effects/generic/NetworkAlterFunction.o model/effects/generic/DoubleOutActFunction.o model/effects/generic/OneModeNetworkAlterFunction.o model/effects/generic/InStarFunction.o model/effects/TransitiveMediatedTripletsEffect.o model/effects/TransitiveTiesEffect.o model/effects/ReciprocityEffect.o model/effects/MaxAlterEffect.o model/effects/DenseTriadsSimilarityEffect.o model/effects/RecipdegreeActivityEffect.o model/effects/TransitiveTripletsEffect.o model/effects/OutdegreeEffect.o model/effects/CovariateEgoSquaredEffect.o model/effects/CovariateDependentNetworkEffect.o model/effects/GwdspEffect.o model/effects/WWXClosureEffect.o model/effects/CovariateDependentBehaviorEffect.o model/effects/OutInDegreeAssortativityEffect.o model/effects/DyadicCovariateReciprocityEffect.o model/effects/AntiIsolateEffect.o model/effects/NetworkInteractionEffect.o model/effects/InInDegreeAssortativityEffect.o model/effects/AltersCovariateAverageEffect.o model/effects/DyadicCovariateMainEffect.o model/effects/FourCyclesEffect.o model/effects/SameCovariateFourCyclesEffect.o model/effects/CovariateEgoAlterEffect.o model/effects/InIsolateDegreeEffect.o model/effects/ThreeCyclesEffect.o model/effects/TwoNetworkDependentBehaviorEffect.o model/effects/BalanceEffect.o model/effects/CovariateEgoEffect.o model/effects/CovariateEgoDiffEffect.o model/effects/DenseTriadsEffect.o model/effects/JumpCovariateTransitiveTripletsEffect.o model/effects/AverageReciprocatedAlterEffect.o model/effects/DoubleDegreeBehaviorEffect.o model/effects/StructuralRateEffect.o model/effects/BehaviorInteractionEffect.o model/effects/TransitiveReciprocatedTriplets2Effect.o model/effects/CovariateSimilarityEffect.o model/effects/InAltersCovariateAverageEffect.o model/effects/BehaviorEffect.o model/effects/MixedNetworkEffect.o model/effects/MixedOnlyTwoPathEffect.o model/effects/TransitiveReciprocatedTripletsEffect.o model/effects/DiffusionRateEffect.o model/effects/IsolatePopEffect.o model/effects/DensityEffect.o model/effects/InOutDegreeAssortativityEffect.o model/effects/CovariateContrastEffect.o model/effects/CovariateDiffEffect.o model/effects/DoubleOutActEffect.o model/effects/MainCovariateContinuousEffect.o model/effects/MainCovariateEffect.o model/effects/AverageAlterContinuousEffect.o model/effects/CovariateDependentContinuousEffect.o model/effects/IsolateOutContinuousEffect.o model/effects/MaxAlterContinuousEffect.o model/effects/ReciprocalDegreeContinuousEffect.o model/effects/IndegreeContinuousEffect.o model/effects/AltersCovariateTotSimEffect.o model/EffectInfo.o model/effects/OutdegreeContinuousEffect.o model/State.o model/filters/PermittedChangeFilter.o model/filters/LowerFilter.o model/filters/DisjointFilter.o model/filters/NetworkDependentFilter.o model/filters/HigherFilter.o model/filters/AtLeastOneFilter.o model/Function.o model/Model.o model/effects/NetworkDependentContinuousEffect.o model/SdeSimulation.o model/settings/ComposableSetting.o model/settings/DyadicSetting.o model/settings/GeneralSetting.o model/settings/MeetingSetting.o model/settings/PrimarySetting.o model/settings/Setting.o model/settings/SettingInfo.o model/settings/SettingsFactory.o model/settings/UniversalSetting.o model/SimulationActorSet.o model/StatisticCalculator.o model/tables/EgocentricConfigurationTable.o model/tables/NetworkCache.o model/tables/ConfigurationTable.o model/tables/MixedConfigurationTable.o model/tables/Cache.o model/tables/BetweennessTable.o model/tables/TwoPathTable.o model/tables/TwoNetworkCache.o model/tables/CriticalInStarTable.o model/tables/MixedTwoPathTable.o model/tables/MixedEgocentricConfigurationTable.o network/NetworkUtils.o network/UnionNeighborIterator.o network/CommonNeighborIterator.o network/IncidentTieIterator.o network/iterators/AdvUnionTieIterator.o network/iterators/GeneralTieIterator.o network/layers/DistanceTwoLayer.o network/layers/PrimaryLayer.o network/Network.o network/OneModeNetwork.o network/TieIterator.o utils/Utils.o utils/NamedObject.o utils/Random.o utils/SqrtTable.o model/effects/ContinuousEffect.o model/variables/ContinuousVariable.o model/effects/WienerEffect.o model/effects/FeedbackEffect.o model/effects/InterceptEffect.o model/effects/SettingSizeEffect.o model/effects/AverageGroupEgoEffect.o model/effects/SettingsNetworkEffect.o model/effects/PrimarySettingEffect.o model/effects/NetworkWithPrimaryEffect.o model/effects/PrimaryCompressionEffect.o -L/home/hornik/tmp/R-d-gcc-14/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpRiwWYY/R.INSTALL31632b497e1f1/RSiena/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-RSiena/00new/RSiena/libs ** R ** data *** moving datasets to lazyload DB ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (RSiena) * installing *source* package ‘lumi’ ... ** this is package ‘lumi’ version ‘2.60.0’ ** using staged installation ** R ** data ** inst ** byte-compile and prepare package for lazy loading No methods found in package ‘RSQLite’ for request: ‘dbListFields’ when loading ‘lumi’ ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location No methods found in package ‘RSQLite’ for request: ‘dbListFields’ when loading ‘lumi’ ** testing if installed package can be loaded from final location No methods found in package ‘RSQLite’ for request: ‘dbListFields’ when loading ‘lumi’ ** testing if installed package keeps a record of temporary installation path * DONE (lumi) * installing *source* package ‘RProtoBufLib’ ... ** this is package ‘RProtoBufLib’ version ‘2.20.0’ ** using staged installation checking for gcc... gcc-14 -std=gnu23 checking whether the C compiler works... yes checking for C compiler default output 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PTHREAD_CREATE_JOINABLE checking whether more special flags are required for pthreads... no checking for PTHREAD_PRIO_INHERIT... yes checking the location of hash_map... checking that generated files are newer than configure... done configure: creating ./config.status config.status: creating Makefile config.status: creating src/Makefile config.status: creating benchmarks/Makefile config.status: creating conformance/Makefile config.status: creating protobuf.pc config.status: creating protobuf-lite.pc config.status: creating config.h config.status: executing depfiles commands config.status: executing libtool commands === configuring in third_party/googletest (/home/hornik/tmp/scratch/RtmpedVSyq/R.INSTALL31347c13a13fd4/RProtoBufLib/src/protobuf-3.8.0/third_party/googletest) configure: WARNING: no configuration information is in third_party/googletest make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpedVSyq/R.INSTALL31347c13a13fd4/RProtoBufLib/src/protobuf-3.8.0' Making install in . make[2]: Entering directory '/home/hornik/tmp/scratch/RtmpedVSyq/R.INSTALL31347c13a13fd4/RProtoBufLib/src/protobuf-3.8.0' make[3]: Entering directory '/home/hornik/tmp/scratch/RtmpedVSyq/R.INSTALL31347c13a13fd4/RProtoBufLib/src/protobuf-3.8.0' make[3]: Nothing to be done for 'install-exec-am'. /usr/bin/mkdir -p '/home/hornik/tmp/scratch/RtmpedVSyq/R.INSTALL31347c13a13fd4/RProtoBufLib/src/pb_build/lib/pkgconfig' /usr/bin/install -c -m 644 protobuf.pc protobuf-lite.pc '/home/hornik/tmp/scratch/RtmpedVSyq/R.INSTALL31347c13a13fd4/RProtoBufLib/src/pb_build/lib/pkgconfig' make[3]: Leaving directory '/home/hornik/tmp/scratch/RtmpedVSyq/R.INSTALL31347c13a13fd4/RProtoBufLib/src/protobuf-3.8.0' make[2]: Leaving directory '/home/hornik/tmp/scratch/RtmpedVSyq/R.INSTALL31347c13a13fd4/RProtoBufLib/src/protobuf-3.8.0' Making install in src make[2]: Entering directory '/home/hornik/tmp/scratch/RtmpedVSyq/R.INSTALL31347c13a13fd4/RProtoBufLib/src/protobuf-3.8.0/src' depbase=`echo 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depbase=`echo google/protobuf/stubs/time.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/bash ../libtool --tag=CXX --mode=compile g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/stubs/time.lo -MD -MP -MF $depbase.Tpo -c -o google/protobuf/stubs/time.lo google/protobuf/stubs/time.cc &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/stubs/time.lo -MD -MP -MF google/protobuf/stubs/.deps/time.Tpo -c google/protobuf/stubs/time.cc -fPIC -DPIC -o google/protobuf/stubs/.libs/time.o depbase=`echo google/protobuf/any_lite.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/bash ../libtool --tag=CXX --mode=compile g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/any_lite.lo -MD -MP -MF $depbase.Tpo -c -o google/protobuf/any_lite.lo google/protobuf/any_lite.cc &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/any_lite.lo -MD -MP -MF google/protobuf/.deps/any_lite.Tpo -c google/protobuf/any_lite.cc -fPIC -DPIC -o google/protobuf/.libs/any_lite.o In file included from ./google/protobuf/wire_format_lite.h:51, from ./google/protobuf/generated_message_util.h:53, from google/protobuf/any_lite.cc:35: ./google/protobuf/repeated_field.h:2494:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2494 | : public std::iterator { | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/14/string:47, from ./google/protobuf/any.h:34, from google/protobuf/any_lite.cc:31: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2516:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2516 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2547:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2547 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2571:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2571 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ depbase=`echo google/protobuf/arena.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/bash ../libtool --tag=CXX --mode=compile g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/arena.lo -MD -MP -MF $depbase.Tpo -c -o google/protobuf/arena.lo google/protobuf/arena.cc &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/arena.lo -MD -MP -MF google/protobuf/.deps/arena.Tpo -c google/protobuf/arena.cc -fPIC -DPIC -o google/protobuf/.libs/arena.o depbase=`echo google/protobuf/extension_set.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/bash ../libtool --tag=CXX --mode=compile g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/extension_set.lo -MD -MP -MF $depbase.Tpo -c -o google/protobuf/extension_set.lo google/protobuf/extension_set.cc &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/extension_set.lo -MD -MP -MF google/protobuf/.deps/extension_set.Tpo -c google/protobuf/extension_set.cc -fPIC -DPIC -o google/protobuf/.libs/extension_set.o In file included from ./google/protobuf/wire_format_lite.h:51, from ./google/protobuf/generated_message_util.h:53, from ./google/protobuf/metadata_lite.h:37, from ./google/protobuf/parse_context.h:41, from ./google/protobuf/extension_set.h:50, from google/protobuf/extension_set.cc:35: ./google/protobuf/repeated_field.h:2494:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2494 | : public std::iterator { | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_algobase.h:65, from /usr/include/c++/14/algorithm:60, from ./google/protobuf/extension_set.h:41: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2516:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2516 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2547:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2547 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2571:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2571 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ depbase=`echo google/protobuf/generated_message_util.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/bash ../libtool --tag=CXX --mode=compile g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/generated_message_util.lo -MD -MP -MF $depbase.Tpo -c -o google/protobuf/generated_message_util.lo google/protobuf/generated_message_util.cc &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/generated_message_util.lo -MD -MP -MF google/protobuf/.deps/generated_message_util.Tpo -c google/protobuf/generated_message_util.cc -fPIC -DPIC -o google/protobuf/.libs/generated_message_util.o In file included from ./google/protobuf/wire_format_lite.h:51, from ./google/protobuf/generated_message_util.h:53, from google/protobuf/generated_message_util.cc:35: ./google/protobuf/repeated_field.h:2494:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2494 | : public std::iterator { | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/14/string:47, from ./google/protobuf/generated_message_util.h:44: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2516:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2516 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2547:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2547 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2571:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2571 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ depbase=`echo google/protobuf/generated_message_table_driven_lite.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/bash ../libtool --tag=CXX --mode=compile g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/generated_message_table_driven_lite.lo -MD -MP -MF $depbase.Tpo -c -o google/protobuf/generated_message_table_driven_lite.lo google/protobuf/generated_message_table_driven_lite.cc &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/generated_message_table_driven_lite.lo -MD -MP -MF google/protobuf/.deps/generated_message_table_driven_lite.Tpo -c google/protobuf/generated_message_table_driven_lite.cc -fPIC -DPIC -o google/protobuf/.libs/generated_message_table_driven_lite.o In file included from ./google/protobuf/wire_format_lite.h:51, from ./google/protobuf/generated_message_util.h:53, from ./google/protobuf/metadata_lite.h:37, from ./google/protobuf/parse_context.h:41, from ./google/protobuf/map_type_handler.h:34, from ./google/protobuf/map.h:49, from ./google/protobuf/generated_message_table_driven.h:34, from ./google/protobuf/generated_message_table_driven_lite.h:34, from google/protobuf/generated_message_table_driven_lite.cc:31: ./google/protobuf/repeated_field.h:2494:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2494 | : public std::iterator { | ^~~~~~~~ In file included from /usr/include/c++/14/iterator:61, from ./google/protobuf/map.h:41: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2516:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2516 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2547:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2547 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2571:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2571 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ depbase=`echo google/protobuf/implicit_weak_message.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/bash ../libtool --tag=CXX --mode=compile g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/implicit_weak_message.lo -MD -MP -MF $depbase.Tpo -c -o google/protobuf/implicit_weak_message.lo google/protobuf/implicit_weak_message.cc &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/implicit_weak_message.lo -MD -MP -MF google/protobuf/.deps/implicit_weak_message.Tpo -c google/protobuf/implicit_weak_message.cc -fPIC -DPIC -o google/protobuf/.libs/implicit_weak_message.o In file included from ./google/protobuf/wire_format_lite.h:51, from ./google/protobuf/generated_message_util.h:53, from ./google/protobuf/metadata_lite.h:37, from ./google/protobuf/parse_context.h:41, from google/protobuf/implicit_weak_message.cc:33: ./google/protobuf/repeated_field.h:2494:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2494 | : public std::iterator { | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/14/string:47, from ./google/protobuf/implicit_weak_message.h:34, from google/protobuf/implicit_weak_message.cc:31: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2516:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2516 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2547:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2547 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2571:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2571 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ depbase=`echo google/protobuf/message_lite.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/bash ../libtool --tag=CXX --mode=compile g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/message_lite.lo -MD -MP -MF $depbase.Tpo -c -o google/protobuf/message_lite.lo google/protobuf/message_lite.cc &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/message_lite.lo -MD -MP -MF google/protobuf/.deps/message_lite.Tpo -c google/protobuf/message_lite.cc -fPIC -DPIC -o google/protobuf/.libs/message_lite.o In file included from ./google/protobuf/wire_format_lite.h:51, from ./google/protobuf/generated_message_util.h:53, from ./google/protobuf/metadata_lite.h:37, from ./google/protobuf/parse_context.h:41, from google/protobuf/message_lite.cc:43: ./google/protobuf/repeated_field.h:2494:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2494 | : public std::iterator { | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/14/string:47, from google/protobuf/message_lite.cc:38: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2516:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2516 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2547:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2547 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2571:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2571 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ depbase=`echo google/protobuf/parse_context.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/bash ../libtool --tag=CXX --mode=compile g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/parse_context.lo -MD -MP -MF $depbase.Tpo -c -o google/protobuf/parse_context.lo google/protobuf/parse_context.cc &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/parse_context.lo -MD -MP -MF google/protobuf/.deps/parse_context.Tpo -c google/protobuf/parse_context.cc -fPIC -DPIC -o google/protobuf/.libs/parse_context.o In file included from ./google/protobuf/wire_format_lite.h:51, from ./google/protobuf/generated_message_util.h:53, from ./google/protobuf/metadata_lite.h:37, from ./google/protobuf/parse_context.h:41, from google/protobuf/parse_context.cc:31: ./google/protobuf/repeated_field.h:2494:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2494 | : public std::iterator { | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/14/string:47, from ./google/protobuf/parse_context.h:35: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2516:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2516 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2547:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2547 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2571:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2571 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ depbase=`echo google/protobuf/repeated_field.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/bash ../libtool --tag=CXX --mode=compile g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/repeated_field.lo -MD -MP -MF $depbase.Tpo -c -o google/protobuf/repeated_field.lo google/protobuf/repeated_field.cc &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/repeated_field.lo -MD -MP -MF google/protobuf/.deps/repeated_field.Tpo -c google/protobuf/repeated_field.cc -fPIC -DPIC -o google/protobuf/.libs/repeated_field.o In file included from google/protobuf/repeated_field.cc:39: ./google/protobuf/repeated_field.h:2494:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2494 | : public std::iterator { | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_algobase.h:65, from /usr/include/c++/14/algorithm:60, from google/protobuf/repeated_field.cc:35: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2516:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2516 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2547:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2547 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2571:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2571 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ depbase=`echo google/protobuf/wire_format_lite.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/bash ../libtool --tag=CXX --mode=compile g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/wire_format_lite.lo -MD -MP -MF $depbase.Tpo -c -o google/protobuf/wire_format_lite.lo google/protobuf/wire_format_lite.cc &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/wire_format_lite.lo -MD -MP -MF google/protobuf/.deps/wire_format_lite.Tpo -c google/protobuf/wire_format_lite.cc -fPIC -DPIC -o google/protobuf/.libs/wire_format_lite.o In file included from ./google/protobuf/wire_format_lite.h:51, from google/protobuf/wire_format_lite.cc:35: ./google/protobuf/repeated_field.h:2494:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2494 | : public std::iterator { | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/14/string:47, from ./google/protobuf/wire_format_lite.h:43: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2516:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2516 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2547:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2547 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2571:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2571 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ depbase=`echo google/protobuf/io/coded_stream.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/bash ../libtool --tag=CXX --mode=compile g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/io/coded_stream.lo -MD -MP -MF $depbase.Tpo -c -o google/protobuf/io/coded_stream.lo google/protobuf/io/coded_stream.cc &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/io/coded_stream.lo -MD -MP -MF google/protobuf/io/.deps/coded_stream.Tpo -c google/protobuf/io/coded_stream.cc -fPIC -DPIC -o google/protobuf/io/.libs/coded_stream.o depbase=`echo google/protobuf/io/strtod.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/bash ../libtool --tag=CXX --mode=compile g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/io/strtod.lo -MD -MP -MF $depbase.Tpo -c -o google/protobuf/io/strtod.lo google/protobuf/io/strtod.cc &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/io/strtod.lo -MD -MP -MF google/protobuf/io/.deps/strtod.Tpo -c google/protobuf/io/strtod.cc -fPIC -DPIC -o google/protobuf/io/.libs/strtod.o depbase=`echo google/protobuf/io/zero_copy_stream.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/bash ../libtool --tag=CXX --mode=compile g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/io/zero_copy_stream.lo -MD -MP -MF $depbase.Tpo -c -o google/protobuf/io/zero_copy_stream.lo google/protobuf/io/zero_copy_stream.cc &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/io/zero_copy_stream.lo -MD -MP -MF google/protobuf/io/.deps/zero_copy_stream.Tpo -c google/protobuf/io/zero_copy_stream.cc -fPIC -DPIC -o google/protobuf/io/.libs/zero_copy_stream.o depbase=`echo google/protobuf/io/zero_copy_stream_impl_lite.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/bash ../libtool --tag=CXX --mode=compile g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/io/zero_copy_stream_impl_lite.lo -MD -MP -MF $depbase.Tpo -c -o google/protobuf/io/zero_copy_stream_impl_lite.lo google/protobuf/io/zero_copy_stream_impl_lite.cc &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/io/zero_copy_stream_impl_lite.lo -MD -MP -MF google/protobuf/io/.deps/zero_copy_stream_impl_lite.Tpo -c google/protobuf/io/zero_copy_stream_impl_lite.cc -fPIC -DPIC -o google/protobuf/io/.libs/zero_copy_stream_impl_lite.o depbase=`echo google/protobuf/any.pb.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/bash ../libtool --tag=CXX --mode=compile g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/any.pb.lo -MD -MP -MF $depbase.Tpo -c -o google/protobuf/any.pb.lo google/protobuf/any.pb.cc &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/any.pb.lo -MD -MP -MF google/protobuf/.deps/any.pb.Tpo -c google/protobuf/any.pb.cc -fPIC -DPIC -o google/protobuf/.libs/any.pb.o In file included from ./google/protobuf/wire_format_lite.h:51, from ./google/protobuf/generated_message_util.h:53, from ./google/protobuf/metadata_lite.h:37, from ./google/protobuf/parse_context.h:41, from ./google/protobuf/map_type_handler.h:34, from ./google/protobuf/map.h:49, from ./google/protobuf/generated_message_table_driven.h:34, from ./google/protobuf/any.pb.h:26, from google/protobuf/any.pb.cc:4: ./google/protobuf/repeated_field.h:2494:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2494 | : public std::iterator { | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/14/string:47, from ./google/protobuf/any.pb.h:8: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2516:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2516 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2547:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2547 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2571:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2571 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ depbase=`echo google/protobuf/api.pb.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/bash ../libtool --tag=CXX --mode=compile g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/api.pb.lo -MD -MP -MF $depbase.Tpo -c -o google/protobuf/api.pb.lo google/protobuf/api.pb.cc &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/api.pb.lo -MD -MP -MF google/protobuf/.deps/api.pb.Tpo -c google/protobuf/api.pb.cc -fPIC -DPIC -o google/protobuf/.libs/api.pb.o In file included from ./google/protobuf/wire_format_lite.h:51, from ./google/protobuf/generated_message_util.h:53, from ./google/protobuf/metadata_lite.h:37, from ./google/protobuf/parse_context.h:41, from ./google/protobuf/map_type_handler.h:34, from ./google/protobuf/map.h:49, from ./google/protobuf/generated_message_table_driven.h:34, from ./google/protobuf/api.pb.h:26, from google/protobuf/api.pb.cc:4: ./google/protobuf/repeated_field.h:2494:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2494 | : public std::iterator { | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/14/string:47, from ./google/protobuf/api.pb.h:8: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2516:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2516 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2547:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2547 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2571:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2571 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ depbase=`echo google/protobuf/stubs/mathlimits.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/bash ../libtool --tag=CXX --mode=compile g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/stubs/mathlimits.lo -MD -MP -MF $depbase.Tpo -c -o google/protobuf/stubs/mathlimits.lo google/protobuf/stubs/mathlimits.cc &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/stubs/mathlimits.lo -MD -MP -MF google/protobuf/stubs/.deps/mathlimits.Tpo -c google/protobuf/stubs/mathlimits.cc -fPIC -DPIC -o google/protobuf/stubs/.libs/mathlimits.o depbase=`echo google/protobuf/any.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/bash ../libtool --tag=CXX --mode=compile g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/any.lo -MD -MP -MF $depbase.Tpo -c -o google/protobuf/any.lo google/protobuf/any.cc &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/any.lo -MD -MP -MF google/protobuf/.deps/any.Tpo -c google/protobuf/any.cc -fPIC -DPIC -o google/protobuf/.libs/any.o In file included from ./google/protobuf/wire_format_lite.h:51, from ./google/protobuf/generated_message_util.h:53, from google/protobuf/any.cc:35: ./google/protobuf/repeated_field.h:2494:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2494 | : public std::iterator { | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/14/string:47, from ./google/protobuf/any.h:34, from google/protobuf/any.cc:31: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2516:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2516 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2547:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2547 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2571:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2571 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ depbase=`echo google/protobuf/descriptor.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/bash ../libtool --tag=CXX --mode=compile g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/descriptor.lo -MD -MP -MF $depbase.Tpo -c -o google/protobuf/descriptor.lo google/protobuf/descriptor.cc &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/descriptor.lo -MD -MP -MF google/protobuf/.deps/descriptor.Tpo -c google/protobuf/descriptor.cc -fPIC -DPIC -o google/protobuf/.libs/descriptor.o In file included from ./google/protobuf/wire_format_lite.h:51, from ./google/protobuf/generated_message_util.h:53, from ./google/protobuf/metadata_lite.h:37, from ./google/protobuf/parse_context.h:41, from ./google/protobuf/map_type_handler.h:34, from ./google/protobuf/map.h:49, from ./google/protobuf/generated_message_table_driven.h:34, from ./google/protobuf/descriptor.pb.h:26, from google/protobuf/descriptor.cc:50: ./google/protobuf/repeated_field.h:2494:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2494 | : public std::iterator { | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_algobase.h:65, from /usr/include/c++/14/algorithm:60, from google/protobuf/descriptor.cc:35: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2516:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2516 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2547:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2547 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2571:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2571 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ depbase=`echo google/protobuf/descriptor_database.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/bash ../libtool --tag=CXX --mode=compile g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/descriptor_database.lo -MD -MP -MF $depbase.Tpo -c -o google/protobuf/descriptor_database.lo google/protobuf/descriptor_database.cc &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/descriptor_database.lo -MD -MP -MF google/protobuf/.deps/descriptor_database.Tpo -c google/protobuf/descriptor_database.cc -fPIC -DPIC -o google/protobuf/.libs/descriptor_database.o In file included from ./google/protobuf/wire_format_lite.h:51, from ./google/protobuf/generated_message_util.h:53, from ./google/protobuf/metadata_lite.h:37, from ./google/protobuf/parse_context.h:41, from ./google/protobuf/map_type_handler.h:34, from ./google/protobuf/map.h:49, from ./google/protobuf/generated_message_table_driven.h:34, from ./google/protobuf/descriptor.pb.h:26, from google/protobuf/descriptor_database.cc:39: ./google/protobuf/repeated_field.h:2494:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2494 | : public std::iterator { | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_algobase.h:65, from /usr/include/c++/14/bits/stl_tree.h:63, from /usr/include/c++/14/map:62, from ./google/protobuf/descriptor_database.h:40, from google/protobuf/descriptor_database.cc:35: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2516:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2516 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2547:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2547 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2571:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2571 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ depbase=`echo google/protobuf/descriptor.pb.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/bash ../libtool --tag=CXX --mode=compile g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/descriptor.pb.lo -MD -MP -MF $depbase.Tpo -c -o google/protobuf/descriptor.pb.lo google/protobuf/descriptor.pb.cc &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/descriptor.pb.lo -MD -MP -MF google/protobuf/.deps/descriptor.pb.Tpo -c google/protobuf/descriptor.pb.cc -fPIC -DPIC -o google/protobuf/.libs/descriptor.pb.o In file included from ./google/protobuf/wire_format_lite.h:51, from ./google/protobuf/generated_message_util.h:53, from ./google/protobuf/metadata_lite.h:37, from ./google/protobuf/parse_context.h:41, from ./google/protobuf/map_type_handler.h:34, from ./google/protobuf/map.h:49, from ./google/protobuf/generated_message_table_driven.h:34, from ./google/protobuf/descriptor.pb.h:26, from google/protobuf/descriptor.pb.cc:4: ./google/protobuf/repeated_field.h:2494:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2494 | : public std::iterator { | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/14/string:47, from ./google/protobuf/descriptor.pb.h:8: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2516:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2516 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2547:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2547 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2571:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2571 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ depbase=`echo google/protobuf/duration.pb.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/bash ../libtool --tag=CXX --mode=compile g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/duration.pb.lo -MD -MP -MF $depbase.Tpo -c -o google/protobuf/duration.pb.lo google/protobuf/duration.pb.cc &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/duration.pb.lo -MD -MP -MF google/protobuf/.deps/duration.pb.Tpo -c google/protobuf/duration.pb.cc -fPIC -DPIC -o google/protobuf/.libs/duration.pb.o In file included from ./google/protobuf/wire_format_lite.h:51, from ./google/protobuf/generated_message_util.h:53, from ./google/protobuf/metadata_lite.h:37, from ./google/protobuf/parse_context.h:41, from ./google/protobuf/map_type_handler.h:34, from ./google/protobuf/map.h:49, from ./google/protobuf/generated_message_table_driven.h:34, from ./google/protobuf/duration.pb.h:26, from google/protobuf/duration.pb.cc:4: ./google/protobuf/repeated_field.h:2494:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2494 | : public std::iterator { | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/14/string:47, from ./google/protobuf/duration.pb.h:8: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2516:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2516 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2547:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2547 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2571:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2571 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ depbase=`echo google/protobuf/dynamic_message.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/bash ../libtool --tag=CXX --mode=compile g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/dynamic_message.lo -MD -MP -MF $depbase.Tpo -c -o google/protobuf/dynamic_message.lo google/protobuf/dynamic_message.cc &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/dynamic_message.lo -MD -MP -MF google/protobuf/.deps/dynamic_message.Tpo -c google/protobuf/dynamic_message.cc -fPIC -DPIC -o google/protobuf/.libs/dynamic_message.o In file included from ./google/protobuf/wire_format_lite.h:51, from ./google/protobuf/generated_message_util.h:53, from ./google/protobuf/metadata_lite.h:37, from ./google/protobuf/parse_context.h:41, from ./google/protobuf/map_type_handler.h:34, from ./google/protobuf/map.h:49, from ./google/protobuf/generated_message_table_driven.h:34, from ./google/protobuf/descriptor.pb.h:26, from google/protobuf/dynamic_message.cc:71: ./google/protobuf/repeated_field.h:2494:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2494 | : public std::iterator { | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_algobase.h:65, from /usr/include/c++/14/algorithm:60, from google/protobuf/dynamic_message.cc:65: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2516:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2516 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2547:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2547 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2571:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2571 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ depbase=`echo google/protobuf/empty.pb.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/bash ../libtool --tag=CXX --mode=compile g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/empty.pb.lo -MD -MP -MF $depbase.Tpo -c -o google/protobuf/empty.pb.lo google/protobuf/empty.pb.cc &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/empty.pb.lo -MD -MP -MF google/protobuf/.deps/empty.pb.Tpo -c google/protobuf/empty.pb.cc -fPIC -DPIC -o google/protobuf/.libs/empty.pb.o In file included from ./google/protobuf/wire_format_lite.h:51, from ./google/protobuf/generated_message_util.h:53, from ./google/protobuf/metadata_lite.h:37, from ./google/protobuf/parse_context.h:41, from ./google/protobuf/map_type_handler.h:34, from ./google/protobuf/map.h:49, from ./google/protobuf/generated_message_table_driven.h:34, from ./google/protobuf/empty.pb.h:26, from google/protobuf/empty.pb.cc:4: ./google/protobuf/repeated_field.h:2494:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2494 | : public std::iterator { | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/14/string:47, from ./google/protobuf/empty.pb.h:8: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2516:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2516 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2547:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2547 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2571:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2571 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ depbase=`echo google/protobuf/extension_set_heavy.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/bash ../libtool --tag=CXX --mode=compile g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/extension_set_heavy.lo -MD -MP -MF $depbase.Tpo -c -o google/protobuf/extension_set_heavy.lo google/protobuf/extension_set_heavy.cc &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/extension_set_heavy.lo -MD -MP -MF google/protobuf/.deps/extension_set_heavy.Tpo -c google/protobuf/extension_set_heavy.cc -fPIC -DPIC -o google/protobuf/.libs/extension_set_heavy.o In file included from ./google/protobuf/wire_format_lite.h:51, from ./google/protobuf/generated_message_util.h:53, from ./google/protobuf/metadata_lite.h:37, from ./google/protobuf/parse_context.h:41, from ./google/protobuf/extension_set.h:50, from google/protobuf/extension_set_heavy.cc:38: ./google/protobuf/repeated_field.h:2494:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2494 | : public std::iterator { | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_algobase.h:65, from /usr/include/c++/14/algorithm:60, from ./google/protobuf/extension_set.h:41: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2516:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2516 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2547:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2547 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2571:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2571 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ depbase=`echo google/protobuf/field_mask.pb.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/bash ../libtool --tag=CXX --mode=compile g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/field_mask.pb.lo -MD -MP -MF $depbase.Tpo -c -o google/protobuf/field_mask.pb.lo google/protobuf/field_mask.pb.cc &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/field_mask.pb.lo -MD -MP -MF google/protobuf/.deps/field_mask.pb.Tpo -c google/protobuf/field_mask.pb.cc -fPIC -DPIC -o google/protobuf/.libs/field_mask.pb.o In file included from ./google/protobuf/wire_format_lite.h:51, from ./google/protobuf/generated_message_util.h:53, from ./google/protobuf/metadata_lite.h:37, from ./google/protobuf/parse_context.h:41, from ./google/protobuf/map_type_handler.h:34, from ./google/protobuf/map.h:49, from ./google/protobuf/generated_message_table_driven.h:34, from ./google/protobuf/field_mask.pb.h:26, from google/protobuf/field_mask.pb.cc:4: ./google/protobuf/repeated_field.h:2494:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2494 | : public std::iterator { | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/14/string:47, from ./google/protobuf/field_mask.pb.h:8: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2516:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2516 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2547:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2547 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2571:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2571 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ depbase=`echo google/protobuf/generated_message_reflection.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/bash ../libtool --tag=CXX --mode=compile g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/generated_message_reflection.lo -MD -MP -MF $depbase.Tpo -c -o google/protobuf/generated_message_reflection.lo google/protobuf/generated_message_reflection.cc &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/generated_message_reflection.lo -MD -MP -MF google/protobuf/.deps/generated_message_reflection.Tpo -c google/protobuf/generated_message_reflection.cc -fPIC -DPIC -o google/protobuf/.libs/generated_message_reflection.o In file included from ./google/protobuf/wire_format_lite.h:51, from ./google/protobuf/generated_message_util.h:53, from ./google/protobuf/metadata_lite.h:37, from ./google/protobuf/parse_context.h:41, from ./google/protobuf/map_type_handler.h:34, from ./google/protobuf/map.h:49, from ./google/protobuf/generated_message_table_driven.h:34, from ./google/protobuf/descriptor.pb.h:26, from google/protobuf/generated_message_reflection.cc:40: ./google/protobuf/repeated_field.h:2494:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2494 | : public std::iterator { | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_algobase.h:65, from /usr/include/c++/14/algorithm:60, from google/protobuf/generated_message_reflection.cc:35: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2516:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2516 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2547:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2547 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2571:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2571 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ depbase=`echo google/protobuf/generated_message_table_driven.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/bash ../libtool --tag=CXX --mode=compile g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/generated_message_table_driven.lo -MD -MP -MF $depbase.Tpo -c -o google/protobuf/generated_message_table_driven.lo google/protobuf/generated_message_table_driven.cc &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/generated_message_table_driven.lo -MD -MP -MF google/protobuf/.deps/generated_message_table_driven.Tpo -c google/protobuf/generated_message_table_driven.cc -fPIC -DPIC -o google/protobuf/.libs/generated_message_table_driven.o In file included from ./google/protobuf/wire_format_lite.h:51, from ./google/protobuf/generated_message_util.h:53, from ./google/protobuf/metadata_lite.h:37, from ./google/protobuf/parse_context.h:41, from ./google/protobuf/map_type_handler.h:34, from ./google/protobuf/map.h:49, from ./google/protobuf/generated_message_table_driven.h:34, from google/protobuf/generated_message_table_driven.cc:31: ./google/protobuf/repeated_field.h:2494:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2494 | : public std::iterator { | ^~~~~~~~ In file included from /usr/include/c++/14/iterator:61, from ./google/protobuf/map.h:41: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2516:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2516 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2547:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2547 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2571:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2571 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ depbase=`echo google/protobuf/map_field.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/bash ../libtool --tag=CXX --mode=compile g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/map_field.lo -MD -MP -MF $depbase.Tpo -c -o google/protobuf/map_field.lo google/protobuf/map_field.cc &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/map_field.lo -MD -MP -MF google/protobuf/.deps/map_field.Tpo -c google/protobuf/map_field.cc -fPIC -DPIC -o google/protobuf/.libs/map_field.o In file included from ./google/protobuf/wire_format_lite.h:51, from ./google/protobuf/generated_message_util.h:53, from ./google/protobuf/metadata_lite.h:37, from ./google/protobuf/metadata.h:41, from ./google/protobuf/generated_message_reflection.h:49, from ./google/protobuf/map_field.h:38, from google/protobuf/map_field.cc:31: ./google/protobuf/repeated_field.h:2494:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2494 | : public std::iterator { | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_algobase.h:65, from /usr/include/c++/14/algorithm:60, from ./google/protobuf/stubs/common.h:38, from ./google/protobuf/arena_impl.h:39, from ./google/protobuf/arena.h:53, from ./google/protobuf/map_field.h:36: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2516:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2516 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2547:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2547 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2571:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2571 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ depbase=`echo google/protobuf/message.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/bash ../libtool --tag=CXX --mode=compile g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/message.lo -MD -MP -MF $depbase.Tpo -c -o google/protobuf/message.lo google/protobuf/message.cc &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/message.lo -MD -MP -MF google/protobuf/.deps/message.Tpo -c google/protobuf/message.cc -fPIC -DPIC -o google/protobuf/.libs/message.o In file included from ./google/protobuf/wire_format_lite.h:51, from ./google/protobuf/generated_message_util.h:53, from ./google/protobuf/metadata_lite.h:37, from ./google/protobuf/metadata.h:41, from ./google/protobuf/generated_message_reflection.h:49, from google/protobuf/message.cc:39: ./google/protobuf/repeated_field.h:2494:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2494 | : public std::iterator { | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/14/string:47, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from google/protobuf/message.cc:35: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2516:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2516 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2547:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2547 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2571:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2571 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from ./google/protobuf/reflection_internal.h:35, from google/protobuf/message.cc:47: ./google/protobuf/reflection.h:396:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 396 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ depbase=`echo google/protobuf/reflection_ops.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/bash ../libtool --tag=CXX --mode=compile g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/reflection_ops.lo -MD -MP -MF $depbase.Tpo -c -o google/protobuf/reflection_ops.lo google/protobuf/reflection_ops.cc &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/reflection_ops.lo -MD -MP -MF google/protobuf/.deps/reflection_ops.Tpo -c google/protobuf/reflection_ops.cc -fPIC -DPIC -o google/protobuf/.libs/reflection_ops.o In file included from ./google/protobuf/wire_format_lite.h:51, from ./google/protobuf/generated_message_util.h:53, from ./google/protobuf/metadata_lite.h:37, from ./google/protobuf/parse_context.h:41, from ./google/protobuf/map_type_handler.h:34, from ./google/protobuf/map.h:49, from ./google/protobuf/generated_message_table_driven.h:34, from ./google/protobuf/descriptor.pb.h:26, from google/protobuf/reflection_ops.cc:41: ./google/protobuf/repeated_field.h:2494:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2494 | : public std::iterator { | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_algobase.h:65, from /usr/include/c++/14/algorithm:60, from ./google/protobuf/stubs/common.h:38, from ./google/protobuf/reflection_ops.h:41, from google/protobuf/reflection_ops.cc:34: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2516:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2516 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2547:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2547 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2571:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2571 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ depbase=`echo google/protobuf/service.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/bash ../libtool --tag=CXX --mode=compile g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/service.lo -MD -MP -MF $depbase.Tpo -c -o google/protobuf/service.lo google/protobuf/service.cc &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/service.lo -MD -MP -MF google/protobuf/.deps/service.Tpo -c google/protobuf/service.cc -fPIC -DPIC -o google/protobuf/.libs/service.o depbase=`echo google/protobuf/source_context.pb.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/bash ../libtool --tag=CXX --mode=compile g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/source_context.pb.lo -MD -MP -MF $depbase.Tpo -c -o google/protobuf/source_context.pb.lo google/protobuf/source_context.pb.cc &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/source_context.pb.lo -MD -MP -MF google/protobuf/.deps/source_context.pb.Tpo -c google/protobuf/source_context.pb.cc -fPIC -DPIC -o google/protobuf/.libs/source_context.pb.o In file included from ./google/protobuf/wire_format_lite.h:51, from ./google/protobuf/generated_message_util.h:53, from ./google/protobuf/metadata_lite.h:37, from ./google/protobuf/parse_context.h:41, from ./google/protobuf/map_type_handler.h:34, from ./google/protobuf/map.h:49, from ./google/protobuf/generated_message_table_driven.h:34, from ./google/protobuf/source_context.pb.h:26, from google/protobuf/source_context.pb.cc:4: ./google/protobuf/repeated_field.h:2494:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2494 | : public std::iterator { | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/14/string:47, from ./google/protobuf/source_context.pb.h:8: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2516:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2516 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2547:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2547 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2571:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2571 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ depbase=`echo google/protobuf/struct.pb.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/bash ../libtool --tag=CXX --mode=compile g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/struct.pb.lo -MD -MP -MF $depbase.Tpo -c -o google/protobuf/struct.pb.lo google/protobuf/struct.pb.cc &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/struct.pb.lo -MD -MP -MF google/protobuf/.deps/struct.pb.Tpo -c google/protobuf/struct.pb.cc -fPIC -DPIC -o google/protobuf/.libs/struct.pb.o In file included from ./google/protobuf/wire_format_lite.h:51, from ./google/protobuf/generated_message_util.h:53, from ./google/protobuf/metadata_lite.h:37, from ./google/protobuf/parse_context.h:41, from ./google/protobuf/map_type_handler.h:34, from ./google/protobuf/map.h:49, from ./google/protobuf/generated_message_table_driven.h:34, from ./google/protobuf/struct.pb.h:26, from google/protobuf/struct.pb.cc:4: ./google/protobuf/repeated_field.h:2494:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2494 | : public std::iterator { | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/14/string:47, from ./google/protobuf/struct.pb.h:8: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2516:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2516 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2547:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2547 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2571:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2571 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ depbase=`echo google/protobuf/stubs/substitute.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/bash ../libtool --tag=CXX --mode=compile g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/stubs/substitute.lo -MD -MP -MF $depbase.Tpo -c -o google/protobuf/stubs/substitute.lo google/protobuf/stubs/substitute.cc &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/stubs/substitute.lo -MD -MP -MF google/protobuf/stubs/.deps/substitute.Tpo -c google/protobuf/stubs/substitute.cc -fPIC -DPIC -o google/protobuf/stubs/.libs/substitute.o depbase=`echo google/protobuf/text_format.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/bash ../libtool --tag=CXX --mode=compile g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/text_format.lo -MD -MP -MF $depbase.Tpo -c -o google/protobuf/text_format.lo google/protobuf/text_format.cc &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/text_format.lo -MD -MP -MF google/protobuf/.deps/text_format.Tpo -c google/protobuf/text_format.cc -fPIC -DPIC -o google/protobuf/.libs/text_format.o In file included from ./google/protobuf/wire_format_lite.h:51, from ./google/protobuf/generated_message_util.h:53, from ./google/protobuf/metadata_lite.h:37, from ./google/protobuf/parse_context.h:41, from ./google/protobuf/map_type_handler.h:34, from ./google/protobuf/map.h:49, from ./google/protobuf/generated_message_table_driven.h:34, from ./google/protobuf/descriptor.pb.h:26, from google/protobuf/text_format.cc:47: ./google/protobuf/repeated_field.h:2494:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2494 | : public std::iterator { | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_algobase.h:65, from /usr/include/c++/14/bits/stl_tree.h:63, from /usr/include/c++/14/map:62, from ./google/protobuf/text_format.h:41, from google/protobuf/text_format.cc:35: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2516:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2516 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2547:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2547 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2571:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2571 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ depbase=`echo google/protobuf/timestamp.pb.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/bash ../libtool --tag=CXX --mode=compile g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/timestamp.pb.lo -MD -MP -MF $depbase.Tpo -c -o google/protobuf/timestamp.pb.lo google/protobuf/timestamp.pb.cc &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/timestamp.pb.lo -MD -MP -MF google/protobuf/.deps/timestamp.pb.Tpo -c google/protobuf/timestamp.pb.cc -fPIC -DPIC -o google/protobuf/.libs/timestamp.pb.o In file included from ./google/protobuf/wire_format_lite.h:51, from ./google/protobuf/generated_message_util.h:53, from ./google/protobuf/metadata_lite.h:37, from ./google/protobuf/parse_context.h:41, from ./google/protobuf/map_type_handler.h:34, from ./google/protobuf/map.h:49, from ./google/protobuf/generated_message_table_driven.h:34, from ./google/protobuf/timestamp.pb.h:26, from google/protobuf/timestamp.pb.cc:4: ./google/protobuf/repeated_field.h:2494:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2494 | : public std::iterator { | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/14/string:47, from ./google/protobuf/timestamp.pb.h:8: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2516:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2516 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2547:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2547 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2571:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2571 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ depbase=`echo google/protobuf/type.pb.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/bash ../libtool --tag=CXX --mode=compile g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/type.pb.lo -MD -MP -MF $depbase.Tpo -c -o google/protobuf/type.pb.lo google/protobuf/type.pb.cc &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/type.pb.lo -MD -MP -MF google/protobuf/.deps/type.pb.Tpo -c google/protobuf/type.pb.cc -fPIC -DPIC -o google/protobuf/.libs/type.pb.o In file included from ./google/protobuf/wire_format_lite.h:51, from ./google/protobuf/generated_message_util.h:53, from ./google/protobuf/metadata_lite.h:37, from ./google/protobuf/parse_context.h:41, from ./google/protobuf/map_type_handler.h:34, from ./google/protobuf/map.h:49, from ./google/protobuf/generated_message_table_driven.h:34, from ./google/protobuf/type.pb.h:26, from google/protobuf/type.pb.cc:4: ./google/protobuf/repeated_field.h:2494:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2494 | : public std::iterator { | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/14/string:47, from ./google/protobuf/type.pb.h:8: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2516:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2516 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2547:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2547 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2571:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2571 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ depbase=`echo google/protobuf/unknown_field_set.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/bash ../libtool --tag=CXX --mode=compile g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/unknown_field_set.lo -MD -MP -MF $depbase.Tpo -c -o google/protobuf/unknown_field_set.lo google/protobuf/unknown_field_set.cc &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/unknown_field_set.lo -MD -MP -MF google/protobuf/.deps/unknown_field_set.Tpo -c google/protobuf/unknown_field_set.cc -fPIC -DPIC -o google/protobuf/.libs/unknown_field_set.o In file included from ./google/protobuf/wire_format_lite.h:51, from ./google/protobuf/generated_message_util.h:53, from ./google/protobuf/metadata_lite.h:37, from ./google/protobuf/parse_context.h:41, from ./google/protobuf/unknown_field_set.h:46, from google/protobuf/unknown_field_set.cc:35: ./google/protobuf/repeated_field.h:2494:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2494 | : public std::iterator { | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/14/string:47, from ./google/protobuf/unknown_field_set.h:42: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2516:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2516 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2547:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2547 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2571:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2571 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /usr/include/c++/14/string:51: In static member function 'static _Up* std::__copy_move<_IsMove, true, std::random_access_iterator_tag>::__copy_m(_Tp*, _Tp*, _Up*) [with _Tp = google::protobuf::UnknownField; _Up = google::protobuf::UnknownField; bool _IsMove = true]', inlined from '_OI std::__copy_move_a2(_II, _II, _OI) [with bool _IsMove = true; _II = google::protobuf::UnknownField*; _OI = google::protobuf::UnknownField*]' at /usr/include/c++/14/bits/stl_algobase.h:521:30, inlined from '_OI std::__copy_move_a1(_II, _II, _OI) [with bool _IsMove = true; _II = google::protobuf::UnknownField*; _OI = google::protobuf::UnknownField*]' at /usr/include/c++/14/bits/stl_algobase.h:548:42, inlined from '_OI std::__copy_move_a(_II, _II, _OI) [with bool _IsMove = true; _II = __gnu_cxx::__normal_iterator >; _OI = google::protobuf::UnknownField*]' at /usr/include/c++/14/bits/stl_algobase.h:555:31, inlined from '_OI std::copy(_II, _II, _OI) [with _II = move_iterator<__gnu_cxx::__normal_iterator > >; _OI = google::protobuf::UnknownField*]' at /usr/include/c++/14/bits/stl_algobase.h:651:7, inlined from 'static _ForwardIterator std::__uninitialized_copy::__uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = std::move_iterator<__gnu_cxx::__normal_iterator > >; _ForwardIterator = google::protobuf::UnknownField*]' at /usr/include/c++/14/bits/stl_uninitialized.h:147:27, inlined from '_ForwardIterator std::uninitialized_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = move_iterator<__gnu_cxx::__normal_iterator > >; _ForwardIterator = google::protobuf::UnknownField*]' at /usr/include/c++/14/bits/stl_uninitialized.h:185:15, inlined from '_ForwardIterator std::__uninitialized_copy_a(_InputIterator, _InputIterator, _ForwardIterator, allocator<_Tp>&) [with _InputIterator = move_iterator<__gnu_cxx::__normal_iterator > >; _ForwardIterator = google::protobuf::UnknownField*; _Tp = google::protobuf::UnknownField]' at /usr/include/c++/14/bits/stl_uninitialized.h:373:37, inlined from 'void std::vector<_Tp, _Alloc>::_M_range_insert(iterator, _ForwardIterator, _ForwardIterator, std::forward_iterator_tag) [with _ForwardIterator = std::move_iterator<__gnu_cxx::__normal_iterator > >; _Tp = google::protobuf::UnknownField; _Alloc = std::allocator]' at /usr/include/c++/14/bits/vector.tcc:1022:38, inlined from 'std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::insert(const_iterator, _InputIterator, _InputIterator) [with _InputIterator = std::move_iterator<__gnu_cxx::__normal_iterator > >; = void; _Tp = google::protobuf::UnknownField; _Alloc = std::allocator]' at /usr/include/c++/14/bits/stl_vector.h:1488:19, inlined from 'void google::protobuf::UnknownFieldSet::MergeFromAndDestroy(google::protobuf::UnknownFieldSet*)' at google/protobuf/unknown_field_set.cc:94:19: /usr/include/c++/14/bits/stl_algobase.h:452:30: warning: 'void* __builtin_memmove(void*, const void*, long unsigned int)' writing between 17 and 9223372036854775792 bytes into a region of size 0 overflows the destination [-Wstringop-overflow=] 452 | __builtin_memmove(__result, __first, sizeof(_Tp) * _Num); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/x86_64-linux-gnu/c++/14/bits/c++allocator.h:33, from /usr/include/c++/14/bits/allocator.h:46, from /usr/include/c++/14/string:43: In member function '_Tp* std::__new_allocator<_Tp>::allocate(size_type, const void*) [with _Tp = google::protobuf::UnknownField]', inlined from 'static _Tp* std::allocator_traits >::allocate(allocator_type&, size_type) [with _Tp = google::protobuf::UnknownField]' at /usr/include/c++/14/bits/alloc_traits.h:515:28, inlined from 'std::_Vector_base<_Tp, _Alloc>::pointer std::_Vector_base<_Tp, _Alloc>::_M_allocate(std::size_t) [with _Tp = google::protobuf::UnknownField; _Alloc = std::allocator]' at /usr/include/c++/14/bits/stl_vector.h:380:33, inlined from 'void std::vector<_Tp, _Alloc>::_M_range_insert(iterator, _ForwardIterator, _ForwardIterator, std::forward_iterator_tag) [with _ForwardIterator = std::move_iterator<__gnu_cxx::__normal_iterator > >; _Tp = google::protobuf::UnknownField; _Alloc = std::allocator]' at /usr/include/c++/14/bits/vector.tcc:1013:40, inlined from 'std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::insert(const_iterator, _InputIterator, _InputIterator) [with _InputIterator = std::move_iterator<__gnu_cxx::__normal_iterator > >; = void; _Tp = google::protobuf::UnknownField; _Alloc = std::allocator]' at /usr/include/c++/14/bits/stl_vector.h:1488:19, inlined from 'void google::protobuf::UnknownFieldSet::MergeFromAndDestroy(google::protobuf::UnknownFieldSet*)' at google/protobuf/unknown_field_set.cc:94:19: /usr/include/c++/14/bits/new_allocator.h:151:55: note: at offset [-9223372036854775808, -1] into destination object of size [16, 9223372036854775792] allocated by 'operator new' 151 | return static_cast<_Tp*>(_GLIBCXX_OPERATOR_NEW(__n * sizeof(_Tp))); | ^ depbase=`echo google/protobuf/wire_format.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/bash ../libtool --tag=CXX --mode=compile g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/wire_format.lo -MD -MP -MF $depbase.Tpo -c -o google/protobuf/wire_format.lo google/protobuf/wire_format.cc &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/wire_format.lo -MD -MP -MF google/protobuf/.deps/wire_format.Tpo -c google/protobuf/wire_format.cc -fPIC -DPIC -o google/protobuf/.libs/wire_format.o In file included from ./google/protobuf/wire_format_lite.h:51, from ./google/protobuf/wire_format.h:46, from google/protobuf/wire_format.cc:39: ./google/protobuf/repeated_field.h:2494:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2494 | : public std::iterator { | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_algobase.h:65, from /usr/include/c++/14/deque:62, from /usr/include/c++/14/stack:62, from google/protobuf/wire_format.cc:35: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2516:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2516 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2547:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2547 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2571:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2571 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ depbase=`echo google/protobuf/wrappers.pb.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/bash ../libtool --tag=CXX --mode=compile g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/wrappers.pb.lo -MD -MP -MF $depbase.Tpo -c -o google/protobuf/wrappers.pb.lo google/protobuf/wrappers.pb.cc &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/wrappers.pb.lo -MD -MP -MF google/protobuf/.deps/wrappers.pb.Tpo -c google/protobuf/wrappers.pb.cc -fPIC -DPIC -o google/protobuf/.libs/wrappers.pb.o In file included from ./google/protobuf/wire_format_lite.h:51, from ./google/protobuf/generated_message_util.h:53, from ./google/protobuf/metadata_lite.h:37, from ./google/protobuf/parse_context.h:41, from ./google/protobuf/map_type_handler.h:34, from ./google/protobuf/map.h:49, from ./google/protobuf/generated_message_table_driven.h:34, from ./google/protobuf/wrappers.pb.h:26, from google/protobuf/wrappers.pb.cc:4: ./google/protobuf/repeated_field.h:2494:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2494 | : public std::iterator { | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/14/string:47, from ./google/protobuf/wrappers.pb.h:8: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2516:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2516 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2547:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2547 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2571:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2571 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ depbase=`echo google/protobuf/io/gzip_stream.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/bash ../libtool --tag=CXX --mode=compile g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/io/gzip_stream.lo -MD -MP -MF $depbase.Tpo -c -o google/protobuf/io/gzip_stream.lo google/protobuf/io/gzip_stream.cc &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/io/gzip_stream.lo -MD -MP -MF google/protobuf/io/.deps/gzip_stream.Tpo -c google/protobuf/io/gzip_stream.cc -fPIC -DPIC -o google/protobuf/io/.libs/gzip_stream.o depbase=`echo google/protobuf/io/printer.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/bash ../libtool --tag=CXX --mode=compile g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/io/printer.lo -MD -MP -MF $depbase.Tpo -c -o google/protobuf/io/printer.lo google/protobuf/io/printer.cc &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/io/printer.lo -MD -MP -MF google/protobuf/io/.deps/printer.Tpo -c google/protobuf/io/printer.cc -fPIC -DPIC -o google/protobuf/io/.libs/printer.o depbase=`echo google/protobuf/io/tokenizer.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/bash ../libtool --tag=CXX --mode=compile g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/io/tokenizer.lo -MD -MP -MF $depbase.Tpo -c -o google/protobuf/io/tokenizer.lo google/protobuf/io/tokenizer.cc &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/io/tokenizer.lo -MD -MP -MF google/protobuf/io/.deps/tokenizer.Tpo -c google/protobuf/io/tokenizer.cc -fPIC -DPIC -o google/protobuf/io/.libs/tokenizer.o depbase=`echo google/protobuf/io/zero_copy_stream_impl.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/bash ../libtool --tag=CXX --mode=compile g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/io/zero_copy_stream_impl.lo -MD -MP -MF $depbase.Tpo -c -o google/protobuf/io/zero_copy_stream_impl.lo google/protobuf/io/zero_copy_stream_impl.cc &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/io/zero_copy_stream_impl.lo -MD -MP -MF google/protobuf/io/.deps/zero_copy_stream_impl.Tpo -c google/protobuf/io/zero_copy_stream_impl.cc -fPIC -DPIC -o google/protobuf/io/.libs/zero_copy_stream_impl.o depbase=`echo google/protobuf/compiler/importer.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/bash ../libtool --tag=CXX --mode=compile g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/compiler/importer.lo -MD -MP -MF $depbase.Tpo -c -o google/protobuf/compiler/importer.lo google/protobuf/compiler/importer.cc &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/compiler/importer.lo -MD -MP -MF google/protobuf/compiler/.deps/importer.Tpo -c google/protobuf/compiler/importer.cc -fPIC -DPIC -o google/protobuf/compiler/.libs/importer.o In file included from ./google/protobuf/wire_format_lite.h:51, from ./google/protobuf/generated_message_util.h:53, from ./google/protobuf/metadata_lite.h:37, from ./google/protobuf/parse_context.h:41, from ./google/protobuf/map_type_handler.h:34, from ./google/protobuf/map.h:49, from ./google/protobuf/generated_message_table_driven.h:34, from ./google/protobuf/descriptor.pb.h:26, from ./google/protobuf/compiler/parser.h:43, from ./google/protobuf/compiler/importer.h:44, from google/protobuf/compiler/importer.cc:48: ./google/protobuf/repeated_field.h:2494:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2494 | : public std::iterator { | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_algobase.h:65, from /usr/include/c++/14/algorithm:60, from google/protobuf/compiler/importer.cc:45: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2516:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2516 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2547:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2547 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2571:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2571 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ depbase=`echo google/protobuf/compiler/parser.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/bash ../libtool --tag=CXX --mode=compile g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/compiler/parser.lo -MD -MP -MF $depbase.Tpo -c -o google/protobuf/compiler/parser.lo google/protobuf/compiler/parser.cc &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/compiler/parser.lo -MD -MP -MF google/protobuf/compiler/.deps/parser.Tpo -c google/protobuf/compiler/parser.cc -fPIC -DPIC -o google/protobuf/compiler/.libs/parser.o In file included from ./google/protobuf/wire_format_lite.h:51, from ./google/protobuf/generated_message_util.h:53, from ./google/protobuf/metadata_lite.h:37, from ./google/protobuf/parse_context.h:41, from ./google/protobuf/map_type_handler.h:34, from ./google/protobuf/map.h:49, from ./google/protobuf/generated_message_table_driven.h:34, from ./google/protobuf/descriptor.pb.h:26, from ./google/protobuf/compiler/parser.h:43, from google/protobuf/compiler/parser.cc:47: ./google/protobuf/repeated_field.h:2494:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2494 | : public std::iterator { | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_algobase.h:65, from /usr/include/c++/14/bits/hashtable_policy.h:36, from /usr/include/c++/14/bits/hashtable.h:35, from /usr/include/c++/14/bits/unordered_map.h:33, from /usr/include/c++/14/unordered_map:41, from google/protobuf/compiler/parser.cc:39: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2516:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2516 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2547:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2547 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2571:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2571 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ depbase=`echo google/protobuf/util/delimited_message_util.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/bash ../libtool --tag=CXX --mode=compile g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/util/delimited_message_util.lo -MD -MP -MF $depbase.Tpo -c -o google/protobuf/util/delimited_message_util.lo google/protobuf/util/delimited_message_util.cc &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/util/delimited_message_util.lo -MD -MP -MF google/protobuf/util/.deps/delimited_message_util.Tpo -c google/protobuf/util/delimited_message_util.cc -fPIC -DPIC -o google/protobuf/util/.libs/delimited_message_util.o depbase=`echo google/protobuf/util/field_comparator.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/bash ../libtool --tag=CXX --mode=compile g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/util/field_comparator.lo -MD -MP -MF $depbase.Tpo -c -o google/protobuf/util/field_comparator.lo google/protobuf/util/field_comparator.cc &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/util/field_comparator.lo -MD -MP -MF google/protobuf/util/.deps/field_comparator.Tpo -c google/protobuf/util/field_comparator.cc -fPIC -DPIC -o google/protobuf/util/.libs/field_comparator.o In file included from ./google/protobuf/wire_format_lite.h:51, from ./google/protobuf/generated_message_util.h:53, from ./google/protobuf/metadata_lite.h:37, from ./google/protobuf/parse_context.h:41, from ./google/protobuf/unknown_field_set.h:46, from ./google/protobuf/util/message_differencer.h:53, from google/protobuf/util/field_comparator.cc:39: ./google/protobuf/repeated_field.h:2494:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2494 | : public std::iterator { | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_algobase.h:65, from /usr/include/c++/14/bits/stl_tree.h:63, from /usr/include/c++/14/map:62, from ./google/protobuf/util/field_comparator.h:36, from google/protobuf/util/field_comparator.cc:33: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2516:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2516 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2547:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2547 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2571:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2571 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ depbase=`echo google/protobuf/util/field_mask_util.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/bash ../libtool --tag=CXX --mode=compile g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/util/field_mask_util.lo -MD -MP -MF $depbase.Tpo -c -o google/protobuf/util/field_mask_util.lo google/protobuf/util/field_mask_util.cc &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/util/field_mask_util.lo -MD -MP -MF google/protobuf/util/.deps/field_mask_util.Tpo -c google/protobuf/util/field_mask_util.cc -fPIC -DPIC -o google/protobuf/util/.libs/field_mask_util.o In file included from ./google/protobuf/wire_format_lite.h:51, from ./google/protobuf/generated_message_util.h:53, from ./google/protobuf/metadata_lite.h:37, from ./google/protobuf/parse_context.h:41, from ./google/protobuf/map_type_handler.h:34, from ./google/protobuf/map.h:49, from ./google/protobuf/generated_message_table_driven.h:34, from ./google/protobuf/field_mask.pb.h:26, from ./google/protobuf/util/field_mask_util.h:38, from google/protobuf/util/field_mask_util.cc:31: ./google/protobuf/repeated_field.h:2494:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2494 | : public std::iterator { | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/14/string:47, from ./google/protobuf/util/field_mask_util.h:36: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2516:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2516 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2547:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2547 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2571:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2571 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ depbase=`echo google/protobuf/util/internal/datapiece.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/bash ../libtool --tag=CXX --mode=compile g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/util/internal/datapiece.lo -MD -MP -MF $depbase.Tpo -c -o google/protobuf/util/internal/datapiece.lo google/protobuf/util/internal/datapiece.cc &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/util/internal/datapiece.lo -MD -MP -MF google/protobuf/util/internal/.deps/datapiece.Tpo -c google/protobuf/util/internal/datapiece.cc -fPIC -DPIC -o google/protobuf/util/internal/.libs/datapiece.o In file included from ./google/protobuf/wire_format_lite.h:51, from ./google/protobuf/generated_message_util.h:53, from ./google/protobuf/metadata_lite.h:37, from ./google/protobuf/parse_context.h:41, from ./google/protobuf/map_type_handler.h:34, from ./google/protobuf/map.h:49, from ./google/protobuf/generated_message_table_driven.h:34, from ./google/protobuf/type.pb.h:26, from ./google/protobuf/util/internal/datapiece.h:38, from google/protobuf/util/internal/datapiece.cc:31: ./google/protobuf/repeated_field.h:2494:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2494 | : public std::iterator { | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/14/string:47, from ./google/protobuf/util/internal/datapiece.h:34: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2516:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2516 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2547:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2547 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2571:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2571 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ depbase=`echo google/protobuf/util/internal/default_value_objectwriter.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/bash ../libtool --tag=CXX --mode=compile g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/util/internal/default_value_objectwriter.lo -MD -MP -MF $depbase.Tpo -c -o google/protobuf/util/internal/default_value_objectwriter.lo google/protobuf/util/internal/default_value_objectwriter.cc &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/util/internal/default_value_objectwriter.lo -MD -MP -MF google/protobuf/util/internal/.deps/default_value_objectwriter.Tpo -c google/protobuf/util/internal/default_value_objectwriter.cc -fPIC -DPIC -o google/protobuf/util/internal/.libs/default_value_objectwriter.o In file included from ./google/protobuf/wire_format_lite.h:51, from ./google/protobuf/generated_message_util.h:53, from ./google/protobuf/metadata_lite.h:37, from ./google/protobuf/parse_context.h:41, from ./google/protobuf/map_type_handler.h:34, from ./google/protobuf/map.h:49, from ./google/protobuf/generated_message_table_driven.h:34, from ./google/protobuf/type.pb.h:26, from ./google/protobuf/util/internal/type_info.h:35, from ./google/protobuf/util/internal/default_value_objectwriter.h:40, from google/protobuf/util/internal/default_value_objectwriter.cc:31: ./google/protobuf/repeated_field.h:2494:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2494 | : public std::iterator { | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_construct.h:61, from /usr/include/c++/14/bits/stl_tempbuf.h:61, from /usr/include/c++/14/memory:66, from ./google/protobuf/util/internal/default_value_objectwriter.h:34: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2516:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2516 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2547:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2547 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2571:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2571 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ depbase=`echo google/protobuf/util/internal/error_listener.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/bash ../libtool --tag=CXX --mode=compile g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/util/internal/error_listener.lo -MD -MP -MF $depbase.Tpo -c -o google/protobuf/util/internal/error_listener.lo google/protobuf/util/internal/error_listener.cc &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/util/internal/error_listener.lo -MD -MP -MF google/protobuf/util/internal/.deps/error_listener.Tpo -c google/protobuf/util/internal/error_listener.cc -fPIC -DPIC -o google/protobuf/util/internal/.libs/error_listener.o depbase=`echo google/protobuf/util/internal/field_mask_utility.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/bash ../libtool --tag=CXX --mode=compile g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/util/internal/field_mask_utility.lo -MD -MP -MF $depbase.Tpo -c -o google/protobuf/util/internal/field_mask_utility.lo google/protobuf/util/internal/field_mask_utility.cc &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/util/internal/field_mask_utility.lo -MD -MP -MF google/protobuf/util/internal/.deps/field_mask_utility.Tpo -c google/protobuf/util/internal/field_mask_utility.cc -fPIC -DPIC -o google/protobuf/util/internal/.libs/field_mask_utility.o In file included from ./google/protobuf/wire_format_lite.h:51, from ./google/protobuf/generated_message_util.h:53, from ./google/protobuf/metadata_lite.h:37, from ./google/protobuf/parse_context.h:41, from ./google/protobuf/map_type_handler.h:34, from ./google/protobuf/map.h:49, from ./google/protobuf/generated_message_table_driven.h:34, from ./google/protobuf/any.pb.h:26, from ./google/protobuf/util/internal/utility.h:40, from google/protobuf/util/internal/field_mask_utility.cc:33: ./google/protobuf/repeated_field.h:2494:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2494 | : public std::iterator { | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_algobase.h:65, from /usr/include/c++/14/bits/hashtable_policy.h:36, from /usr/include/c++/14/bits/hashtable.h:35, from /usr/include/c++/14/bits/unordered_map.h:33, from /usr/include/c++/14/unordered_map:41, from /usr/include/c++/14/functional:63, from ./google/protobuf/util/internal/field_mask_utility.h:36, from google/protobuf/util/internal/field_mask_utility.cc:31: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2516:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2516 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2547:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2547 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2571:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2571 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ depbase=`echo google/protobuf/util/internal/json_escaping.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/bash ../libtool --tag=CXX --mode=compile g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/util/internal/json_escaping.lo -MD -MP -MF $depbase.Tpo -c -o google/protobuf/util/internal/json_escaping.lo google/protobuf/util/internal/json_escaping.cc &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/util/internal/json_escaping.lo -MD -MP -MF google/protobuf/util/internal/.deps/json_escaping.Tpo -c google/protobuf/util/internal/json_escaping.cc -fPIC -DPIC -o google/protobuf/util/internal/.libs/json_escaping.o depbase=`echo google/protobuf/util/internal/json_objectwriter.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/bash ../libtool --tag=CXX --mode=compile g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/util/internal/json_objectwriter.lo -MD -MP -MF $depbase.Tpo -c -o google/protobuf/util/internal/json_objectwriter.lo google/protobuf/util/internal/json_objectwriter.cc &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/util/internal/json_objectwriter.lo -MD -MP -MF google/protobuf/util/internal/.deps/json_objectwriter.Tpo -c google/protobuf/util/internal/json_objectwriter.cc -fPIC -DPIC -o google/protobuf/util/internal/.libs/json_objectwriter.o In file included from ./google/protobuf/wire_format_lite.h:51, from ./google/protobuf/generated_message_util.h:53, from ./google/protobuf/metadata_lite.h:37, from ./google/protobuf/parse_context.h:41, from ./google/protobuf/map_type_handler.h:34, from ./google/protobuf/map.h:49, from ./google/protobuf/generated_message_table_driven.h:34, from ./google/protobuf/any.pb.h:26, from ./google/protobuf/util/internal/utility.h:40, from google/protobuf/util/internal/json_objectwriter.cc:38: ./google/protobuf/repeated_field.h:2494:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2494 | : public std::iterator { | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_construct.h:61, from /usr/include/c++/14/bits/stl_tempbuf.h:61, from /usr/include/c++/14/memory:66, from ./google/protobuf/util/internal/json_objectwriter.h:34, from google/protobuf/util/internal/json_objectwriter.cc:31: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2516:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2516 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2547:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2547 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2571:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2571 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ depbase=`echo google/protobuf/util/internal/json_stream_parser.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/bash ../libtool --tag=CXX --mode=compile g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/util/internal/json_stream_parser.lo -MD -MP -MF $depbase.Tpo -c -o google/protobuf/util/internal/json_stream_parser.lo google/protobuf/util/internal/json_stream_parser.cc &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/util/internal/json_stream_parser.lo -MD -MP -MF google/protobuf/util/internal/.deps/json_stream_parser.Tpo -c google/protobuf/util/internal/json_stream_parser.cc -fPIC -DPIC -o google/protobuf/util/internal/.libs/json_stream_parser.o depbase=`echo google/protobuf/util/internal/object_writer.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/bash ../libtool --tag=CXX --mode=compile g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/util/internal/object_writer.lo -MD -MP -MF $depbase.Tpo -c -o google/protobuf/util/internal/object_writer.lo google/protobuf/util/internal/object_writer.cc &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/util/internal/object_writer.lo -MD -MP -MF google/protobuf/util/internal/.deps/object_writer.Tpo -c google/protobuf/util/internal/object_writer.cc -fPIC -DPIC -o google/protobuf/util/internal/.libs/object_writer.o In file included from ./google/protobuf/wire_format_lite.h:51, from ./google/protobuf/generated_message_util.h:53, from ./google/protobuf/metadata_lite.h:37, from ./google/protobuf/parse_context.h:41, from ./google/protobuf/map_type_handler.h:34, from ./google/protobuf/map.h:49, from ./google/protobuf/generated_message_table_driven.h:34, from ./google/protobuf/type.pb.h:26, from ./google/protobuf/util/internal/datapiece.h:38, from google/protobuf/util/internal/object_writer.cc:33: ./google/protobuf/repeated_field.h:2494:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2494 | : public std::iterator { | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_algobase.h:65, from /usr/include/c++/14/algorithm:60, from ./google/protobuf/stubs/common.h:38, from ./google/protobuf/util/internal/object_writer.h:34, from google/protobuf/util/internal/object_writer.cc:31: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2516:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2516 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2547:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2547 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2571:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2571 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ depbase=`echo google/protobuf/util/internal/protostream_objectsource.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/bash ../libtool --tag=CXX --mode=compile g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/util/internal/protostream_objectsource.lo -MD -MP -MF $depbase.Tpo -c -o google/protobuf/util/internal/protostream_objectsource.lo google/protobuf/util/internal/protostream_objectsource.cc &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/util/internal/protostream_objectsource.lo -MD -MP -MF google/protobuf/util/internal/.deps/protostream_objectsource.Tpo -c google/protobuf/util/internal/protostream_objectsource.cc -fPIC -DPIC -o google/protobuf/util/internal/.libs/protostream_objectsource.o In file included from ./google/protobuf/wire_format_lite.h:51, from ./google/protobuf/generated_message_util.h:53, from ./google/protobuf/metadata_lite.h:37, from ./google/protobuf/parse_context.h:41, from ./google/protobuf/map_type_handler.h:34, from ./google/protobuf/map.h:49, from ./google/protobuf/generated_message_table_driven.h:34, from ./google/protobuf/type.pb.h:26, from ./google/protobuf/util/internal/protostream_objectsource.h:39, from google/protobuf/util/internal/protostream_objectsource.cc:31: ./google/protobuf/repeated_field.h:2494:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2494 | : public std::iterator { | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_algobase.h:65, from /usr/include/c++/14/bits/hashtable_policy.h:36, from /usr/include/c++/14/bits/hashtable.h:35, from /usr/include/c++/14/bits/unordered_map.h:33, from /usr/include/c++/14/unordered_map:41, from /usr/include/c++/14/functional:63, from ./google/protobuf/util/internal/protostream_objectsource.h:34: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2516:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2516 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2547:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2547 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2571:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2571 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ depbase=`echo google/protobuf/util/internal/protostream_objectwriter.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/bash ../libtool --tag=CXX --mode=compile g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/util/internal/protostream_objectwriter.lo -MD -MP -MF $depbase.Tpo -c -o google/protobuf/util/internal/protostream_objectwriter.lo google/protobuf/util/internal/protostream_objectwriter.cc &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/util/internal/protostream_objectwriter.lo -MD -MP -MF google/protobuf/util/internal/.deps/protostream_objectwriter.Tpo -c google/protobuf/util/internal/protostream_objectwriter.cc -fPIC -DPIC -o google/protobuf/util/internal/.libs/protostream_objectwriter.o In file included from ./google/protobuf/wire_format_lite.h:51, from ./google/protobuf/generated_message_util.h:53, from ./google/protobuf/metadata_lite.h:37, from ./google/protobuf/parse_context.h:41, from ./google/protobuf/map_type_handler.h:34, from ./google/protobuf/map.h:49, from ./google/protobuf/generated_message_table_driven.h:34, from ./google/protobuf/type.pb.h:26, from ./google/protobuf/util/internal/protostream_objectwriter.h:40, from google/protobuf/util/internal/protostream_objectwriter.cc:31: ./google/protobuf/repeated_field.h:2494:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2494 | : public std::iterator { | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_algobase.h:65, from /usr/include/c++/14/deque:62, from ./google/protobuf/util/internal/protostream_objectwriter.h:34: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2516:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2516 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2547:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2547 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2571:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2571 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ depbase=`echo google/protobuf/util/internal/proto_writer.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/bash ../libtool --tag=CXX --mode=compile g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/util/internal/proto_writer.lo -MD -MP -MF $depbase.Tpo -c -o google/protobuf/util/internal/proto_writer.lo google/protobuf/util/internal/proto_writer.cc &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/util/internal/proto_writer.lo -MD -MP -MF google/protobuf/util/internal/.deps/proto_writer.Tpo -c google/protobuf/util/internal/proto_writer.cc -fPIC -DPIC -o google/protobuf/util/internal/.libs/proto_writer.o In file included from ./google/protobuf/wire_format_lite.h:51, from ./google/protobuf/generated_message_util.h:53, from ./google/protobuf/metadata_lite.h:37, from ./google/protobuf/parse_context.h:41, from ./google/protobuf/map_type_handler.h:34, from ./google/protobuf/map.h:49, from ./google/protobuf/generated_message_table_driven.h:34, from ./google/protobuf/type.pb.h:26, from ./google/protobuf/util/internal/proto_writer.h:39, from google/protobuf/util/internal/proto_writer.cc:31: ./google/protobuf/repeated_field.h:2494:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2494 | : public std::iterator { | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_algobase.h:65, from /usr/include/c++/14/deque:62, from ./google/protobuf/util/internal/proto_writer.h:34: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2516:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2516 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2547:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2547 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2571:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2571 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ depbase=`echo google/protobuf/util/internal/type_info.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/bash ../libtool --tag=CXX --mode=compile g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/util/internal/type_info.lo -MD -MP -MF $depbase.Tpo -c -o google/protobuf/util/internal/type_info.lo google/protobuf/util/internal/type_info.cc &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/util/internal/type_info.lo -MD -MP -MF google/protobuf/util/internal/.deps/type_info.Tpo -c google/protobuf/util/internal/type_info.cc -fPIC -DPIC -o google/protobuf/util/internal/.libs/type_info.o In file included from ./google/protobuf/wire_format_lite.h:51, from ./google/protobuf/generated_message_util.h:53, from ./google/protobuf/metadata_lite.h:37, from ./google/protobuf/parse_context.h:41, from ./google/protobuf/map_type_handler.h:34, from ./google/protobuf/map.h:49, from ./google/protobuf/generated_message_table_driven.h:34, from ./google/protobuf/type.pb.h:26, from ./google/protobuf/util/internal/type_info.h:35, from google/protobuf/util/internal/type_info.cc:31: ./google/protobuf/repeated_field.h:2494:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2494 | : public std::iterator { | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_algobase.h:65, from /usr/include/c++/14/algorithm:60, from ./google/protobuf/stubs/common.h:38, from ./google/protobuf/util/internal/type_info.h:34: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2516:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2516 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2547:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2547 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2571:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2571 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ depbase=`echo google/protobuf/util/internal/type_info_test_helper.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/bash ../libtool --tag=CXX --mode=compile g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/util/internal/type_info_test_helper.lo -MD -MP -MF $depbase.Tpo -c -o google/protobuf/util/internal/type_info_test_helper.lo google/protobuf/util/internal/type_info_test_helper.cc &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/util/internal/type_info_test_helper.lo -MD -MP -MF google/protobuf/util/internal/.deps/type_info_test_helper.Tpo -c google/protobuf/util/internal/type_info_test_helper.cc -fPIC -DPIC -o google/protobuf/util/internal/.libs/type_info_test_helper.o In file included from ./google/protobuf/wire_format_lite.h:51, from ./google/protobuf/generated_message_util.h:53, from ./google/protobuf/metadata_lite.h:37, from ./google/protobuf/parse_context.h:41, from ./google/protobuf/map_type_handler.h:34, from ./google/protobuf/map.h:49, from ./google/protobuf/generated_message_table_driven.h:34, from ./google/protobuf/type.pb.h:26, from ./google/protobuf/util/internal/type_info.h:35, from ./google/protobuf/util/internal/default_value_objectwriter.h:40, from ./google/protobuf/util/internal/type_info_test_helper.h:39, from google/protobuf/util/internal/type_info_test_helper.cc:31: ./google/protobuf/repeated_field.h:2494:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2494 | : public std::iterator { | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_construct.h:61, from /usr/include/c++/14/bits/stl_tempbuf.h:61, from /usr/include/c++/14/memory:66, from ./google/protobuf/util/internal/type_info_test_helper.h:34: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2516:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2516 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2547:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2547 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2571:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2571 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ depbase=`echo google/protobuf/util/internal/utility.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/bash ../libtool --tag=CXX --mode=compile g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/util/internal/utility.lo -MD -MP -MF $depbase.Tpo -c -o google/protobuf/util/internal/utility.lo google/protobuf/util/internal/utility.cc &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/util/internal/utility.lo -MD -MP -MF google/protobuf/util/internal/.deps/utility.Tpo -c google/protobuf/util/internal/utility.cc -fPIC -DPIC -o google/protobuf/util/internal/.libs/utility.o In file included from ./google/protobuf/wire_format_lite.h:51, from ./google/protobuf/generated_message_util.h:53, from ./google/protobuf/metadata_lite.h:37, from ./google/protobuf/parse_context.h:41, from ./google/protobuf/map_type_handler.h:34, from ./google/protobuf/map.h:49, from ./google/protobuf/generated_message_table_driven.h:34, from ./google/protobuf/any.pb.h:26, from ./google/protobuf/util/internal/utility.h:40, from google/protobuf/util/internal/utility.cc:31: ./google/protobuf/repeated_field.h:2494:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2494 | : public std::iterator { | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_construct.h:61, from /usr/include/c++/14/bits/stl_tempbuf.h:61, from /usr/include/c++/14/memory:66, from ./google/protobuf/util/internal/utility.h:34: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2516:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2516 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2547:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2547 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2571:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2571 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ depbase=`echo google/protobuf/util/json_util.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/bash ../libtool --tag=CXX --mode=compile g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/util/json_util.lo -MD -MP -MF $depbase.Tpo -c -o google/protobuf/util/json_util.lo google/protobuf/util/json_util.cc &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/util/json_util.lo -MD -MP -MF google/protobuf/util/.deps/json_util.Tpo -c google/protobuf/util/json_util.cc -fPIC -DPIC -o google/protobuf/util/.libs/json_util.o In file included from ./google/protobuf/wire_format_lite.h:51, from ./google/protobuf/generated_message_util.h:53, from ./google/protobuf/metadata_lite.h:37, from ./google/protobuf/parse_context.h:41, from ./google/protobuf/map_type_handler.h:34, from ./google/protobuf/map.h:49, from ./google/protobuf/generated_message_table_driven.h:34, from ./google/protobuf/type.pb.h:26, from ./google/protobuf/util/type_resolver.h:39, from ./google/protobuf/util/json_util.h:37, from google/protobuf/util/json_util.cc:31: ./google/protobuf/repeated_field.h:2494:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2494 | : public std::iterator { | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/14/string:47, from ./google/protobuf/message.h:114, from ./google/protobuf/util/json_util.h:36: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2516:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2516 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2547:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2547 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2571:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2571 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ depbase=`echo google/protobuf/util/message_differencer.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/bash ../libtool --tag=CXX --mode=compile g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/util/message_differencer.lo -MD -MP -MF $depbase.Tpo -c -o google/protobuf/util/message_differencer.lo google/protobuf/util/message_differencer.cc &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/util/message_differencer.lo -MD -MP -MF google/protobuf/util/.deps/message_differencer.Tpo -c google/protobuf/util/message_differencer.cc -fPIC -DPIC -o google/protobuf/util/.libs/message_differencer.o In file included from ./google/protobuf/wire_format_lite.h:51, from ./google/protobuf/generated_message_util.h:53, from ./google/protobuf/metadata_lite.h:37, from ./google/protobuf/parse_context.h:41, from ./google/protobuf/unknown_field_set.h:46, from ./google/protobuf/util/message_differencer.h:53, from google/protobuf/util/message_differencer.cc:35: ./google/protobuf/repeated_field.h:2494:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2494 | : public std::iterator { | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_algobase.h:65, from /usr/include/c++/14/bits/hashtable_policy.h:36, from /usr/include/c++/14/bits/hashtable.h:35, from /usr/include/c++/14/bits/unordered_map.h:33, from /usr/include/c++/14/unordered_map:41, from /usr/include/c++/14/functional:63, from ./google/protobuf/util/message_differencer.h:45: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2516:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2516 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2547:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2547 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2571:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2571 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ depbase=`echo google/protobuf/util/time_util.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/bash ../libtool --tag=CXX --mode=compile g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/util/time_util.lo -MD -MP -MF $depbase.Tpo -c -o google/protobuf/util/time_util.lo google/protobuf/util/time_util.cc &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/util/time_util.lo -MD -MP -MF google/protobuf/util/.deps/time_util.Tpo -c google/protobuf/util/time_util.cc -fPIC -DPIC -o google/protobuf/util/.libs/time_util.o In file included from ./google/protobuf/wire_format_lite.h:51, from ./google/protobuf/generated_message_util.h:53, from ./google/protobuf/metadata_lite.h:37, from ./google/protobuf/parse_context.h:41, from ./google/protobuf/map_type_handler.h:34, from ./google/protobuf/map.h:49, from ./google/protobuf/generated_message_table_driven.h:34, from ./google/protobuf/duration.pb.h:26, from ./google/protobuf/util/time_util.h:45, from google/protobuf/util/time_util.cc:31: ./google/protobuf/repeated_field.h:2494:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2494 | : public std::iterator { | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/14/string:47, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from ./google/protobuf/util/time_util.h:37: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2516:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2516 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2547:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2547 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2571:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2571 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ depbase=`echo google/protobuf/util/type_resolver_util.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/bash ../libtool --tag=CXX --mode=compile g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/util/type_resolver_util.lo -MD -MP -MF $depbase.Tpo -c -o google/protobuf/util/type_resolver_util.lo google/protobuf/util/type_resolver_util.cc &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/util/type_resolver_util.lo -MD -MP -MF google/protobuf/util/.deps/type_resolver_util.Tpo -c google/protobuf/util/type_resolver_util.cc -fPIC -DPIC -o google/protobuf/util/.libs/type_resolver_util.o In file included from ./google/protobuf/wire_format_lite.h:51, from ./google/protobuf/generated_message_util.h:53, from ./google/protobuf/metadata_lite.h:37, from ./google/protobuf/parse_context.h:41, from ./google/protobuf/map_type_handler.h:34, from ./google/protobuf/map.h:49, from ./google/protobuf/generated_message_table_driven.h:34, from ./google/protobuf/type.pb.h:26, from google/protobuf/util/type_resolver_util.cc:33: ./google/protobuf/repeated_field.h:2494:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2494 | : public std::iterator { | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/14/string:47, from ./google/protobuf/util/type_resolver_util.h:36, from google/protobuf/util/type_resolver_util.cc:31: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2516:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2516 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2547:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2547 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2571:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2571 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /bin/bash ../libtool --tag=CXX --mode=link g++-14 -std=gnu++17 -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -version-info 19:0:0 -export-dynamic -no-undefined -Wl,--version-script=./libprotobuf.map -Wl,-O1 -o libprotobuf.la -rpath /home/hornik/tmp/scratch/RtmpedVSyq/R.INSTALL31347c13a13fd4/RProtoBufLib/src/pb_build/lib google/protobuf/stubs/bytestream.lo google/protobuf/stubs/common.lo google/protobuf/stubs/int128.lo google/protobuf/io/io_win32.lo google/protobuf/stubs/status.lo google/protobuf/stubs/statusor.lo google/protobuf/stubs/stringpiece.lo google/protobuf/stubs/stringprintf.lo google/protobuf/stubs/structurally_valid.lo google/protobuf/stubs/strutil.lo google/protobuf/stubs/time.lo google/protobuf/any_lite.lo google/protobuf/arena.lo google/protobuf/extension_set.lo google/protobuf/generated_message_util.lo google/protobuf/generated_message_table_driven_lite.lo google/protobuf/implicit_weak_message.lo google/protobuf/message_lite.lo google/protobuf/parse_context.lo google/protobuf/repeated_field.lo google/protobuf/wire_format_lite.lo google/protobuf/io/coded_stream.lo google/protobuf/io/strtod.lo google/protobuf/io/zero_copy_stream.lo google/protobuf/io/zero_copy_stream_impl_lite.lo google/protobuf/any.pb.lo google/protobuf/api.pb.lo google/protobuf/stubs/mathlimits.lo google/protobuf/any.lo google/protobuf/descriptor.lo google/protobuf/descriptor_database.lo google/protobuf/descriptor.pb.lo google/protobuf/duration.pb.lo google/protobuf/dynamic_message.lo google/protobuf/empty.pb.lo google/protobuf/extension_set_heavy.lo google/protobuf/field_mask.pb.lo google/protobuf/generated_message_reflection.lo google/protobuf/generated_message_table_driven.lo google/protobuf/map_field.lo google/protobuf/message.lo google/protobuf/reflection_ops.lo google/protobuf/service.lo google/protobuf/source_context.pb.lo google/protobuf/struct.pb.lo google/protobuf/stubs/substitute.lo google/protobuf/text_format.lo google/protobuf/timestamp.pb.lo google/protobuf/type.pb.lo google/protobuf/unknown_field_set.lo google/protobuf/wire_format.lo google/protobuf/wrappers.pb.lo google/protobuf/io/gzip_stream.lo google/protobuf/io/printer.lo google/protobuf/io/tokenizer.lo google/protobuf/io/zero_copy_stream_impl.lo google/protobuf/compiler/importer.lo google/protobuf/compiler/parser.lo google/protobuf/util/delimited_message_util.lo google/protobuf/util/field_comparator.lo google/protobuf/util/field_mask_util.lo google/protobuf/util/internal/datapiece.lo google/protobuf/util/internal/default_value_objectwriter.lo google/protobuf/util/internal/error_listener.lo google/protobuf/util/internal/field_mask_utility.lo google/protobuf/util/internal/json_escaping.lo google/protobuf/util/internal/json_objectwriter.lo google/protobuf/util/internal/json_stream_parser.lo google/protobuf/util/internal/object_writer.lo google/protobuf/util/internal/protostream_objectsource.lo google/protobuf/util/internal/protostream_objectwriter.lo google/protobuf/util/internal/proto_writer.lo google/protobuf/util/internal/type_info.lo google/protobuf/util/internal/type_info_test_helper.lo google/protobuf/util/internal/utility.lo google/protobuf/util/json_util.lo google/protobuf/util/message_differencer.lo google/protobuf/util/time_util.lo google/protobuf/util/type_resolver_util.lo -lz libtool: link: g++-14 -std=gnu++17 -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-linux-gnu/14/../../../x86_64-linux-gnu/crti.o /usr/lib/gcc/x86_64-linux-gnu/14/crtbeginS.o google/protobuf/stubs/.libs/bytestream.o google/protobuf/stubs/.libs/common.o google/protobuf/stubs/.libs/int128.o google/protobuf/io/.libs/io_win32.o google/protobuf/stubs/.libs/status.o google/protobuf/stubs/.libs/statusor.o google/protobuf/stubs/.libs/stringpiece.o google/protobuf/stubs/.libs/stringprintf.o google/protobuf/stubs/.libs/structurally_valid.o google/protobuf/stubs/.libs/strutil.o google/protobuf/stubs/.libs/time.o google/protobuf/.libs/any_lite.o google/protobuf/.libs/arena.o google/protobuf/.libs/extension_set.o google/protobuf/.libs/generated_message_util.o google/protobuf/.libs/generated_message_table_driven_lite.o google/protobuf/.libs/implicit_weak_message.o google/protobuf/.libs/message_lite.o google/protobuf/.libs/parse_context.o google/protobuf/.libs/repeated_field.o google/protobuf/.libs/wire_format_lite.o google/protobuf/io/.libs/coded_stream.o google/protobuf/io/.libs/strtod.o google/protobuf/io/.libs/zero_copy_stream.o google/protobuf/io/.libs/zero_copy_stream_impl_lite.o google/protobuf/.libs/any.pb.o google/protobuf/.libs/api.pb.o google/protobuf/stubs/.libs/mathlimits.o google/protobuf/.libs/any.o google/protobuf/.libs/descriptor.o google/protobuf/.libs/descriptor_database.o google/protobuf/.libs/descriptor.pb.o google/protobuf/.libs/duration.pb.o google/protobuf/.libs/dynamic_message.o google/protobuf/.libs/empty.pb.o google/protobuf/.libs/extension_set_heavy.o google/protobuf/.libs/field_mask.pb.o google/protobuf/.libs/generated_message_reflection.o google/protobuf/.libs/generated_message_table_driven.o google/protobuf/.libs/map_field.o google/protobuf/.libs/message.o google/protobuf/.libs/reflection_ops.o google/protobuf/.libs/service.o google/protobuf/.libs/source_context.pb.o google/protobuf/.libs/struct.pb.o google/protobuf/stubs/.libs/substitute.o google/protobuf/.libs/text_format.o google/protobuf/.libs/timestamp.pb.o google/protobuf/.libs/type.pb.o google/protobuf/.libs/unknown_field_set.o google/protobuf/.libs/wire_format.o google/protobuf/.libs/wrappers.pb.o google/protobuf/io/.libs/gzip_stream.o google/protobuf/io/.libs/printer.o google/protobuf/io/.libs/tokenizer.o google/protobuf/io/.libs/zero_copy_stream_impl.o google/protobuf/compiler/.libs/importer.o google/protobuf/compiler/.libs/parser.o google/protobuf/util/.libs/delimited_message_util.o google/protobuf/util/.libs/field_comparator.o google/protobuf/util/.libs/field_mask_util.o google/protobuf/util/internal/.libs/datapiece.o google/protobuf/util/internal/.libs/default_value_objectwriter.o google/protobuf/util/internal/.libs/error_listener.o google/protobuf/util/internal/.libs/field_mask_utility.o google/protobuf/util/internal/.libs/json_escaping.o google/protobuf/util/internal/.libs/json_objectwriter.o google/protobuf/util/internal/.libs/json_stream_parser.o google/protobuf/util/internal/.libs/object_writer.o google/protobuf/util/internal/.libs/protostream_objectsource.o google/protobuf/util/internal/.libs/protostream_objectwriter.o google/protobuf/util/internal/.libs/proto_writer.o google/protobuf/util/internal/.libs/type_info.o google/protobuf/util/internal/.libs/type_info_test_helper.o google/protobuf/util/internal/.libs/utility.o google/protobuf/util/.libs/json_util.o google/protobuf/util/.libs/message_differencer.o google/protobuf/util/.libs/time_util.o google/protobuf/util/.libs/type_resolver_util.o -lz -L/usr/lib/gcc/x86_64-linux-gnu/14 -L/usr/lib/gcc/x86_64-linux-gnu/14/../../../x86_64-linux-gnu -L/usr/lib/gcc/x86_64-linux-gnu/14/../../../../lib -L/lib/x86_64-linux-gnu -L/lib/../lib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/../lib -L/usr/lib/gcc/x86_64-linux-gnu/14/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-linux-gnu/14/crtendS.o /usr/lib/gcc/x86_64-linux-gnu/14/../../../x86_64-linux-gnu/crtn.o -pthread -g -O2 -mtune=native -Wl,--version-script=./libprotobuf.map -Wl,-O1 -pthread -Wl,-soname -Wl,libprotobuf.so.19 -o .libs/libprotobuf.so.19.0.0 libtool: link: (cd ".libs" && rm -f "libprotobuf.so.19" && ln -s "libprotobuf.so.19.0.0" "libprotobuf.so.19") libtool: link: (cd ".libs" && rm -f "libprotobuf.so" && ln -s "libprotobuf.so.19.0.0" "libprotobuf.so") libtool: link: ( cd ".libs" && rm -f "libprotobuf.la" && ln -s "../libprotobuf.la" "libprotobuf.la" ) depbase=`echo google/protobuf/compiler/code_generator.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/bash ../libtool --tag=CXX --mode=compile g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/compiler/code_generator.lo -MD -MP -MF $depbase.Tpo -c -o google/protobuf/compiler/code_generator.lo google/protobuf/compiler/code_generator.cc &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/compiler/code_generator.lo -MD -MP -MF google/protobuf/compiler/.deps/code_generator.Tpo -c google/protobuf/compiler/code_generator.cc -fPIC -DPIC -o google/protobuf/compiler/.libs/code_generator.o In file included from ./google/protobuf/wire_format_lite.h:51, from ./google/protobuf/generated_message_util.h:53, from ./google/protobuf/metadata_lite.h:37, from ./google/protobuf/parse_context.h:41, from ./google/protobuf/map_type_handler.h:34, from ./google/protobuf/map.h:49, from ./google/protobuf/generated_message_table_driven.h:34, from ./google/protobuf/compiler/plugin.pb.h:26, from google/protobuf/compiler/code_generator.cc:39: ./google/protobuf/repeated_field.h:2494:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2494 | : public std::iterator { | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/14/string:47, from ./google/protobuf/compiler/code_generator.h:41, from google/protobuf/compiler/code_generator.cc:35: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2516:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2516 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2547:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2547 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2571:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2571 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ depbase=`echo google/protobuf/compiler/command_line_interface.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/bash ../libtool --tag=CXX --mode=compile g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/compiler/command_line_interface.lo -MD -MP -MF $depbase.Tpo -c -o google/protobuf/compiler/command_line_interface.lo google/protobuf/compiler/command_line_interface.cc &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/compiler/command_line_interface.lo -MD -MP -MF google/protobuf/compiler/.deps/command_line_interface.Tpo -c google/protobuf/compiler/command_line_interface.cc -fPIC -DPIC -o google/protobuf/compiler/.libs/command_line_interface.o In file included from ./google/protobuf/wire_format_lite.h:51, from ./google/protobuf/generated_message_util.h:53, from ./google/protobuf/metadata_lite.h:37, from ./google/protobuf/parse_context.h:41, from ./google/protobuf/map_type_handler.h:34, from ./google/protobuf/map.h:49, from ./google/protobuf/generated_message_table_driven.h:34, from ./google/protobuf/compiler/plugin.pb.h:26, from google/protobuf/compiler/command_line_interface.cc:71: ./google/protobuf/repeated_field.h:2494:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2494 | : public std::iterator { | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_algobase.h:65, from /usr/include/c++/14/bits/stl_tree.h:63, from /usr/include/c++/14/map:62, from ./google/protobuf/compiler/command_line_interface.h:41, from google/protobuf/compiler/command_line_interface.cc:35: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2516:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2516 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2547:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2547 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2571:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2571 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ depbase=`echo google/protobuf/compiler/plugin.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/bash ../libtool --tag=CXX --mode=compile g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/compiler/plugin.lo -MD -MP -MF $depbase.Tpo -c -o google/protobuf/compiler/plugin.lo google/protobuf/compiler/plugin.cc &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/compiler/plugin.lo -MD -MP -MF google/protobuf/compiler/.deps/plugin.Tpo -c google/protobuf/compiler/plugin.cc -fPIC -DPIC -o google/protobuf/compiler/.libs/plugin.o In file included from ./google/protobuf/wire_format_lite.h:51, from ./google/protobuf/generated_message_util.h:53, from ./google/protobuf/metadata_lite.h:37, from ./google/protobuf/parse_context.h:41, from ./google/protobuf/map_type_handler.h:34, from ./google/protobuf/map.h:49, from ./google/protobuf/generated_message_table_driven.h:34, from ./google/protobuf/compiler/plugin.pb.h:26, from google/protobuf/compiler/plugin.cc:46: ./google/protobuf/repeated_field.h:2494:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2494 | : public std::iterator { | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/14/string:47, from ./google/protobuf/compiler/plugin.h:65, from google/protobuf/compiler/plugin.cc:33: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2516:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2516 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2547:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2547 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2571:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2571 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ depbase=`echo google/protobuf/compiler/plugin.pb.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/bash ../libtool --tag=CXX --mode=compile g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/compiler/plugin.pb.lo -MD -MP -MF $depbase.Tpo -c -o google/protobuf/compiler/plugin.pb.lo google/protobuf/compiler/plugin.pb.cc &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/compiler/plugin.pb.lo -MD -MP -MF google/protobuf/compiler/.deps/plugin.pb.Tpo -c google/protobuf/compiler/plugin.pb.cc -fPIC -DPIC -o google/protobuf/compiler/.libs/plugin.pb.o In file included from ./google/protobuf/wire_format_lite.h:51, from ./google/protobuf/generated_message_util.h:53, from ./google/protobuf/metadata_lite.h:37, from ./google/protobuf/parse_context.h:41, from ./google/protobuf/map_type_handler.h:34, from ./google/protobuf/map.h:49, from ./google/protobuf/generated_message_table_driven.h:34, from ./google/protobuf/compiler/plugin.pb.h:26, from google/protobuf/compiler/plugin.pb.cc:4: ./google/protobuf/repeated_field.h:2494:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2494 | : public std::iterator { | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/14/string:47, from ./google/protobuf/compiler/plugin.pb.h:8: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2516:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2516 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2547:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2547 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2571:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2571 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ depbase=`echo google/protobuf/compiler/subprocess.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/bash ../libtool --tag=CXX --mode=compile g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/compiler/subprocess.lo -MD -MP -MF $depbase.Tpo -c -o google/protobuf/compiler/subprocess.lo google/protobuf/compiler/subprocess.cc &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/compiler/subprocess.lo -MD -MP -MF google/protobuf/compiler/.deps/subprocess.Tpo -c google/protobuf/compiler/subprocess.cc -fPIC -DPIC -o google/protobuf/compiler/.libs/subprocess.o depbase=`echo google/protobuf/compiler/zip_writer.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/bash ../libtool --tag=CXX --mode=compile g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/compiler/zip_writer.lo -MD -MP -MF $depbase.Tpo -c -o google/protobuf/compiler/zip_writer.lo google/protobuf/compiler/zip_writer.cc &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/compiler/zip_writer.lo -MD -MP -MF google/protobuf/compiler/.deps/zip_writer.Tpo -c google/protobuf/compiler/zip_writer.cc -fPIC -DPIC -o google/protobuf/compiler/.libs/zip_writer.o depbase=`echo google/protobuf/compiler/cpp/cpp_enum.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/bash ../libtool --tag=CXX --mode=compile g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/compiler/cpp/cpp_enum.lo -MD -MP -MF $depbase.Tpo -c -o google/protobuf/compiler/cpp/cpp_enum.lo google/protobuf/compiler/cpp/cpp_enum.cc &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/compiler/cpp/cpp_enum.lo -MD -MP -MF google/protobuf/compiler/cpp/.deps/cpp_enum.Tpo -c google/protobuf/compiler/cpp/cpp_enum.cc -fPIC -DPIC -o google/protobuf/compiler/cpp/.libs/cpp_enum.o In file included from ./google/protobuf/wire_format_lite.h:51, from ./google/protobuf/generated_message_util.h:53, from ./google/protobuf/metadata_lite.h:37, from ./google/protobuf/parse_context.h:41, from ./google/protobuf/map_type_handler.h:34, from ./google/protobuf/map.h:49, from ./google/protobuf/generated_message_table_driven.h:34, from ./google/protobuf/descriptor.pb.h:26, from ./google/protobuf/compiler/cpp/cpp_helpers.h:46, from google/protobuf/compiler/cpp/cpp_enum.cc:38: ./google/protobuf/repeated_field.h:2494:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2494 | : public std::iterator { | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_algobase.h:65, from /usr/include/c++/14/bits/stl_tree.h:63, from /usr/include/c++/14/map:62, from google/protobuf/compiler/cpp/cpp_enum.cc:35: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2516:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2516 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2547:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2547 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2571:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2571 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ depbase=`echo google/protobuf/compiler/cpp/cpp_enum_field.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/bash ../libtool --tag=CXX --mode=compile g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/compiler/cpp/cpp_enum_field.lo -MD -MP -MF $depbase.Tpo -c -o google/protobuf/compiler/cpp/cpp_enum_field.lo google/protobuf/compiler/cpp/cpp_enum_field.cc &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/compiler/cpp/cpp_enum_field.lo -MD -MP -MF google/protobuf/compiler/cpp/.deps/cpp_enum_field.Tpo -c google/protobuf/compiler/cpp/cpp_enum_field.cc -fPIC -DPIC -o google/protobuf/compiler/cpp/.libs/cpp_enum_field.o In file included from ./google/protobuf/wire_format_lite.h:51, from ./google/protobuf/generated_message_util.h:53, from ./google/protobuf/metadata_lite.h:37, from ./google/protobuf/parse_context.h:41, from ./google/protobuf/map_type_handler.h:34, from ./google/protobuf/map.h:49, from ./google/protobuf/generated_message_table_driven.h:34, from ./google/protobuf/descriptor.pb.h:26, from ./google/protobuf/compiler/cpp/cpp_helpers.h:46, from ./google/protobuf/compiler/cpp/cpp_field.h:42, from ./google/protobuf/compiler/cpp/cpp_enum_field.h:40, from google/protobuf/compiler/cpp/cpp_enum_field.cc:35: ./google/protobuf/repeated_field.h:2494:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2494 | : public std::iterator { | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_algobase.h:65, from /usr/include/c++/14/bits/stl_tree.h:63, from /usr/include/c++/14/map:62, from ./google/protobuf/compiler/cpp/cpp_enum_field.h:38: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2516:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2516 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2547:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2547 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2571:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2571 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ depbase=`echo google/protobuf/compiler/cpp/cpp_extension.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/bash ../libtool --tag=CXX --mode=compile g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/compiler/cpp/cpp_extension.lo -MD -MP -MF $depbase.Tpo -c -o google/protobuf/compiler/cpp/cpp_extension.lo google/protobuf/compiler/cpp/cpp_extension.cc &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/compiler/cpp/cpp_extension.lo -MD -MP -MF google/protobuf/compiler/cpp/.deps/cpp_extension.Tpo -c google/protobuf/compiler/cpp/cpp_extension.cc -fPIC -DPIC -o google/protobuf/compiler/cpp/.libs/cpp_extension.o In file included from ./google/protobuf/wire_format_lite.h:51, from ./google/protobuf/generated_message_util.h:53, from ./google/protobuf/metadata_lite.h:37, from ./google/protobuf/parse_context.h:41, from ./google/protobuf/map_type_handler.h:34, from ./google/protobuf/map.h:49, from ./google/protobuf/generated_message_table_driven.h:34, from ./google/protobuf/descriptor.pb.h:26, from ./google/protobuf/compiler/cpp/cpp_helpers.h:46, from google/protobuf/compiler/cpp/cpp_extension.cc:37: ./google/protobuf/repeated_field.h:2494:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2494 | : public std::iterator { | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_algobase.h:65, from /usr/include/c++/14/bits/stl_tree.h:63, from /usr/include/c++/14/map:62, from ./google/protobuf/compiler/cpp/cpp_extension.h:38, from google/protobuf/compiler/cpp/cpp_extension.cc:35: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2516:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2516 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2547:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2547 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2571:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2571 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ depbase=`echo google/protobuf/compiler/cpp/cpp_field.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/bash ../libtool --tag=CXX --mode=compile g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/compiler/cpp/cpp_field.lo -MD -MP -MF $depbase.Tpo -c -o google/protobuf/compiler/cpp/cpp_field.lo google/protobuf/compiler/cpp/cpp_field.cc &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/compiler/cpp/cpp_field.lo -MD -MP -MF google/protobuf/compiler/cpp/.deps/cpp_field.Tpo -c google/protobuf/compiler/cpp/cpp_field.cc -fPIC -DPIC -o google/protobuf/compiler/cpp/.libs/cpp_field.o In file included from ./google/protobuf/wire_format_lite.h:51, from ./google/protobuf/generated_message_util.h:53, from ./google/protobuf/metadata_lite.h:37, from ./google/protobuf/parse_context.h:41, from ./google/protobuf/map_type_handler.h:34, from ./google/protobuf/map.h:49, from ./google/protobuf/generated_message_table_driven.h:34, from ./google/protobuf/descriptor.pb.h:26, from ./google/protobuf/compiler/cpp/cpp_helpers.h:46, from ./google/protobuf/compiler/cpp/cpp_field.h:42, from google/protobuf/compiler/cpp/cpp_field.cc:35: ./google/protobuf/repeated_field.h:2494:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2494 | : public std::iterator { | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_algobase.h:65, from /usr/include/c++/14/bits/stl_tree.h:63, from /usr/include/c++/14/map:62, from ./google/protobuf/compiler/cpp/cpp_field.h:38: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2516:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2516 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2547:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2547 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2571:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2571 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ depbase=`echo google/protobuf/compiler/cpp/cpp_file.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/bash ../libtool --tag=CXX --mode=compile g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/compiler/cpp/cpp_file.lo -MD -MP -MF $depbase.Tpo -c -o google/protobuf/compiler/cpp/cpp_file.lo google/protobuf/compiler/cpp/cpp_file.cc &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/compiler/cpp/cpp_file.lo -MD -MP -MF google/protobuf/compiler/cpp/.deps/cpp_file.Tpo -c google/protobuf/compiler/cpp/cpp_file.cc -fPIC -DPIC -o google/protobuf/compiler/cpp/.libs/cpp_file.o In file included from ./google/protobuf/wire_format_lite.h:51, from ./google/protobuf/generated_message_util.h:53, from ./google/protobuf/metadata_lite.h:37, from ./google/protobuf/parse_context.h:41, from ./google/protobuf/map_type_handler.h:34, from ./google/protobuf/map.h:49, from ./google/protobuf/generated_message_table_driven.h:34, from ./google/protobuf/descriptor.pb.h:26, from ./google/protobuf/compiler/cpp/cpp_helpers.h:46, from ./google/protobuf/compiler/cpp/cpp_field.h:42, from ./google/protobuf/compiler/cpp/cpp_file.h:44, from google/protobuf/compiler/cpp/cpp_file.cc:35: ./google/protobuf/repeated_field.h:2494:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2494 | : public std::iterator { | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_algobase.h:65, from /usr/include/c++/14/algorithm:60, from ./google/protobuf/compiler/cpp/cpp_file.h:38: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2516:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2516 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2547:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2547 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2571:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2571 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ depbase=`echo google/protobuf/compiler/cpp/cpp_generator.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/bash ../libtool --tag=CXX --mode=compile g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/compiler/cpp/cpp_generator.lo -MD -MP -MF $depbase.Tpo -c -o google/protobuf/compiler/cpp/cpp_generator.lo google/protobuf/compiler/cpp/cpp_generator.cc &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/compiler/cpp/cpp_generator.lo -MD -MP -MF google/protobuf/compiler/cpp/.deps/cpp_generator.Tpo -c google/protobuf/compiler/cpp/cpp_generator.cc -fPIC -DPIC -o google/protobuf/compiler/cpp/.libs/cpp_generator.o In file included from ./google/protobuf/wire_format_lite.h:51, from ./google/protobuf/generated_message_util.h:53, from ./google/protobuf/metadata_lite.h:37, from ./google/protobuf/parse_context.h:41, from ./google/protobuf/map_type_handler.h:34, from ./google/protobuf/map.h:49, from ./google/protobuf/generated_message_table_driven.h:34, from ./google/protobuf/descriptor.pb.h:26, from ./google/protobuf/compiler/cpp/cpp_helpers.h:46, from ./google/protobuf/compiler/cpp/cpp_field.h:42, from ./google/protobuf/compiler/cpp/cpp_file.h:44, from google/protobuf/compiler/cpp/cpp_generator.cc:42: ./google/protobuf/repeated_field.h:2494:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2494 | : public std::iterator { | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/14/string:47, from ./google/protobuf/compiler/cpp/cpp_generator.h:40, from google/protobuf/compiler/cpp/cpp_generator.cc:35: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2516:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2516 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2547:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2547 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2571:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2571 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ depbase=`echo google/protobuf/compiler/cpp/cpp_helpers.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/bash ../libtool --tag=CXX --mode=compile g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/compiler/cpp/cpp_helpers.lo -MD -MP -MF $depbase.Tpo -c -o google/protobuf/compiler/cpp/cpp_helpers.lo google/protobuf/compiler/cpp/cpp_helpers.cc &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/compiler/cpp/cpp_helpers.lo -MD -MP -MF google/protobuf/compiler/cpp/.deps/cpp_helpers.Tpo -c google/protobuf/compiler/cpp/cpp_helpers.cc -fPIC -DPIC -o google/protobuf/compiler/cpp/.libs/cpp_helpers.o In file included from ./google/protobuf/wire_format_lite.h:51, from ./google/protobuf/generated_message_util.h:53, from ./google/protobuf/metadata_lite.h:37, from ./google/protobuf/parse_context.h:41, from ./google/protobuf/map_type_handler.h:34, from ./google/protobuf/map.h:49, from ./google/protobuf/generated_message_table_driven.h:34, from ./google/protobuf/descriptor.pb.h:26, from ./google/protobuf/compiler/cpp/cpp_helpers.h:46, from google/protobuf/compiler/cpp/cpp_helpers.cc:35: ./google/protobuf/repeated_field.h:2494:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2494 | : public std::iterator { | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_algobase.h:65, from /usr/include/c++/14/algorithm:60, from ./google/protobuf/compiler/cpp/cpp_helpers.h:38: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2516:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2516 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2547:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2547 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2571:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2571 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ depbase=`echo google/protobuf/compiler/cpp/cpp_map_field.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/bash ../libtool --tag=CXX --mode=compile g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/compiler/cpp/cpp_map_field.lo -MD -MP -MF $depbase.Tpo -c -o google/protobuf/compiler/cpp/cpp_map_field.lo google/protobuf/compiler/cpp/cpp_map_field.cc &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/compiler/cpp/cpp_map_field.lo -MD -MP -MF google/protobuf/compiler/cpp/.deps/cpp_map_field.Tpo -c google/protobuf/compiler/cpp/cpp_map_field.cc -fPIC -DPIC -o google/protobuf/compiler/cpp/.libs/cpp_map_field.o In file included from ./google/protobuf/wire_format_lite.h:51, from ./google/protobuf/generated_message_util.h:53, from ./google/protobuf/metadata_lite.h:37, from ./google/protobuf/parse_context.h:41, from ./google/protobuf/map_type_handler.h:34, from ./google/protobuf/map.h:49, from ./google/protobuf/generated_message_table_driven.h:34, from ./google/protobuf/descriptor.pb.h:26, from ./google/protobuf/compiler/cpp/cpp_helpers.h:46, from ./google/protobuf/compiler/cpp/cpp_field.h:42, from ./google/protobuf/compiler/cpp/cpp_message_field.h:40, from ./google/protobuf/compiler/cpp/cpp_map_field.h:37, from google/protobuf/compiler/cpp/cpp_map_field.cc:31: ./google/protobuf/repeated_field.h:2494:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2494 | : public std::iterator { | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_algobase.h:65, from /usr/include/c++/14/bits/stl_tree.h:63, from /usr/include/c++/14/map:62, from ./google/protobuf/compiler/cpp/cpp_map_field.h:34: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2516:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2516 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2547:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2547 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2571:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2571 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ depbase=`echo google/protobuf/compiler/cpp/cpp_message.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/bash ../libtool --tag=CXX --mode=compile g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/compiler/cpp/cpp_message.lo -MD -MP -MF $depbase.Tpo -c -o google/protobuf/compiler/cpp/cpp_message.lo google/protobuf/compiler/cpp/cpp_message.cc &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/compiler/cpp/cpp_message.lo -MD -MP -MF google/protobuf/compiler/cpp/.deps/cpp_message.Tpo -c google/protobuf/compiler/cpp/cpp_message.cc -fPIC -DPIC -o google/protobuf/compiler/cpp/.libs/cpp_message.o In file included from ./google/protobuf/wire_format_lite.h:51, from ./google/protobuf/generated_message_util.h:53, from ./google/protobuf/metadata_lite.h:37, from ./google/protobuf/parse_context.h:41, from ./google/protobuf/map_type_handler.h:34, from ./google/protobuf/map.h:49, from ./google/protobuf/generated_message_table_driven.h:34, from ./google/protobuf/descriptor.pb.h:26, from ./google/protobuf/compiler/cpp/cpp_helpers.h:46, from ./google/protobuf/compiler/cpp/cpp_field.h:42, from ./google/protobuf/compiler/cpp/cpp_message.h:41, from google/protobuf/compiler/cpp/cpp_message.cc:35: ./google/protobuf/repeated_field.h:2494:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2494 | : public std::iterator { | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_construct.h:61, from /usr/include/c++/14/bits/stl_tempbuf.h:61, from /usr/include/c++/14/memory:66, from ./google/protobuf/compiler/cpp/cpp_message.h:38: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2516:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2516 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2547:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2547 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2571:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2571 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ depbase=`echo google/protobuf/compiler/cpp/cpp_message_field.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/bash ../libtool --tag=CXX --mode=compile g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/compiler/cpp/cpp_message_field.lo -MD -MP -MF $depbase.Tpo -c -o google/protobuf/compiler/cpp/cpp_message_field.lo google/protobuf/compiler/cpp/cpp_message_field.cc &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/compiler/cpp/cpp_message_field.lo -MD -MP -MF google/protobuf/compiler/cpp/.deps/cpp_message_field.Tpo -c google/protobuf/compiler/cpp/cpp_message_field.cc -fPIC -DPIC -o google/protobuf/compiler/cpp/.libs/cpp_message_field.o In file included from ./google/protobuf/wire_format_lite.h:51, from ./google/protobuf/generated_message_util.h:53, from ./google/protobuf/metadata_lite.h:37, from ./google/protobuf/parse_context.h:41, from ./google/protobuf/map_type_handler.h:34, from ./google/protobuf/map.h:49, from ./google/protobuf/generated_message_table_driven.h:34, from ./google/protobuf/descriptor.pb.h:26, from ./google/protobuf/compiler/cpp/cpp_helpers.h:46, from ./google/protobuf/compiler/cpp/cpp_field.h:42, from ./google/protobuf/compiler/cpp/cpp_message_field.h:40, from google/protobuf/compiler/cpp/cpp_message_field.cc:35: ./google/protobuf/repeated_field.h:2494:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2494 | : public std::iterator { | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_algobase.h:65, from /usr/include/c++/14/bits/stl_tree.h:63, from /usr/include/c++/14/map:62, from ./google/protobuf/compiler/cpp/cpp_message_field.h:38: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2516:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2516 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2547:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2547 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2571:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2571 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ depbase=`echo google/protobuf/compiler/cpp/cpp_padding_optimizer.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/bash ../libtool --tag=CXX --mode=compile g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/compiler/cpp/cpp_padding_optimizer.lo -MD -MP -MF $depbase.Tpo -c -o google/protobuf/compiler/cpp/cpp_padding_optimizer.lo google/protobuf/compiler/cpp/cpp_padding_optimizer.cc &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/compiler/cpp/cpp_padding_optimizer.lo -MD -MP -MF google/protobuf/compiler/cpp/.deps/cpp_padding_optimizer.Tpo -c google/protobuf/compiler/cpp/cpp_padding_optimizer.cc -fPIC -DPIC -o google/protobuf/compiler/cpp/.libs/cpp_padding_optimizer.o In file included from ./google/protobuf/wire_format_lite.h:51, from ./google/protobuf/generated_message_util.h:53, from ./google/protobuf/metadata_lite.h:37, from ./google/protobuf/parse_context.h:41, from ./google/protobuf/map_type_handler.h:34, from ./google/protobuf/map.h:49, from ./google/protobuf/generated_message_table_driven.h:34, from ./google/protobuf/descriptor.pb.h:26, from ./google/protobuf/compiler/cpp/cpp_helpers.h:46, from google/protobuf/compiler/cpp/cpp_padding_optimizer.cc:33: ./google/protobuf/repeated_field.h:2494:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2494 | : public std::iterator { | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/14/string:47, from ./google/protobuf/compiler/cpp/cpp_options.h:36, from ./google/protobuf/compiler/cpp/cpp_message_layout_helper.h:38, from ./google/protobuf/compiler/cpp/cpp_padding_optimizer.h:38, from google/protobuf/compiler/cpp/cpp_padding_optimizer.cc:31: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2516:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2516 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2547:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2547 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2571:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2571 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ depbase=`echo google/protobuf/compiler/cpp/cpp_primitive_field.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/bash ../libtool --tag=CXX --mode=compile g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/compiler/cpp/cpp_primitive_field.lo -MD -MP -MF $depbase.Tpo -c -o google/protobuf/compiler/cpp/cpp_primitive_field.lo google/protobuf/compiler/cpp/cpp_primitive_field.cc &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/compiler/cpp/cpp_primitive_field.lo -MD -MP -MF google/protobuf/compiler/cpp/.deps/cpp_primitive_field.Tpo -c google/protobuf/compiler/cpp/cpp_primitive_field.cc -fPIC -DPIC -o google/protobuf/compiler/cpp/.libs/cpp_primitive_field.o In file included from ./google/protobuf/wire_format_lite.h:51, from ./google/protobuf/generated_message_util.h:53, from ./google/protobuf/metadata_lite.h:37, from ./google/protobuf/parse_context.h:41, from ./google/protobuf/map_type_handler.h:34, from ./google/protobuf/map.h:49, from ./google/protobuf/generated_message_table_driven.h:34, from ./google/protobuf/descriptor.pb.h:26, from ./google/protobuf/compiler/cpp/cpp_helpers.h:46, from ./google/protobuf/compiler/cpp/cpp_field.h:42, from ./google/protobuf/compiler/cpp/cpp_primitive_field.h:40, from google/protobuf/compiler/cpp/cpp_primitive_field.cc:35: ./google/protobuf/repeated_field.h:2494:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2494 | : public std::iterator { | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_algobase.h:65, from /usr/include/c++/14/bits/stl_tree.h:63, from /usr/include/c++/14/map:62, from ./google/protobuf/compiler/cpp/cpp_primitive_field.h:38: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2516:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2516 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2547:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2547 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2571:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2571 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ depbase=`echo google/protobuf/compiler/cpp/cpp_service.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/bash ../libtool --tag=CXX --mode=compile g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/compiler/cpp/cpp_service.lo -MD -MP -MF $depbase.Tpo -c -o google/protobuf/compiler/cpp/cpp_service.lo google/protobuf/compiler/cpp/cpp_service.cc &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/compiler/cpp/cpp_service.lo -MD -MP -MF google/protobuf/compiler/cpp/.deps/cpp_service.Tpo -c google/protobuf/compiler/cpp/cpp_service.cc -fPIC -DPIC -o google/protobuf/compiler/cpp/.libs/cpp_service.o In file included from ./google/protobuf/wire_format_lite.h:51, from ./google/protobuf/generated_message_util.h:53, from ./google/protobuf/metadata_lite.h:37, from ./google/protobuf/parse_context.h:41, from ./google/protobuf/map_type_handler.h:34, from ./google/protobuf/map.h:49, from ./google/protobuf/generated_message_table_driven.h:34, from ./google/protobuf/descriptor.pb.h:26, from ./google/protobuf/compiler/cpp/cpp_helpers.h:46, from google/protobuf/compiler/cpp/cpp_service.cc:36: ./google/protobuf/repeated_field.h:2494:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2494 | : public std::iterator { | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_algobase.h:65, from /usr/include/c++/14/bits/stl_tree.h:63, from /usr/include/c++/14/map:62, from ./google/protobuf/compiler/cpp/cpp_service.h:38, from google/protobuf/compiler/cpp/cpp_service.cc:35: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2516:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2516 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2547:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2547 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2571:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2571 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ depbase=`echo google/protobuf/compiler/cpp/cpp_string_field.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/bash ../libtool --tag=CXX --mode=compile g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/compiler/cpp/cpp_string_field.lo -MD -MP -MF $depbase.Tpo -c -o google/protobuf/compiler/cpp/cpp_string_field.lo google/protobuf/compiler/cpp/cpp_string_field.cc &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: g++-14 -std=gnu++17 -DHAVE_CONFIG_H -I. -I.. -I/usr/local/include -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -MT google/protobuf/compiler/cpp/cpp_string_field.lo -MD -MP -MF google/protobuf/compiler/cpp/.deps/cpp_string_field.Tpo -c google/protobuf/compiler/cpp/cpp_string_field.cc -fPIC -DPIC -o google/protobuf/compiler/cpp/.libs/cpp_string_field.o In file included from ./google/protobuf/wire_format_lite.h:51, from ./google/protobuf/generated_message_util.h:53, from ./google/protobuf/metadata_lite.h:37, from ./google/protobuf/parse_context.h:41, from ./google/protobuf/map_type_handler.h:34, from ./google/protobuf/map.h:49, from ./google/protobuf/generated_message_table_driven.h:34, from ./google/protobuf/descriptor.pb.h:26, from ./google/protobuf/compiler/cpp/cpp_helpers.h:46, from ./google/protobuf/compiler/cpp/cpp_field.h:42, from ./google/protobuf/compiler/cpp/cpp_string_field.h:40, from google/protobuf/compiler/cpp/cpp_string_field.cc:35: ./google/protobuf/repeated_field.h:2494:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2494 | : public std::iterator { | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_algobase.h:65, from /usr/include/c++/14/bits/stl_tree.h:63, from /usr/include/c++/14/map:62, from ./google/protobuf/compiler/cpp/cpp_string_field.h:38: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2516:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2516 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2547:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2547 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ./google/protobuf/repeated_field.h:2571:19: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 2571 | : public std::iterator { | ^~~~~~~~ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /bin/bash ../libtool --tag=CXX --mode=link g++-14 -std=gnu++17 -pthread -DHAVE_PTHREAD=1 -DHAVE_ZLIB=1 -Wall -Wno-sign-compare -g -O2 -Wall -pedantic -mtune=native -version-info 19:0:0 -export-dynamic -no-undefined -Wl,--version-script=./libprotoc.map -Wl,-O1 -o libprotoc.la -rpath 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google/protobuf/compiler/cpp/.libs/cpp_extension.o google/protobuf/compiler/cpp/.libs/cpp_field.o google/protobuf/compiler/cpp/.libs/cpp_file.o google/protobuf/compiler/cpp/.libs/cpp_generator.o google/protobuf/compiler/cpp/.libs/cpp_helpers.o google/protobuf/compiler/cpp/.libs/cpp_map_field.o google/protobuf/compiler/cpp/.libs/cpp_message.o google/protobuf/compiler/cpp/.libs/cpp_message_field.o google/protobuf/compiler/cpp/.libs/cpp_padding_optimizer.o google/protobuf/compiler/cpp/.libs/cpp_primitive_field.o google/protobuf/compiler/cpp/.libs/cpp_service.o google/protobuf/compiler/cpp/.libs/cpp_string_field.o -Wl,-rpath -Wl,/home/hornik/tmp/scratch/RtmpedVSyq/R.INSTALL31347c13a13fd4/RProtoBufLib/src/pb_build/lib -L/home/hornik/tmp/scratch/RtmpedVSyq/R.INSTALL31347c13a13fd4/RProtoBufLib/src/pb_build/lib -lprotobuf -lz -L/usr/lib/gcc/x86_64-linux-gnu/14 -L/usr/lib/gcc/x86_64-linux-gnu/14/../../../x86_64-linux-gnu -L/usr/lib/gcc/x86_64-linux-gnu/14/../../../../lib -L/lib/x86_64-linux-gnu -L/lib/../lib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/../lib -L/usr/lib/gcc/x86_64-linux-gnu/14/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-linux-gnu/14/crtendS.o /usr/lib/gcc/x86_64-linux-gnu/14/../../../x86_64-linux-gnu/crtn.o -pthread -g -O2 -mtune=native -Wl,--version-script=./libprotoc.map -Wl,-O1 -pthread -Wl,-soname -Wl,libprotoc.so.19 -o .libs/libprotoc.so.19.0.0 libtool: install: /usr/bin/install -c .libs/libprotoc.so.19.0.0T /home/hornik/tmp/scratch/RtmpedVSyq/R.INSTALL31347c13a13fd4/RProtoBufLib/src/pb_build/lib/libprotoc.so.19.0.0 libtool: install: (cd /home/hornik/tmp/scratch/RtmpedVSyq/R.INSTALL31347c13a13fd4/RProtoBufLib/src/pb_build/lib && { ln -s -f libprotoc.so.19.0.0 libprotoc.so.19 || { rm -f libprotoc.so.19 && ln -s libprotoc.so.19.0.0 libprotoc.so.19; }; }) libtool: install: (cd /home/hornik/tmp/scratch/RtmpedVSyq/R.INSTALL31347c13a13fd4/RProtoBufLib/src/pb_build/lib && { ln -s -f libprotoc.so.19.0.0 libprotoc.so || { rm -f libprotoc.so && ln -s libprotoc.so.19.0.0 libprotoc.so; }; }) libtool: install: /usr/bin/install -c .libs/libprotoc.lai /home/hornik/tmp/scratch/RtmpedVSyq/R.INSTALL31347c13a13fd4/RProtoBufLib/src/pb_build/lib/libprotoc.la libtool: finish: PATH="/usr/local/bin:/usr/bin:/bin:/sbin" ldconfig -n /home/hornik/tmp/scratch/RtmpedVSyq/R.INSTALL31347c13a13fd4/RProtoBufLib/src/pb_build/lib ---------------------------------------------------------------------- Libraries have been installed in: /home/hornik/tmp/scratch/RtmpedVSyq/R.INSTALL31347c13a13fd4/RProtoBufLib/src/pb_build/lib If you ever happen to want to link against installed libraries in a given directory, LIBDIR, you must either use libtool, and specify the full pathname of the library, or use the '-LLIBDIR' flag during linking and do at least one of the following: - add LIBDIR to the 'LD_LIBRARY_PATH' environment variable during execution - add LIBDIR to the 'LD_RUN_PATH' environment variable during linking - use the '-Wl,-rpath -Wl,LIBDIR' linker flag - have your system administrator add LIBDIR to '/etc/ld.so.conf' See any operating system documentation about shared libraries for more information, such as the ld(1) and ld.so(8) manual pages. ---------------------------------------------------------------------- /usr/bin/mkdir -p '/home/hornik/tmp/scratch/RtmpedVSyq/R.INSTALL31347c13a13fd4/RProtoBufLib/src/pb_build/bin' /bin/bash ../libtool --mode=install /usr/bin/install -c protoc '/home/hornik/tmp/scratch/RtmpedVSyq/R.INSTALL31347c13a13fd4/RProtoBufLib/src/pb_build/bin' libtool: install: /usr/bin/install -c .libs/protoc /home/hornik/tmp/scratch/RtmpedVSyq/R.INSTALL31347c13a13fd4/RProtoBufLib/src/pb_build/bin/protoc /usr/bin/mkdir -p '/home/hornik/tmp/scratch/RtmpedVSyq/R.INSTALL31347c13a13fd4/RProtoBufLib/src/pb_build/include' /usr/bin/mkdir -p '/home/hornik/tmp/scratch/RtmpedVSyq/R.INSTALL31347c13a13fd4/RProtoBufLib/src/pb_build/include/google/protobuf' /usr/bin/install -c -m 644 google/protobuf/descriptor.proto google/protobuf/any.proto google/protobuf/api.proto google/protobuf/duration.proto google/protobuf/empty.proto google/protobuf/field_mask.proto google/protobuf/source_context.proto google/protobuf/struct.proto google/protobuf/timestamp.proto google/protobuf/type.proto google/protobuf/wrappers.proto '/home/hornik/tmp/scratch/RtmpedVSyq/R.INSTALL31347c13a13fd4/RProtoBufLib/src/pb_build/include/google/protobuf' /usr/bin/mkdir -p '/home/hornik/tmp/scratch/RtmpedVSyq/R.INSTALL31347c13a13fd4/RProtoBufLib/src/pb_build/include/google/protobuf/compiler' /usr/bin/install -c -m 644 google/protobuf/compiler/plugin.proto '/home/hornik/tmp/scratch/RtmpedVSyq/R.INSTALL31347c13a13fd4/RProtoBufLib/src/pb_build/include/google/protobuf/compiler' /usr/bin/mkdir -p '/home/hornik/tmp/scratch/RtmpedVSyq/R.INSTALL31347c13a13fd4/RProtoBufLib/src/pb_build/include' /usr/bin/mkdir -p '/home/hornik/tmp/scratch/RtmpedVSyq/R.INSTALL31347c13a13fd4/RProtoBufLib/src/pb_build/include/google/protobuf' /usr/bin/install -c -m 644 google/protobuf/any.pb.h google/protobuf/api.pb.h google/protobuf/any.h google/protobuf/arena.h google/protobuf/arena_impl.h google/protobuf/arenastring.h google/protobuf/descriptor_database.h google/protobuf/descriptor.h google/protobuf/descriptor.pb.h google/protobuf/duration.pb.h google/protobuf/dynamic_message.h google/protobuf/empty.pb.h google/protobuf/extension_set.h google/protobuf/extension_set_inl.h google/protobuf/field_mask.pb.h google/protobuf/generated_enum_reflection.h google/protobuf/generated_enum_util.h google/protobuf/generated_message_reflection.h google/protobuf/generated_message_table_driven.h google/protobuf/generated_message_util.h google/protobuf/has_bits.h google/protobuf/implicit_weak_message.h google/protobuf/inlined_string_field.h google/protobuf/map_entry.h google/protobuf/map_entry_lite.h google/protobuf/map_field.h google/protobuf/map_field_inl.h google/protobuf/map_field_lite.h google/protobuf/map.h google/protobuf/map_type_handler.h google/protobuf/message.h google/protobuf/message_lite.h google/protobuf/metadata.h google/protobuf/metadata_lite.h google/protobuf/parse_context.h google/protobuf/port.h google/protobuf/port_def.inc google/protobuf/port_undef.inc google/protobuf/reflection.h google/protobuf/reflection_ops.h '/home/hornik/tmp/scratch/RtmpedVSyq/R.INSTALL31347c13a13fd4/RProtoBufLib/src/pb_build/include/google/protobuf' /usr/bin/mkdir -p '/home/hornik/tmp/scratch/RtmpedVSyq/R.INSTALL31347c13a13fd4/RProtoBufLib/src/pb_build/include/google/protobuf/compiler/cpp' /usr/bin/install -c -m 644 google/protobuf/compiler/cpp/cpp_generator.h '/home/hornik/tmp/scratch/RtmpedVSyq/R.INSTALL31347c13a13fd4/RProtoBufLib/src/pb_build/include/google/protobuf/compiler/cpp' /usr/bin/mkdir -p '/home/hornik/tmp/scratch/RtmpedVSyq/R.INSTALL31347c13a13fd4/RProtoBufLib/src/pb_build/include/google/protobuf' /usr/bin/install -c -m 644 google/protobuf/repeated_field.h google/protobuf/service.h google/protobuf/source_context.pb.h google/protobuf/struct.pb.h google/protobuf/text_format.h google/protobuf/timestamp.pb.h google/protobuf/type.pb.h google/protobuf/unknown_field_set.h google/protobuf/wire_format.h google/protobuf/wire_format_lite.h google/protobuf/wrappers.pb.h '/home/hornik/tmp/scratch/RtmpedVSyq/R.INSTALL31347c13a13fd4/RProtoBufLib/src/pb_build/include/google/protobuf' /usr/bin/mkdir -p '/home/hornik/tmp/scratch/RtmpedVSyq/R.INSTALL31347c13a13fd4/RProtoBufLib/src/pb_build/include/google/protobuf/stubs' /usr/bin/install -c -m 644 google/protobuf/stubs/callback.h google/protobuf/stubs/bytestream.h google/protobuf/stubs/casts.h google/protobuf/stubs/common.h google/protobuf/stubs/fastmem.h google/protobuf/stubs/hash.h google/protobuf/stubs/logging.h google/protobuf/stubs/macros.h google/protobuf/stubs/mutex.h google/protobuf/stubs/once.h google/protobuf/stubs/platform_macros.h google/protobuf/stubs/port.h google/protobuf/stubs/status.h google/protobuf/stubs/stl_util.h google/protobuf/stubs/stringpiece.h google/protobuf/stubs/strutil.h google/protobuf/stubs/template_util.h '/home/hornik/tmp/scratch/RtmpedVSyq/R.INSTALL31347c13a13fd4/RProtoBufLib/src/pb_build/include/google/protobuf/stubs' /usr/bin/mkdir -p '/home/hornik/tmp/scratch/RtmpedVSyq/R.INSTALL31347c13a13fd4/RProtoBufLib/src/pb_build/include/google/protobuf/util' /usr/bin/install -c -m 644 google/protobuf/util/type_resolver.h google/protobuf/util/delimited_message_util.h google/protobuf/util/field_comparator.h google/protobuf/util/field_mask_util.h google/protobuf/util/json_util.h google/protobuf/util/time_util.h google/protobuf/util/type_resolver_util.h google/protobuf/util/message_differencer.h '/home/hornik/tmp/scratch/RtmpedVSyq/R.INSTALL31347c13a13fd4/RProtoBufLib/src/pb_build/include/google/protobuf/util' /usr/bin/mkdir -p '/home/hornik/tmp/scratch/RtmpedVSyq/R.INSTALL31347c13a13fd4/RProtoBufLib/src/pb_build/include/google/protobuf/compiler' /usr/bin/install -c -m 644 google/protobuf/compiler/code_generator.h google/protobuf/compiler/command_line_interface.h google/protobuf/compiler/importer.h google/protobuf/compiler/parser.h google/protobuf/compiler/plugin.h google/protobuf/compiler/plugin.pb.h '/home/hornik/tmp/scratch/RtmpedVSyq/R.INSTALL31347c13a13fd4/RProtoBufLib/src/pb_build/include/google/protobuf/compiler' /usr/bin/mkdir -p '/home/hornik/tmp/scratch/RtmpedVSyq/R.INSTALL31347c13a13fd4/RProtoBufLib/src/pb_build/include/google/protobuf/io' /usr/bin/install -c -m 644 google/protobuf/io/coded_stream.h google/protobuf/io/gzip_stream.h google/protobuf/io/printer.h google/protobuf/io/strtod.h google/protobuf/io/tokenizer.h google/protobuf/io/zero_copy_stream.h google/protobuf/io/zero_copy_stream_impl.h google/protobuf/io/zero_copy_stream_impl_lite.h '/home/hornik/tmp/scratch/RtmpedVSyq/R.INSTALL31347c13a13fd4/RProtoBufLib/src/pb_build/include/google/protobuf/io' make[3]: Leaving directory '/home/hornik/tmp/scratch/RtmpedVSyq/R.INSTALL31347c13a13fd4/RProtoBufLib/src/protobuf-3.8.0/src' make[2]: Leaving directory '/home/hornik/tmp/scratch/RtmpedVSyq/R.INSTALL31347c13a13fd4/RProtoBufLib/src/protobuf-3.8.0/src' make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpedVSyq/R.INSTALL31347c13a13fd4/RProtoBufLib/src/protobuf-3.8.0' configure: creating ./config.status config.status: creating src/Makevars ** libs using C++ compiler: ‘g++-14 (Debian 14.2.0-19) 14.2.0’ using C++11 make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpedVSyq/R.INSTALL31347c13a13fd4/RProtoBufLib/src' g++-14 -std=gnu++11 -shared -fpic -I../inst/include/ -I/home/hornik/tmp/scratch/RtmpedVSyq/R.INSTALL31347c13a13fd4/RProtoBufLib/src/pb_build/include/ -o GatingSet_pb_lib/libGatingSet.pb.so GatingSet_pb_lib/GatingSet.pb.cc mkdir -p "/home/hornik/tmp/CRAN_recheck/Library/00LOCK-RProtoBufLib/00new/RProtoBufLib/include" cp -r /home/hornik/tmp/scratch/RtmpedVSyq/R.INSTALL31347c13a13fd4/RProtoBufLib/src/pb_build/include/google /home/hornik/tmp/CRAN_recheck/Library/00LOCK-RProtoBufLib/00new/RProtoBufLib/include mkdir -p "/home/hornik/tmp/CRAN_recheck/Library/00LOCK-RProtoBufLib/00new/RProtoBufLib/lib/" cp /home/hornik/tmp/scratch/RtmpedVSyq/R.INSTALL31347c13a13fd4/RProtoBufLib/src/pb_build/lib/libprotobuf* /home/hornik/tmp/CRAN_recheck/Library/00LOCK-RProtoBufLib/00new/RProtoBufLib/lib/ cp GatingSet_pb_lib/libGatingSet.pb.so /home/hornik/tmp/CRAN_recheck/Library/00LOCK-RProtoBufLib/00new/RProtoBufLib/lib//libGatingSet.pb.so g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I../inst/include/ -I/home/hornik/tmp/scratch/RtmpedVSyq/R.INSTALL31347c13a13fd4/RProtoBufLib/src/pb_build/include/ -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c dummy.cpp -o dummy.o g++-14 -std=gnu++11 -shared -L/home/hornik/tmp/R-d-gcc-14/lib -Wl,-O1 -o RProtoBufLib.so dummy.o -L/home/hornik/tmp/R-d-gcc-14/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpedVSyq/R.INSTALL31347c13a13fd4/RProtoBufLib/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-RProtoBufLib/00new/RProtoBufLib/libs ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (RProtoBufLib) begin installing package ‘cytolib’ * installing *source* package ‘GenomicInteractions’ ... ** this is package ‘GenomicInteractions’ version ‘1.42.0’ ** using staged installation ** R ** data ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (GenomicInteractions) * installing *source* package ‘cytolib’ ... ** this is package ‘cytolib’ version ‘2.20.0’ ** using staged installation checking for a sed that does not truncate output... /usr/bin/sed checking whether the C++ compiler works... yes checking for C++ compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... no checking for suffix of object files... o checking whether we are using the GNU C++ compiler... yes checking whether g++-14 -std=gnu++17 accepts -g... yes checking how to run the C++ preprocessor... g++-14 -std=gnu++17 -E checking whether we are using the GNU C++ compiler... (cached) yes checking whether g++-14 -std=gnu++17 accepts -g... (cached) yes configure: Parsing cytolib version info ... configure: CYTOLIB_VERSION=2.20.0 configure: creating ./config.status config.status: creating inst/include/cytolib/cytolibConfig.h config.status: creating src/Makevars ** libs using C++ compiler: ‘g++-14 (Debian 14.2.0-19) 14.2.0’ using C++11 make[1]: Entering directory '/home/hornik/tmp/scratch/Rtmp6vUSJp/R.INSTALL31a9ff700d8776/cytolib/src' g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -DROUT -I../inst/include -w -Wfatal-errors -DBOOST_NO_AUTO_PTR -DBOOST_FILESYSTEM_NO_CXX20_ATOMIC_REF -DBOOST_FILESYSTEM_SINGLE_THREADED -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include' -I'/home/hornik/tmp/CRAN_recheck/Library/RProtoBufLib/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c dummy.cpp -o dummy.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -DROUT -I../inst/include -w -Wfatal-errors -DBOOST_NO_AUTO_PTR -DBOOST_FILESYSTEM_NO_CXX20_ATOMIC_REF -DBOOST_FILESYSTEM_SINGLE_THREADED -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include' -I'/home/hornik/tmp/CRAN_recheck/Library/RProtoBufLib/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c boost/libs/system/src/error_code.cpp -o boost/libs/system/src/error_code.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -DROUT -I../inst/include -w -Wfatal-errors -DBOOST_NO_AUTO_PTR -DBOOST_FILESYSTEM_NO_CXX20_ATOMIC_REF -DBOOST_FILESYSTEM_SINGLE_THREADED -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include' -I'/home/hornik/tmp/CRAN_recheck/Library/RProtoBufLib/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c boost/libs/filesystem/src/codecvt_error_category.cpp -o boost/libs/filesystem/src/codecvt_error_category.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -DROUT -I../inst/include -w -Wfatal-errors -DBOOST_NO_AUTO_PTR -DBOOST_FILESYSTEM_NO_CXX20_ATOMIC_REF -DBOOST_FILESYSTEM_SINGLE_THREADED -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include' -I'/home/hornik/tmp/CRAN_recheck/Library/RProtoBufLib/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c boost/libs/filesystem/src/directory.cpp -o boost/libs/filesystem/src/directory.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -DROUT -I../inst/include -w -Wfatal-errors -DBOOST_NO_AUTO_PTR -DBOOST_FILESYSTEM_NO_CXX20_ATOMIC_REF -DBOOST_FILESYSTEM_SINGLE_THREADED -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include' -I'/home/hornik/tmp/CRAN_recheck/Library/RProtoBufLib/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c boost/libs/filesystem/src/exception.cpp -o boost/libs/filesystem/src/exception.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -DROUT -I../inst/include -w -Wfatal-errors -DBOOST_NO_AUTO_PTR -DBOOST_FILESYSTEM_NO_CXX20_ATOMIC_REF -DBOOST_FILESYSTEM_SINGLE_THREADED -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include' -I'/home/hornik/tmp/CRAN_recheck/Library/RProtoBufLib/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c boost/libs/filesystem/src/operations.cpp -o boost/libs/filesystem/src/operations.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -DROUT -I../inst/include -w -Wfatal-errors -DBOOST_NO_AUTO_PTR -DBOOST_FILESYSTEM_NO_CXX20_ATOMIC_REF -DBOOST_FILESYSTEM_SINGLE_THREADED -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include' -I'/home/hornik/tmp/CRAN_recheck/Library/RProtoBufLib/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c boost/libs/filesystem/src/path.cpp -o boost/libs/filesystem/src/path.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -DROUT -I../inst/include -w -Wfatal-errors -DBOOST_NO_AUTO_PTR -DBOOST_FILESYSTEM_NO_CXX20_ATOMIC_REF -DBOOST_FILESYSTEM_SINGLE_THREADED -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include' -I'/home/hornik/tmp/CRAN_recheck/Library/RProtoBufLib/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c boost/libs/filesystem/src/path_traits.cpp -o boost/libs/filesystem/src/path_traits.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -DROUT -I../inst/include -w -Wfatal-errors -DBOOST_NO_AUTO_PTR -DBOOST_FILESYSTEM_NO_CXX20_ATOMIC_REF -DBOOST_FILESYSTEM_SINGLE_THREADED -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include' -I'/home/hornik/tmp/CRAN_recheck/Library/RProtoBufLib/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c boost/libs/filesystem/src/portability.cpp -o boost/libs/filesystem/src/portability.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -DROUT -I../inst/include -w -Wfatal-errors -DBOOST_NO_AUTO_PTR -DBOOST_FILESYSTEM_NO_CXX20_ATOMIC_REF -DBOOST_FILESYSTEM_SINGLE_THREADED -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include' -I'/home/hornik/tmp/CRAN_recheck/Library/RProtoBufLib/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c boost/libs/filesystem/src/unique_path.cpp -o boost/libs/filesystem/src/unique_path.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -DROUT -I../inst/include -w -Wfatal-errors -DBOOST_NO_AUTO_PTR -DBOOST_FILESYSTEM_NO_CXX20_ATOMIC_REF -DBOOST_FILESYSTEM_SINGLE_THREADED -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include' -I'/home/hornik/tmp/CRAN_recheck/Library/RProtoBufLib/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c boost/libs/filesystem/src/utf8_codecvt_facet.cpp -o boost/libs/filesystem/src/utf8_codecvt_facet.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -DROUT -I../inst/include -w -Wfatal-errors -DBOOST_NO_AUTO_PTR -DBOOST_FILESYSTEM_NO_CXX20_ATOMIC_REF -DBOOST_FILESYSTEM_SINGLE_THREADED -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include' -I'/home/hornik/tmp/CRAN_recheck/Library/RProtoBufLib/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c boost/libs/filesystem/src/windows_file_codecvt.cpp -o boost/libs/filesystem/src/windows_file_codecvt.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -DROUT -I../inst/include -w -Wfatal-errors -DBOOST_NO_AUTO_PTR -DBOOST_FILESYSTEM_NO_CXX20_ATOMIC_REF -DBOOST_FILESYSTEM_SINGLE_THREADED -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include' -I'/home/hornik/tmp/CRAN_recheck/Library/RProtoBufLib/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c CytoFrame.cpp -o CytoFrame.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -DROUT -I../inst/include -w -Wfatal-errors -DBOOST_NO_AUTO_PTR -DBOOST_FILESYSTEM_NO_CXX20_ATOMIC_REF -DBOOST_FILESYSTEM_SINGLE_THREADED -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include' -I'/home/hornik/tmp/CRAN_recheck/Library/RProtoBufLib/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c CytoFrameView.cpp -o CytoFrameView.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -DROUT -I../inst/include -w -Wfatal-errors -DBOOST_NO_AUTO_PTR -DBOOST_FILESYSTEM_NO_CXX20_ATOMIC_REF -DBOOST_FILESYSTEM_SINGLE_THREADED -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include' -I'/home/hornik/tmp/CRAN_recheck/Library/RProtoBufLib/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c CytoVFS.cpp -o CytoVFS.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -DROUT -I../inst/include -w -Wfatal-errors -DBOOST_NO_AUTO_PTR -DBOOST_FILESYSTEM_NO_CXX20_ATOMIC_REF -DBOOST_FILESYSTEM_SINGLE_THREADED -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include' -I'/home/hornik/tmp/CRAN_recheck/Library/RProtoBufLib/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c GatingHierarchy.cpp -o GatingHierarchy.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -DROUT -I../inst/include -w -Wfatal-errors -DBOOST_NO_AUTO_PTR -DBOOST_FILESYSTEM_NO_CXX20_ATOMIC_REF -DBOOST_FILESYSTEM_SINGLE_THREADED -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include' -I'/home/hornik/tmp/CRAN_recheck/Library/RProtoBufLib/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c GatingSet.cpp -o GatingSet.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -DROUT -I../inst/include -w -Wfatal-errors -DBOOST_NO_AUTO_PTR -DBOOST_FILESYSTEM_NO_CXX20_ATOMIC_REF -DBOOST_FILESYSTEM_SINGLE_THREADED -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include' -I'/home/hornik/tmp/CRAN_recheck/Library/RProtoBufLib/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c H5CytoFrame.cpp -o H5CytoFrame.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -DROUT -I../inst/include -w -Wfatal-errors -DBOOST_NO_AUTO_PTR -DBOOST_FILESYSTEM_NO_CXX20_ATOMIC_REF -DBOOST_FILESYSTEM_SINGLE_THREADED -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include' -I'/home/hornik/tmp/CRAN_recheck/Library/RProtoBufLib/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c MemCytoFrame.cpp -o MemCytoFrame.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -DROUT -I../inst/include -w -Wfatal-errors -DBOOST_NO_AUTO_PTR -DBOOST_FILESYSTEM_NO_CXX20_ATOMIC_REF -DBOOST_FILESYSTEM_SINGLE_THREADED -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include' -I'/home/hornik/tmp/CRAN_recheck/Library/RProtoBufLib/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c POPINDICES.cpp -o POPINDICES.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -DROUT -I../inst/include -w -Wfatal-errors -DBOOST_NO_AUTO_PTR -DBOOST_FILESYSTEM_NO_CXX20_ATOMIC_REF -DBOOST_FILESYSTEM_SINGLE_THREADED -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include' -I'/home/hornik/tmp/CRAN_recheck/Library/RProtoBufLib/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c calibrationTable.cpp -o calibrationTable.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -DROUT -I../inst/include -w -Wfatal-errors -DBOOST_NO_AUTO_PTR -DBOOST_FILESYSTEM_NO_CXX20_ATOMIC_REF -DBOOST_FILESYSTEM_SINGLE_THREADED -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include' -I'/home/hornik/tmp/CRAN_recheck/Library/RProtoBufLib/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c compensation.cpp -o compensation.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -DROUT -I../inst/include -w -Wfatal-errors -DBOOST_NO_AUTO_PTR -DBOOST_FILESYSTEM_NO_CXX20_ATOMIC_REF -DBOOST_FILESYSTEM_SINGLE_THREADED -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include' -I'/home/hornik/tmp/CRAN_recheck/Library/RProtoBufLib/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c ellipse2points.cpp -o ellipse2points.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -DROUT -I../inst/include -w -Wfatal-errors -DBOOST_NO_AUTO_PTR -DBOOST_FILESYSTEM_NO_CXX20_ATOMIC_REF -DBOOST_FILESYSTEM_SINGLE_THREADED -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include' -I'/home/hornik/tmp/CRAN_recheck/Library/RProtoBufLib/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c gate.cpp -o gate.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -DROUT -I../inst/include -w -Wfatal-errors -DBOOST_NO_AUTO_PTR -DBOOST_FILESYSTEM_NO_CXX20_ATOMIC_REF -DBOOST_FILESYSTEM_SINGLE_THREADED -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include' -I'/home/hornik/tmp/CRAN_recheck/Library/RProtoBufLib/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c global.cpp -o global.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -DROUT -I../inst/include -w -Wfatal-errors -DBOOST_NO_AUTO_PTR -DBOOST_FILESYSTEM_NO_CXX20_ATOMIC_REF -DBOOST_FILESYSTEM_SINGLE_THREADED -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include' -I'/home/hornik/tmp/CRAN_recheck/Library/RProtoBufLib/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c in_polygon.cpp -o in_polygon.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -DROUT -I../inst/include -w -Wfatal-errors -DBOOST_NO_AUTO_PTR -DBOOST_FILESYSTEM_NO_CXX20_ATOMIC_REF -DBOOST_FILESYSTEM_SINGLE_THREADED -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include' -I'/home/hornik/tmp/CRAN_recheck/Library/RProtoBufLib/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c nodeProperties.cpp -o nodeProperties.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -DROUT -I../inst/include -w -Wfatal-errors -DBOOST_NO_AUTO_PTR -DBOOST_FILESYSTEM_NO_CXX20_ATOMIC_REF -DBOOST_FILESYSTEM_SINGLE_THREADED -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include' -I'/home/hornik/tmp/CRAN_recheck/Library/RProtoBufLib/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c spline.cpp -o spline.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -DROUT -I../inst/include -w -Wfatal-errors -DBOOST_NO_AUTO_PTR -DBOOST_FILESYSTEM_NO_CXX20_ATOMIC_REF -DBOOST_FILESYSTEM_SINGLE_THREADED -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include' -I'/home/hornik/tmp/CRAN_recheck/Library/RProtoBufLib/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c trans_group.cpp -o trans_group.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -DROUT -I../inst/include -w -Wfatal-errors -DBOOST_NO_AUTO_PTR -DBOOST_FILESYSTEM_NO_CXX20_ATOMIC_REF -DBOOST_FILESYSTEM_SINGLE_THREADED -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include' -I'/home/hornik/tmp/CRAN_recheck/Library/RProtoBufLib/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c transformation.cpp -o transformation.o mkdir -p "/home/hornik/tmp/CRAN_recheck/Library/00LOCK-cytolib/00new/cytolib/lib" ar rs "/home/hornik/tmp/CRAN_recheck/Library/00LOCK-cytolib/00new/cytolib/lib/libcytolib.a" CytoFrame.o CytoFrameView.o CytoVFS.o GatingHierarchy.o GatingSet.o H5CytoFrame.o MemCytoFrame.o POPINDICES.o calibrationTable.o compensation.o dummy.o ellipse2points.o gate.o global.o in_polygon.o nodeProperties.o spline.o trans_group.o transformation.o boost/libs/filesystem/src/codecvt_error_category.o boost/libs/filesystem/src/directory.o boost/libs/filesystem/src/exception.o boost/libs/filesystem/src/operations.o boost/libs/filesystem/src/path.o boost/libs/filesystem/src/path_traits.o boost/libs/filesystem/src/portability.o boost/libs/filesystem/src/unique_path.o boost/libs/filesystem/src/utf8_codecvt_facet.o boost/libs/filesystem/src/windows_file_codecvt.o boost/libs/system/src/error_code.o ar: creating /home/hornik/tmp/CRAN_recheck/Library/00LOCK-cytolib/00new/cytolib/lib/libcytolib.a g++-14 -std=gnu++11 -shared -L/home/hornik/tmp/R-d-gcc-14/lib -Wl,-O1 -o cytolib.so dummy.o -L/home/hornik/tmp/R-d-gcc-14/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/Rtmp6vUSJp/R.INSTALL31a9ff700d8776/cytolib/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-cytolib/00new/cytolib/libs ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (cytolib) begin installing package ‘flowCore’ * installing *source* package ‘flowCore’ ... ** this is package ‘flowCore’ version ‘2.20.0’ ** using staged installation ** libs using C++ compiler: ‘g++-14 (Debian 14.2.0-19) 14.2.0’ using C++17 make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpAk5cXZ/R.INSTALL31af241dbe42e7/flowCore/src' g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -DBOOST_NO_AUTO_PTR -w -Wfatal-errors -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/cpp11/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include' -I'/home/hornik/tmp/CRAN_recheck/Library/cytolib/include' -I'/home/hornik/tmp/CRAN_recheck/Library/RProtoBufLib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c FastLogicle.cpp -o FastLogicle.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -DBOOST_NO_AUTO_PTR -w -Wfatal-errors -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/cpp11/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include' -I'/home/hornik/tmp/CRAN_recheck/Library/cytolib/include' -I'/home/hornik/tmp/CRAN_recheck/Library/RProtoBufLib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c Hyperlog.cpp -o Hyperlog.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -DBOOST_NO_AUTO_PTR -w -Wfatal-errors -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/cpp11/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include' -I'/home/hornik/tmp/CRAN_recheck/Library/cytolib/include' -I'/home/hornik/tmp/CRAN_recheck/Library/RProtoBufLib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c Logicle.cpp -o Logicle.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -DBOOST_NO_AUTO_PTR -w -Wfatal-errors -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/cpp11/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include' -I'/home/hornik/tmp/CRAN_recheck/Library/cytolib/include' -I'/home/hornik/tmp/CRAN_recheck/Library/RProtoBufLib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c biexponential.cpp -o biexponential.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -DBOOST_NO_AUTO_PTR -w -Wfatal-errors -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/cpp11/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include' -I'/home/hornik/tmp/CRAN_recheck/Library/cytolib/include' -I'/home/hornik/tmp/CRAN_recheck/Library/RProtoBufLib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c convertRawBytes.cpp -o convertRawBytes.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -DBOOST_NO_AUTO_PTR -w -Wfatal-errors -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/cpp11/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include' -I'/home/hornik/tmp/CRAN_recheck/Library/cytolib/include' -I'/home/hornik/tmp/CRAN_recheck/Library/RProtoBufLib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c cpp11.cpp -o cpp11.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -DBOOST_NO_AUTO_PTR -w -Wfatal-errors -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/cpp11/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include' -I'/home/hornik/tmp/CRAN_recheck/Library/cytolib/include' -I'/home/hornik/tmp/CRAN_recheck/Library/RProtoBufLib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c fcsTextParse.cpp -o fcsTextParse.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -DBOOST_NO_AUTO_PTR -w -Wfatal-errors -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/cpp11/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include' -I'/home/hornik/tmp/CRAN_recheck/Library/cytolib/include' -I'/home/hornik/tmp/CRAN_recheck/Library/RProtoBufLib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c hyperlogTransform.cpp -o hyperlogTransform.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -DBOOST_NO_AUTO_PTR -w -Wfatal-errors -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/cpp11/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include' -I'/home/hornik/tmp/CRAN_recheck/Library/cytolib/include' -I'/home/hornik/tmp/CRAN_recheck/Library/RProtoBufLib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c inPolygon.cpp -o inPolygon.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -DBOOST_NO_AUTO_PTR -w -Wfatal-errors -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/cpp11/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include' -I'/home/hornik/tmp/CRAN_recheck/Library/cytolib/include' -I'/home/hornik/tmp/CRAN_recheck/Library/RProtoBufLib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c inPolytope.cpp -o inPolytope.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -DBOOST_NO_AUTO_PTR -w -Wfatal-errors -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/cpp11/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include' -I'/home/hornik/tmp/CRAN_recheck/Library/cytolib/include' -I'/home/hornik/tmp/CRAN_recheck/Library/RProtoBufLib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c logicleTransform.cpp -o logicleTransform.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -DBOOST_NO_AUTO_PTR -w -Wfatal-errors -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/cpp11/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include' -I'/home/hornik/tmp/CRAN_recheck/Library/cytolib/include' -I'/home/hornik/tmp/CRAN_recheck/Library/RProtoBufLib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c poly_centroid.cpp -o poly_centroid.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -DBOOST_NO_AUTO_PTR -w -Wfatal-errors -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/cpp11/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include' -I'/home/hornik/tmp/CRAN_recheck/Library/cytolib/include' -I'/home/hornik/tmp/CRAN_recheck/Library/RProtoBufLib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c sortBytes.cpp -o sortBytes.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -DBOOST_NO_AUTO_PTR -w -Wfatal-errors -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/cpp11/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include' -I'/home/hornik/tmp/CRAN_recheck/Library/cytolib/include' -I'/home/hornik/tmp/CRAN_recheck/Library/RProtoBufLib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c uint2double.cpp -o uint2double.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -DBOOST_NO_AUTO_PTR -w -Wfatal-errors -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/cpp11/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/BH/include' -I'/home/hornik/tmp/CRAN_recheck/Library/cytolib/include' -I'/home/hornik/tmp/CRAN_recheck/Library/RProtoBufLib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c zeroin.cpp -o zeroin.o g++-14 -std=gnu++17 -shared -L/home/hornik/tmp/R-d-gcc-14/lib -Wl,-O1 -o flowCore.so FastLogicle.o Hyperlog.o Logicle.o biexponential.o convertRawBytes.o cpp11.o fcsTextParse.o hyperlogTransform.o inPolygon.o inPolytope.o logicleTransform.o poly_centroid.o sortBytes.o uint2double.o zeroin.o /home/hornik/tmp/CRAN_recheck/Library/cytolib/lib/libcytolib.a -L/home/hornik/tmp/R-d-gcc-14/lib -lR if [ `uname -s` = 'Darwin' ]; then install_name_tool -change /usr/local/clang4/lib/libc++.1.dylib /usr/lib/libc++.1.dylib flowCore.so; fi make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpAk5cXZ/R.INSTALL31af241dbe42e7/flowCore/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-flowCore/00new/flowCore/libs ** R ** data ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (flowCore) * installing *source* package ‘mzR’ ... ** this is package ‘mzR’ version ‘2.42.0’ ** using staged installation ** libs using C++ compiler: ‘g++-14 (Debian 14.2.0-19) 14.2.0’ using C++11 make[1]: Entering directory '/home/hornik/tmp/scratch/RtmprJcsBR/R.INSTALL317ad41b37d11c/mzR/src' rm -f RcppPwiz.o RcppPwizModule.o RcppIdent.o RcppIdentModule.o ./boost/libs/system/src/error_code.o ./boost/libs/regex/src/posix_api.o ./boost/libs/regex/src/regex_debug.o ./boost/libs/regex/src/regex.o ./boost/libs/regex/src/wide_posix_api.o ./boost/libs/regex/src/static_mutex.o ./boost/libs/iostreams/src/zlib.o ./boost/libs/iostreams/src/file_descriptor.o ./boost/libs/filesystem/src/operations.o ./boost/libs/filesystem/src/directory.o ./boost/libs/filesystem/src/exception.o ./boost/libs/filesystem/src/path.o ./boost/libs/filesystem/src/unique_path.o ./boost/libs/filesystem/src/utf8_codecvt_facet.o ./boost/libs/chrono/src/chrono.o ./boost/libs/chrono/src/process_cpu_clocks.o ./boost/libs/chrono/src/thread_clock.o ./pwiz/data/msdata/Version.o ./pwiz/data/identdata/Version.o ./pwiz/data/common/MemoryIndex.o ./pwiz/data/common/CVTranslator.o ./pwiz/data/common/cv.o ./pwiz/data/common/ParamTypes.o ./pwiz/data/common/BinaryIndexStream.o ./pwiz/data/common/diff_std.o ./pwiz/data/common/Unimod.o ./pwiz/data/msdata/mz5/Configuration_mz5.o ./pwiz/data/msdata/mz5/Connection_mz5.o ./pwiz/data/msdata/mz5/Datastructures_mz5.o ./pwiz/data/msdata/mz5/ReferenceRead_mz5.o ./pwiz/data/msdata/mz5/ReferenceWrite_mz5.o ./pwiz/data/msdata/mz5/Translator_mz5.o ./pwiz/data/msdata/DefaultReaderList.o ./pwiz/data/msdata/ChromatogramList_mzML.o ./pwiz/data/msdata/ChromatogramList_mz5.o ./pwiz/data/msdata/examples.o ./pwiz/data/msdata/Serializer_mzML.o ./pwiz/data/msdata/Serializer_MSn.o ./pwiz/data/msdata/Reader.o ./pwiz/data/msdata/Serializer_mz5.o ./pwiz/data/msdata/Serializer_MGF.o ./pwiz/data/msdata/Serializer_mzXML.o ./pwiz/data/msdata/SpectrumListBase.o ./pwiz/data/msdata/SpectrumList_MGF.o ./pwiz/data/msdata/SpectrumList_mzML.o ./pwiz/data/msdata/SpectrumList_MSn.o ./pwiz/data/msdata/SpectrumList_mz5.o ./pwiz/data/msdata/BinaryDataEncoder.o ./pwiz/data/msdata/Diff.o ./pwiz/data/msdata/MSData.o ./pwiz/data/msdata/References.o ./pwiz/data/msdata/SpectrumList_mzXML.o ./pwiz/data/msdata/IO.o ./pwiz/data/msdata/SpectrumList_BTDX.o ./pwiz/data/msdata/SpectrumInfo.o ./pwiz/data/msdata/LegacyAdapter.o ./pwiz/data/msdata/SpectrumIterator.o ./pwiz/data/msdata/MSDataFile.o ./pwiz/data/msdata/MSNumpress.o ./pwiz/data/msdata/SpectrumListCache.o ./pwiz/data/msdata/Index_mzML.o ./pwiz/data/msdata/SpectrumWorkerThreads.o ./pwiz/data/identdata/IdentDataFile.o ./pwiz/data/identdata/IdentData.o ./pwiz/data/identdata/DefaultReaderList.o ./pwiz/data/identdata/Reader.o ./pwiz/data/identdata/Serializer_protXML.o ./pwiz/data/identdata/Serializer_pepXML.o ./pwiz/data/identdata/Serializer_mzid.o ./pwiz/data/identdata/IO.o ./pwiz/data/identdata/References.o ./pwiz/data/identdata/MascotReader.o ./pwiz/data/proteome/Modification.o ./pwiz/data/proteome/Digestion.o ./pwiz/data/proteome/Peptide.o ./pwiz/data/proteome/AminoAcid.o ./pwiz/utility/minimxml/XMLWriter.o ./pwiz/utility/minimxml/SAXParser.o ./pwiz/utility/chemistry/Chemistry.o ./pwiz/utility/chemistry/ChemistryData.o ./pwiz/utility/chemistry/MZTolerance.o ./pwiz/utility/misc/IntegerSet.o ./pwiz/utility/misc/Base64.o ./pwiz/utility/misc/BinaryData.o ./pwiz/utility/misc/IterationListener.o ./pwiz/utility/misc/MSIHandler.o ./pwiz/utility/misc/Filesystem.o ./pwiz/utility/misc/TabReader.o ./pwiz/utility/misc/random_access_compressed_ifstream.o ./pwiz/utility/misc/SHA1.o ./pwiz/utility/misc/SHA1Calculator.o ./pwiz/utility/misc/sha1calc.o ./pwiz/utility/misc/String.o ./RcppExports.o ./boost/libs/thread/src/pthread/once.o ./boost/libs/thread/src/pthread/thread.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I./boost_aux/ -I./boost/ -I. -D_LARGEFILE_SOURCE -DHAVE_PWIZ_MZML_LIB -D_NODEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c RcppPwiz.cpp -o RcppPwiz.o In file included from pwiz/data/msdata/Reader.hpp:29, from pwiz/data/msdata/MSDataFile.hpp:30, from RcppPwiz.h:12, from RcppPwiz.cpp:1: ./pwiz/utility/chemistry/MzMobilityWindow.hpp: In member function ‘bool pwiz::chemistry::MzMobilityWindow::mobilityValueInBounds(double) const’: ./pwiz/utility/chemistry/MzMobilityWindow.hpp:40:59: warning: suggest parentheses around ‘&&’ within ‘||’ [-Wparentheses] 40 | mobilityBounds.get().first < mobilityValue && mobilityValue < mobilityBounds.get().second; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ RcppPwiz.cpp: In member function ‘Rcpp::List RcppPwiz::getPeakList(Rcpp::IntegerVector)’: RcppPwiz.cpp:413:44: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 413 | if (current_scan < 1 || current_scan > n_scans) { | ~~~~~~~~~~~~~^~~~~~~~~ RcppPwiz.cpp:414:56: warning: format ‘%d’ expects argument of type ‘int’, but argument 2 has type ‘size_t’ {aka ‘long unsigned int’} [-Wformat=] 414 | Rprintf("Index whichScan out of bounds [1 ... %d].\n", n_scans); | ~^ ~~~~~~~ | | | | int size_t {aka long unsigned int} | %ld RcppPwiz.cpp: In member function ‘Rcpp::DataFrame RcppPwiz::getChromatogramsInfo(int)’: RcppPwiz.cpp:861:49: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 861 | } else if ( (whichChrom < 1) || (whichChrom > clp->size()) ) { | ~~~~~~~~~~~^~~~~~~~~~~~~ RcppPwiz.cpp:862:55: warning: format ‘%d’ expects argument of type ‘int’, but argument 2 has type ‘size_t’ {aka ‘long unsigned int’} [-Wformat=] 862 | Rprintf("Index whichChrom out of bounds [1 ... %d].\n", (clp->size())); | ~^ ~~~~~~~~~~~~~ | | | | int size_t {aka long unsigned int} | %ld RcppPwiz.cpp:872:25: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 872 | for (int i = 0; i < pairs.size(); i++) { | ~~^~~~~~~~~~~~~~ RcppPwiz.cpp: In member function ‘Rcpp::NumericMatrix RcppPwiz::get3DMap(std::vector, double, double, double)’: RcppPwiz.cpp:1024:25: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1024 | for (int i = 0; i < scanNumbers.size(); i++) | ~~^~~~~~~~~~~~~~~~~~~~ RcppPwiz.cpp:1030:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1030 | for (int k=0; k < pairs.size(); k++) | ~~^~~~~~~~~~~~~~ g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I./boost_aux/ -I./boost/ -I. -D_LARGEFILE_SOURCE -DHAVE_PWIZ_MZML_LIB -D_NODEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c RcppPwizModule.cpp -o RcppPwizModule.o In file included from pwiz/data/msdata/Reader.hpp:29, from pwiz/data/msdata/MSDataFile.hpp:30, from RcppPwiz.h:12, from RcppPwizModule.cpp:2: ./pwiz/utility/chemistry/MzMobilityWindow.hpp: In member function ‘bool pwiz::chemistry::MzMobilityWindow::mobilityValueInBounds(double) const’: ./pwiz/utility/chemistry/MzMobilityWindow.hpp:40:59: warning: suggest parentheses around ‘&&’ within ‘||’ [-Wparentheses] 40 | mobilityBounds.get().first < mobilityValue && mobilityValue < mobilityBounds.get().second; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I./boost_aux/ -I./boost/ -I. -D_LARGEFILE_SOURCE -DHAVE_PWIZ_MZML_LIB -D_NODEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c RcppIdent.cpp -o RcppIdent.o RcppIdent.cpp: In member function ‘Rcpp::DataFrame RcppIdent::getScore()’: RcppIdent.cpp:293:32: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 293 | for (size_t j = 0; j < nCvParams; j++) { | ~~^~~~~~~~~~~ RcppIdent.cpp: In member function ‘Rcpp::List RcppIdent::getPara()’: RcppIdent.cpp:382:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 382 | for(int i = 0 ; i < sip[0]->additionalSearchParams.cvParams.size(); i++) | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ RcppIdent.cpp:388:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 388 | for(int i = 0; i < sip[0]->additionalSearchParams.userParams.size(); i++) | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I./boost_aux/ -I./boost/ -I. -D_LARGEFILE_SOURCE -DHAVE_PWIZ_MZML_LIB -D_NODEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c RcppIdentModule.cpp -o RcppIdentModule.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I./boost_aux/ -I./boost/ -I. -D_LARGEFILE_SOURCE -DHAVE_PWIZ_MZML_LIB -D_NODEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c boost/libs/system/src/error_code.cpp -o boost/libs/system/src/error_code.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I./boost_aux/ -I./boost/ -I. -D_LARGEFILE_SOURCE -DHAVE_PWIZ_MZML_LIB -D_NODEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c boost/libs/regex/src/posix_api.cpp -o boost/libs/regex/src/posix_api.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I./boost_aux/ -I./boost/ -I. -D_LARGEFILE_SOURCE -DHAVE_PWIZ_MZML_LIB -D_NODEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c boost/libs/regex/src/regex_debug.cpp -o boost/libs/regex/src/regex_debug.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I./boost_aux/ -I./boost/ -I. -D_LARGEFILE_SOURCE -DHAVE_PWIZ_MZML_LIB -D_NODEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c boost/libs/regex/src/regex.cpp -o boost/libs/regex/src/regex.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I./boost_aux/ -I./boost/ -I. -D_LARGEFILE_SOURCE -DHAVE_PWIZ_MZML_LIB -D_NODEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c boost/libs/regex/src/wide_posix_api.cpp -o boost/libs/regex/src/wide_posix_api.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I./boost_aux/ -I./boost/ -I. -D_LARGEFILE_SOURCE -DHAVE_PWIZ_MZML_LIB -D_NODEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c boost/libs/regex/src/static_mutex.cpp -o boost/libs/regex/src/static_mutex.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I./boost_aux/ -I./boost/ -I. -D_LARGEFILE_SOURCE -DHAVE_PWIZ_MZML_LIB -D_NODEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c boost/libs/iostreams/src/zlib.cpp -o boost/libs/iostreams/src/zlib.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I./boost_aux/ -I./boost/ -I. -D_LARGEFILE_SOURCE -DHAVE_PWIZ_MZML_LIB -D_NODEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c boost/libs/iostreams/src/file_descriptor.cpp -o boost/libs/iostreams/src/file_descriptor.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I./boost_aux/ -I./boost/ -I. -D_LARGEFILE_SOURCE -DHAVE_PWIZ_MZML_LIB -D_NODEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c boost/libs/filesystem/src/operations.cpp -o boost/libs/filesystem/src/operations.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I./boost_aux/ -I./boost/ -I. -D_LARGEFILE_SOURCE -DHAVE_PWIZ_MZML_LIB -D_NODEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c boost/libs/filesystem/src/directory.cpp -o boost/libs/filesystem/src/directory.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I./boost_aux/ -I./boost/ -I. -D_LARGEFILE_SOURCE -DHAVE_PWIZ_MZML_LIB -D_NODEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c boost/libs/filesystem/src/exception.cpp -o boost/libs/filesystem/src/exception.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I./boost_aux/ -I./boost/ -I. -D_LARGEFILE_SOURCE -DHAVE_PWIZ_MZML_LIB -D_NODEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c boost/libs/filesystem/src/path.cpp -o boost/libs/filesystem/src/path.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I./boost_aux/ -I./boost/ -I. -D_LARGEFILE_SOURCE -DHAVE_PWIZ_MZML_LIB -D_NODEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c boost/libs/filesystem/src/unique_path.cpp -o boost/libs/filesystem/src/unique_path.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I./boost_aux/ -I./boost/ -I. -D_LARGEFILE_SOURCE -DHAVE_PWIZ_MZML_LIB -D_NODEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c boost/libs/filesystem/src/utf8_codecvt_facet.cpp -o boost/libs/filesystem/src/utf8_codecvt_facet.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I./boost_aux/ -I./boost/ -I. -D_LARGEFILE_SOURCE -DHAVE_PWIZ_MZML_LIB -D_NODEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c boost/libs/chrono/src/chrono.cpp -o boost/libs/chrono/src/chrono.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I./boost_aux/ -I./boost/ -I. -D_LARGEFILE_SOURCE -DHAVE_PWIZ_MZML_LIB -D_NODEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c boost/libs/chrono/src/process_cpu_clocks.cpp -o boost/libs/chrono/src/process_cpu_clocks.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I./boost_aux/ -I./boost/ -I. -D_LARGEFILE_SOURCE -DHAVE_PWIZ_MZML_LIB -D_NODEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c boost/libs/chrono/src/thread_clock.cpp -o boost/libs/chrono/src/thread_clock.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I./boost_aux/ -I./boost/ -I. -D_LARGEFILE_SOURCE -DHAVE_PWIZ_MZML_LIB -D_NODEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c pwiz/data/msdata/Version.cpp -o pwiz/data/msdata/Version.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I./boost_aux/ -I./boost/ -I. -D_LARGEFILE_SOURCE -DHAVE_PWIZ_MZML_LIB -D_NODEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c pwiz/data/identdata/Version.cpp -o pwiz/data/identdata/Version.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I./boost_aux/ -I./boost/ -I. -D_LARGEFILE_SOURCE -DHAVE_PWIZ_MZML_LIB -D_NODEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c pwiz/data/common/MemoryIndex.cpp -o pwiz/data/common/MemoryIndex.o In file included from ./boost/checked_delete.hpp:15, from ./boost/smart_ptr/detail/sp_counted_impl.hpp:27, from ./boost/smart_ptr/detail/shared_count.hpp:27, from ./boost/smart_ptr/shared_ptr.hpp:17, from ./boost/shared_ptr.hpp:17, from pwiz/data/common/Index.hpp:30, from pwiz/data/common/MemoryIndex.hpp:26, from pwiz/data/common/MemoryIndex.cpp:25: ./boost/core/checked_delete.hpp: In instantiation of ‘void boost::checked_delete(T*) [with T = pwiz::data::MemoryIndex::Impl]’: ./boost/smart_ptr/detail/shared_count.hpp:154:34: required from ‘boost::detail::shared_count::shared_count(Y*) [with Y = pwiz::data::MemoryIndex::Impl]’ 154 | boost::checked_delete( p ); | ~~~~~~~~~~~~~~~~~~~~~^~~~~ ./boost/smart_ptr/shared_ptr.hpp:279:20: required from ‘void boost::detail::sp_pointer_construct(boost::shared_ptr*, Y*, shared_count&) [with T = pwiz::data::MemoryIndex::Impl; Y = pwiz::data::MemoryIndex::Impl]’ 279 | boost::detail::shared_count( p ).swap( pn ); | ^~~~~~~~~~~~~~~~~ ./boost/smart_ptr/shared_ptr.hpp:373:44: required from ‘boost::shared_ptr::shared_ptr(Y*) [with Y = pwiz::data::MemoryIndex::Impl; T = pwiz::data::MemoryIndex::Impl]’ 373 | boost::detail::sp_pointer_construct( this, p, pn ); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ pwiz/data/common/MemoryIndex.cpp:73:44: required from here 73 | PWIZ_API_DECL MemoryIndex::MemoryIndex() : impl_(new Impl) {} | ^~~~~~~~~~~~~~~ ./boost/core/checked_delete.hpp:36:5: warning: deleting object of polymorphic class type ‘pwiz::data::MemoryIndex::Impl’ which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor] 36 | delete x; | ^~~~~~~~ g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I./boost_aux/ -I./boost/ -I. -D_LARGEFILE_SOURCE -DHAVE_PWIZ_MZML_LIB -D_NODEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c pwiz/data/common/CVTranslator.cpp -o pwiz/data/common/CVTranslator.o pwiz/data/common/CVTranslator.cpp: In function ‘bool pwiz::data::shouldIgnore(const std::string&, pwiz::cv::CVID, pwiz::cv::CVID)’: pwiz/data/common/CVTranslator.cpp:145:53: warning: suggest parentheses around ‘&&’ within ‘||’ [-Wparentheses] 145 | return (key=="unit_" && value==MS_unit_OBSOLETE && cvid==UO_unit || | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ pwiz/data/common/CVTranslator.cpp:147:40: warning: suggest parentheses around ‘&&’ within ‘||’ [-Wparentheses] 147 | key=="pi_" && value==MS_PI && cvid==MS_pI || // MS_pI==isoelectric point | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ pwiz/data/common/CVTranslator.cpp:148:40: warning: suggest parentheses around ‘&&’ within ‘||’ [-Wparentheses] 148 | key=="de_" && value==MS_DE && cvid==1001274 || // conflict between 1000246 and 1001274 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I./boost_aux/ -I./boost/ -I. -D_LARGEFILE_SOURCE -DHAVE_PWIZ_MZML_LIB -D_NODEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c pwiz/data/common/cv.cpp -o pwiz/data/common/cv.o In file included from pwiz/data/common/cv.cpp:26876: pwiz/data/common/cv.inl: In function ‘const pwiz::cv::CVTermInfo& pwiz::cv::cvTermInfo(const char*)’: pwiz/data/common/cv.inl:103:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const size_t’ {aka ‘const long unsigned int’} [-Wsign-compare] 103 | for (int o=0;o struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 131 | struct hash_base : std::unary_function {}; | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from pwiz/data/common/Index.hpp:27, from pwiz/data/common/BinaryIndexStream.hpp:26, from pwiz/data/common/BinaryIndexStream.cpp:25: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from ./boost/checked_delete.hpp:15, from ./boost/smart_ptr/detail/sp_counted_impl.hpp:27, from ./boost/smart_ptr/detail/shared_count.hpp:27, from ./boost/smart_ptr/shared_ptr.hpp:17, from ./boost/shared_ptr.hpp:17, from pwiz/data/common/Index.hpp:30: ./boost/core/checked_delete.hpp: In instantiation of ‘void boost::checked_delete(T*) [with T = pwiz::data::BinaryIndexStream::Impl]’: ./boost/smart_ptr/detail/shared_count.hpp:154:34: required from ‘boost::detail::shared_count::shared_count(Y*) [with Y = pwiz::data::BinaryIndexStream::Impl]’ 154 | boost::checked_delete( p ); | ~~~~~~~~~~~~~~~~~~~~~^~~~~ ./boost/smart_ptr/shared_ptr.hpp:279:20: required from ‘void boost::detail::sp_pointer_construct(boost::shared_ptr*, Y*, shared_count&) [with T = pwiz::data::BinaryIndexStream::Impl; Y = pwiz::data::BinaryIndexStream::Impl]’ 279 | boost::detail::shared_count( p ).swap( pn ); | ^~~~~~~~~~~~~~~~~ ./boost/smart_ptr/shared_ptr.hpp:373:44: required from ‘boost::shared_ptr::shared_ptr(Y*) [with Y = pwiz::data::BinaryIndexStream::Impl; T = pwiz::data::BinaryIndexStream::Impl]’ 373 | boost::detail::sp_pointer_construct( this, p, pn ); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ pwiz/data/common/BinaryIndexStream.cpp:417:82: required from here 417 | PWIZ_API_DECL BinaryIndexStream::BinaryIndexStream(shared_ptr isPtr) : impl_(new Impl(isPtr)) {} | ^~~~~~~~~~~~~~~~~~~~~~ ./boost/core/checked_delete.hpp:36:5: warning: deleting object of polymorphic class type ‘pwiz::data::BinaryIndexStream::Impl’ which has non-virtual destructor might cause undefined behavior [-Wdelete-non-virtual-dtor] 36 | delete x; | ^~~~~~~~ g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I./boost_aux/ -I./boost/ -I. -D_LARGEFILE_SOURCE -DHAVE_PWIZ_MZML_LIB -D_NODEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c pwiz/data/common/diff_std.cpp -o pwiz/data/common/diff_std.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I./boost_aux/ -I./boost/ -I. -D_LARGEFILE_SOURCE -DHAVE_PWIZ_MZML_LIB -D_NODEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c pwiz/data/common/Unimod.cpp -o pwiz/data/common/Unimod.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I./boost_aux/ -I./boost/ -I. -D_LARGEFILE_SOURCE -DHAVE_PWIZ_MZML_LIB -D_NODEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c pwiz/data/msdata/mz5/Configuration_mz5.cpp -o pwiz/data/msdata/mz5/Configuration_mz5.o In file included from pwiz/data/msdata/mz5/../Reader.hpp:29, from pwiz/data/msdata/mz5/../MSDataFile.hpp:30, from pwiz/data/msdata/mz5/Configuration_mz5.hpp:28, from pwiz/data/msdata/mz5/Configuration_mz5.cpp:24: ./pwiz/utility/chemistry/MzMobilityWindow.hpp: In member function ‘bool pwiz::chemistry::MzMobilityWindow::mobilityValueInBounds(double) const’: ./pwiz/utility/chemistry/MzMobilityWindow.hpp:40:59: warning: suggest parentheses around ‘&&’ within ‘||’ [-Wparentheses] 40 | mobilityBounds.get().first < mobilityValue && mobilityValue < mobilityBounds.get().second; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I./boost_aux/ -I./boost/ -I. -D_LARGEFILE_SOURCE -DHAVE_PWIZ_MZML_LIB -D_NODEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c pwiz/data/msdata/mz5/Connection_mz5.cpp -o pwiz/data/msdata/mz5/Connection_mz5.o In file included from pwiz/data/msdata/mz5/../Reader.hpp:29, from pwiz/data/msdata/mz5/../MSDataFile.hpp:30, from pwiz/data/msdata/mz5/Configuration_mz5.hpp:28, from pwiz/data/msdata/mz5/Connection_mz5.hpp:28, from pwiz/data/msdata/mz5/Connection_mz5.cpp:24: ./pwiz/utility/chemistry/MzMobilityWindow.hpp: In member function ‘bool pwiz::chemistry::MzMobilityWindow::mobilityValueInBounds(double) const’: ./pwiz/utility/chemistry/MzMobilityWindow.hpp:40:59: warning: suggest parentheses around ‘&&’ within ‘||’ [-Wparentheses] 40 | mobilityBounds.get().first < mobilityValue && mobilityValue < mobilityBounds.get().second; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I./boost_aux/ -I./boost/ -I. -D_LARGEFILE_SOURCE -DHAVE_PWIZ_MZML_LIB -D_NODEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c pwiz/data/msdata/mz5/Datastructures_mz5.cpp -o pwiz/data/msdata/mz5/Datastructures_mz5.o In file included from pwiz/data/msdata/mz5/../Reader.hpp:29, from pwiz/data/msdata/mz5/../MSDataFile.hpp:30, from pwiz/data/msdata/mz5/Configuration_mz5.hpp:28, from pwiz/data/msdata/mz5/Connection_mz5.hpp:28, from pwiz/data/msdata/mz5/ReferenceWrite_mz5.hpp:32, from pwiz/data/msdata/mz5/Datastructures_mz5.cpp:25: ./pwiz/utility/chemistry/MzMobilityWindow.hpp: In member function ‘bool pwiz::chemistry::MzMobilityWindow::mobilityValueInBounds(double) const’: ./pwiz/utility/chemistry/MzMobilityWindow.hpp:40:59: warning: suggest parentheses around ‘&&’ within ‘||’ [-Wparentheses] 40 | mobilityBounds.get().first < mobilityValue && mobilityValue < mobilityBounds.get().second; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I./boost_aux/ -I./boost/ -I. -D_LARGEFILE_SOURCE -DHAVE_PWIZ_MZML_LIB -D_NODEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c pwiz/data/msdata/mz5/ReferenceRead_mz5.cpp -o pwiz/data/msdata/mz5/ReferenceRead_mz5.o In file included from pwiz/data/msdata/mz5/../Reader.hpp:29, from pwiz/data/msdata/mz5/../MSDataFile.hpp:30, from pwiz/data/msdata/mz5/Configuration_mz5.hpp:28, from pwiz/data/msdata/mz5/Connection_mz5.hpp:28, from pwiz/data/msdata/mz5/ReferenceRead_mz5.hpp:31, from pwiz/data/msdata/mz5/ReferenceRead_mz5.cpp:24: ./pwiz/utility/chemistry/MzMobilityWindow.hpp: In member function ‘bool pwiz::chemistry::MzMobilityWindow::mobilityValueInBounds(double) const’: ./pwiz/utility/chemistry/MzMobilityWindow.hpp:40:59: warning: suggest parentheses around ‘&&’ within ‘||’ [-Wparentheses] 40 | mobilityBounds.get().first < mobilityValue && mobilityValue < mobilityBounds.get().second; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ./boost/functional/hash.hpp:6, from pwiz/data/msdata/mz5/../SpectrumListBase.hpp:30, from pwiz/data/msdata/mz5/../SpectrumList_mz5.hpp:29, from pwiz/data/msdata/mz5/ReferenceRead_mz5.cpp:27: ./boost/container_hash/hash.hpp: At global scope: ./boost/container_hash/hash.hpp:131:33: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 131 | struct hash_base : std::unary_function {}; | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from pwiz/data/msdata/mz5/../../common/cv.hpp:35, from pwiz/data/msdata/mz5/ReferenceRead_mz5.hpp:27: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I./boost_aux/ -I./boost/ -I. -D_LARGEFILE_SOURCE -DHAVE_PWIZ_MZML_LIB -D_NODEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c pwiz/data/msdata/mz5/ReferenceWrite_mz5.cpp -o pwiz/data/msdata/mz5/ReferenceWrite_mz5.o In file included from pwiz/data/msdata/mz5/../Reader.hpp:29, from pwiz/data/msdata/mz5/../MSDataFile.hpp:30, from pwiz/data/msdata/mz5/Configuration_mz5.hpp:28, from pwiz/data/msdata/mz5/Connection_mz5.hpp:28, from pwiz/data/msdata/mz5/ReferenceWrite_mz5.hpp:32, from pwiz/data/msdata/mz5/ReferenceWrite_mz5.cpp:24: ./pwiz/utility/chemistry/MzMobilityWindow.hpp: In member function ‘bool pwiz::chemistry::MzMobilityWindow::mobilityValueInBounds(double) const’: ./pwiz/utility/chemistry/MzMobilityWindow.hpp:40:59: warning: suggest parentheses around ‘&&’ within ‘||’ [-Wparentheses] 40 | mobilityBounds.get().first < mobilityValue && mobilityValue < mobilityBounds.get().second; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I./boost_aux/ -I./boost/ -I. -D_LARGEFILE_SOURCE -DHAVE_PWIZ_MZML_LIB -D_NODEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c pwiz/data/msdata/mz5/Translator_mz5.cpp -o pwiz/data/msdata/mz5/Translator_mz5.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I./boost_aux/ -I./boost/ -I. -D_LARGEFILE_SOURCE -DHAVE_PWIZ_MZML_LIB -D_NODEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c pwiz/data/msdata/DefaultReaderList.cpp -o pwiz/data/msdata/DefaultReaderList.o In file included from pwiz/data/msdata/Reader.hpp:29, from pwiz/data/msdata/DefaultReaderList.hpp:29, from pwiz/data/msdata/DefaultReaderList.cpp:29: ./pwiz/utility/chemistry/MzMobilityWindow.hpp: In member function ‘bool pwiz::chemistry::MzMobilityWindow::mobilityValueInBounds(double) const’: ./pwiz/utility/chemistry/MzMobilityWindow.hpp:40:59: warning: suggest parentheses around ‘&&’ within ‘||’ [-Wparentheses] 40 | mobilityBounds.get().first < mobilityValue && mobilityValue < mobilityBounds.get().second; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ./boost/functional/hash.hpp:6, from pwiz/data/msdata/SpectrumListBase.hpp:30, from pwiz/data/msdata/SpectrumList_mzXML.hpp:29, from pwiz/data/msdata/DefaultReaderList.cpp:30: ./boost/container_hash/hash.hpp: At global scope: ./boost/container_hash/hash.hpp:131:33: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 131 | struct hash_base : std::unary_function {}; | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/stdexcept:39, from ./pwiz/utility/misc/Exception.hpp:28, from ./pwiz/utility/misc/Std.hpp:28, from pwiz/data/msdata/DefaultReaderList.cpp:26: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I./boost_aux/ -I./boost/ -I. -D_LARGEFILE_SOURCE -DHAVE_PWIZ_MZML_LIB -D_NODEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c pwiz/data/msdata/ChromatogramList_mzML.cpp -o pwiz/data/msdata/ChromatogramList_mzML.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I./boost_aux/ -I./boost/ -I. -D_LARGEFILE_SOURCE -DHAVE_PWIZ_MZML_LIB -D_NODEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c pwiz/data/msdata/ChromatogramList_mz5.cpp -o pwiz/data/msdata/ChromatogramList_mz5.o In file included from pwiz/data/msdata/mz5/../Reader.hpp:29, from pwiz/data/msdata/mz5/../MSDataFile.hpp:30, from pwiz/data/msdata/mz5/Configuration_mz5.hpp:28, from pwiz/data/msdata/mz5/Connection_mz5.hpp:28, from pwiz/data/msdata/mz5/ReferenceRead_mz5.hpp:31, from pwiz/data/msdata/ChromatogramList_mz5.hpp:31, from pwiz/data/msdata/ChromatogramList_mz5.cpp:28: ./pwiz/utility/chemistry/MzMobilityWindow.hpp: In member function ‘bool pwiz::chemistry::MzMobilityWindow::mobilityValueInBounds(double) const’: ./pwiz/utility/chemistry/MzMobilityWindow.hpp:40:59: warning: suggest parentheses around ‘&&’ within ‘||’ [-Wparentheses] 40 | mobilityBounds.get().first < mobilityValue && mobilityValue < mobilityBounds.get().second; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I./boost_aux/ -I./boost/ -I. -D_LARGEFILE_SOURCE -DHAVE_PWIZ_MZML_LIB -D_NODEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c pwiz/data/msdata/examples.cpp -o pwiz/data/msdata/examples.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I./boost_aux/ -I./boost/ -I. -D_LARGEFILE_SOURCE -DHAVE_PWIZ_MZML_LIB -D_NODEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c pwiz/data/msdata/Serializer_mzML.cpp -o pwiz/data/msdata/Serializer_mzML.o In file included from ./boost/functional/hash.hpp:6, from pwiz/data/msdata/SpectrumListBase.hpp:30, from pwiz/data/msdata/SpectrumList_mzML.hpp:29, from pwiz/data/msdata/Serializer_mzML.cpp:28: ./boost/container_hash/hash.hpp:131:33: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 131 | struct hash_base : std::unary_function {}; | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/14/bits/refwrap.h:39, from /usr/include/c++/14/vector:68, from ./pwiz/utility/misc/BinaryData.hpp:30, from pwiz/data/msdata/MSData.hpp:29, from pwiz/data/msdata/Serializer_mzML.hpp:29, from pwiz/data/msdata/Serializer_mzML.cpp:26: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I./boost_aux/ -I./boost/ -I. -D_LARGEFILE_SOURCE -DHAVE_PWIZ_MZML_LIB -D_NODEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c pwiz/data/msdata/Serializer_MSn.cpp -o pwiz/data/msdata/Serializer_MSn.o In file included from ./boost/functional/hash.hpp:6, from pwiz/data/msdata/SpectrumListBase.hpp:30, from pwiz/data/msdata/SpectrumList_MSn.hpp:29, from pwiz/data/msdata/Serializer_MSn.hpp:29, from pwiz/data/msdata/Serializer_MSn.cpp:25: ./boost/container_hash/hash.hpp:131:33: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 131 | struct hash_base : std::unary_function {}; | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/14/bits/refwrap.h:39, from /usr/include/c++/14/vector:68, from ./pwiz/utility/misc/BinaryData.hpp:30, from pwiz/data/msdata/MSData.hpp:29, from pwiz/data/msdata/Serializer_MSn.hpp:26: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I./boost_aux/ -I./boost/ -I. -D_LARGEFILE_SOURCE -DHAVE_PWIZ_MZML_LIB -D_NODEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c pwiz/data/msdata/Reader.cpp -o pwiz/data/msdata/Reader.o In file included from pwiz/data/msdata/Reader.hpp:29, from pwiz/data/msdata/Reader.cpp:26: ./pwiz/utility/chemistry/MzMobilityWindow.hpp: In member function ‘bool pwiz::chemistry::MzMobilityWindow::mobilityValueInBounds(double) const’: ./pwiz/utility/chemistry/MzMobilityWindow.hpp:40:59: warning: suggest parentheses around ‘&&’ within ‘||’ [-Wparentheses] 40 | mobilityBounds.get().first < mobilityValue && mobilityValue < mobilityBounds.get().second; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I./boost_aux/ -I./boost/ -I. -D_LARGEFILE_SOURCE -DHAVE_PWIZ_MZML_LIB -D_NODEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c pwiz/data/msdata/Serializer_mz5.cpp -o pwiz/data/msdata/Serializer_mz5.o In file included from pwiz/data/msdata/mz5/../Reader.hpp:29, from pwiz/data/msdata/mz5/../MSDataFile.hpp:30, from pwiz/data/msdata/mz5/Configuration_mz5.hpp:28, from pwiz/data/msdata/Serializer_mz5.hpp:32, from pwiz/data/msdata/Serializer_mz5.cpp:28: ./pwiz/utility/chemistry/MzMobilityWindow.hpp: In member function ‘bool pwiz::chemistry::MzMobilityWindow::mobilityValueInBounds(double) const’: ./pwiz/utility/chemistry/MzMobilityWindow.hpp:40:59: warning: suggest parentheses around ‘&&’ within ‘||’ [-Wparentheses] 40 | mobilityBounds.get().first < mobilityValue && mobilityValue < mobilityBounds.get().second; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ./boost/functional/hash.hpp:6, from pwiz/data/msdata/SpectrumListBase.hpp:30, from pwiz/data/msdata/SpectrumList_mz5.hpp:29, from pwiz/data/msdata/Serializer_mz5.cpp:29: ./boost/container_hash/hash.hpp: At global scope: ./boost/container_hash/hash.hpp:131:33: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 131 | struct hash_base : std::unary_function {}; | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/stdexcept:39, from ./pwiz/utility/misc/Exception.hpp:28, from ./pwiz/utility/misc/Std.hpp:28, from pwiz/data/msdata/Serializer_mz5.cpp:26: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I./boost_aux/ -I./boost/ -I. -D_LARGEFILE_SOURCE -DHAVE_PWIZ_MZML_LIB -D_NODEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c pwiz/data/msdata/Serializer_MGF.cpp -o pwiz/data/msdata/Serializer_MGF.o In file included from ./boost/functional/hash.hpp:6, from pwiz/data/msdata/SpectrumListBase.hpp:30, from pwiz/data/msdata/SpectrumList_MGF.hpp:30, from pwiz/data/msdata/Serializer_MGF.cpp:26: ./boost/container_hash/hash.hpp:131:33: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 131 | struct hash_base : std::unary_function {}; | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/14/bits/refwrap.h:39, from /usr/include/c++/14/vector:68, from ./pwiz/utility/misc/BinaryData.hpp:30, from pwiz/data/msdata/MSData.hpp:29, from pwiz/data/msdata/Serializer_MGF.hpp:27, from pwiz/data/msdata/Serializer_MGF.cpp:25: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I./boost_aux/ -I./boost/ -I. -D_LARGEFILE_SOURCE -DHAVE_PWIZ_MZML_LIB -D_NODEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c pwiz/data/msdata/Serializer_mzXML.cpp -o pwiz/data/msdata/Serializer_mzXML.o In file included from ./boost/functional/hash.hpp:6, from pwiz/data/msdata/SpectrumListBase.hpp:30, from pwiz/data/msdata/SpectrumList_mzXML.hpp:29, from pwiz/data/msdata/Serializer_mzXML.cpp:26: ./boost/container_hash/hash.hpp:131:33: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 131 | struct hash_base : std::unary_function {}; | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/14/bits/refwrap.h:39, from /usr/include/c++/14/vector:68, from ./pwiz/utility/misc/BinaryData.hpp:30, from pwiz/data/msdata/MSData.hpp:29, from pwiz/data/msdata/Serializer_mzXML.hpp:29, from pwiz/data/msdata/Serializer_mzXML.cpp:25: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I./boost_aux/ -I./boost/ -I. -D_LARGEFILE_SOURCE -DHAVE_PWIZ_MZML_LIB -D_NODEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c pwiz/data/msdata/SpectrumListBase.cpp -o pwiz/data/msdata/SpectrumListBase.o In file included from ./boost/functional/hash.hpp:6, from pwiz/data/msdata/SpectrumListBase.hpp:30, from pwiz/data/msdata/SpectrumListBase.cpp:25: ./boost/container_hash/hash.hpp:131:33: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 131 | struct hash_base : std::unary_function {}; | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/14/bits/refwrap.h:39, from /usr/include/c++/14/vector:68, from ./pwiz/utility/misc/BinaryData.hpp:30, from ./pwiz/data/msdata/MSData.hpp:29, from pwiz/data/msdata/SpectrumListBase.hpp:28: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I./boost_aux/ -I./boost/ -I. -D_LARGEFILE_SOURCE -DHAVE_PWIZ_MZML_LIB -D_NODEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c pwiz/data/msdata/SpectrumList_MGF.cpp -o pwiz/data/msdata/SpectrumList_MGF.o In file included from ./boost/functional/hash.hpp:6, from pwiz/data/msdata/SpectrumListBase.hpp:30, from pwiz/data/msdata/SpectrumList_MGF.hpp:30, from pwiz/data/msdata/SpectrumList_MGF.cpp:26: ./boost/container_hash/hash.hpp:131:33: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 131 | struct hash_base : std::unary_function {}; | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/14/bits/refwrap.h:39, from /usr/include/c++/14/vector:68, from ./pwiz/utility/misc/BinaryData.hpp:30, from ./pwiz/data/msdata/MSData.hpp:29, from pwiz/data/msdata/SpectrumListBase.hpp:28: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from ./boost/thread/thread_only.hpp:17, from ./boost/thread/thread.hpp:12, from ./boost/thread.hpp:13, from pwiz/data/msdata/SpectrumList_MGF.cpp:29: ./boost/thread/pthread/thread_data.hpp: In member function ‘void boost::thread_attributes::set_stack_size(std::size_t)’: ./boost/thread/pthread/thread_data.hpp:61:19: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘long int’ [-Wsign-compare] 61 | if (size struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 131 | struct hash_base : std::unary_function {}; | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/14/bits/refwrap.h:39, from /usr/include/c++/14/vector:68, from ./pwiz/utility/misc/BinaryData.hpp:30, from ./pwiz/data/msdata/MSData.hpp:29, from pwiz/data/msdata/SpectrumListBase.hpp:28: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from ./boost/smart_ptr/detail/sp_thread_sleep.hpp:22, from ./boost/smart_ptr/detail/yield_k.hpp:23, from ./boost/smart_ptr/detail/spinlock_gcc_atomic.hpp:14, from ./boost/smart_ptr/detail/spinlock.hpp:42, from ./boost/smart_ptr/detail/spinlock_pool.hpp:25, from ./boost/smart_ptr/shared_ptr.hpp:29, from ./boost/shared_ptr.hpp:17, from ./pwiz/data/common/ParamTypes.hpp:33, from ./pwiz/data/msdata/MSData.hpp:30: ./boost/config/pragma_message.hpp:24:34: note: ‘#pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior.’ 24 | # define BOOST_PRAGMA_MESSAGE(x) _Pragma(BOOST_STRINGIZE(message(x))) | ^~~~~~~ ./boost/bind.hpp:36:1: note: in expansion of macro ‘BOOST_PRAGMA_MESSAGE’ 36 | BOOST_PRAGMA_MESSAGE( | ^~~~~~~~~~~~~~~~~~~~ In file included from ./boost/thread/thread_only.hpp:17, from ./boost/thread/thread.hpp:12, from ./boost/thread.hpp:13, from pwiz/data/msdata/SpectrumList_mzML.cpp:32: ./boost/thread/pthread/thread_data.hpp: In member function ‘void boost::thread_attributes::set_stack_size(std::size_t)’: ./boost/thread/pthread/thread_data.hpp:61:19: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘long int’ [-Wsign-compare] 61 | if (size struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 131 | struct hash_base : std::unary_function {}; | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/14/bits/refwrap.h:39, from /usr/include/c++/14/vector:68, from ./pwiz/utility/misc/BinaryData.hpp:30, from ./pwiz/data/msdata/MSData.hpp:29, from pwiz/data/msdata/SpectrumListBase.hpp:28: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from ./boost/thread/thread_only.hpp:17, from ./boost/thread/thread.hpp:12, from ./boost/thread.hpp:13, from pwiz/data/msdata/SpectrumList_MSn.cpp:31: ./boost/thread/pthread/thread_data.hpp: In member function ‘void boost::thread_attributes::set_stack_size(std::size_t)’: ./boost/thread/pthread/thread_data.hpp:61:19: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘long int’ [-Wsign-compare] 61 | if (size struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 131 | struct hash_base : std::unary_function {}; | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/stdexcept:39, from ./pwiz/utility/misc/Exception.hpp:28, from ./pwiz/utility/misc/Std.hpp:28, from pwiz/data/msdata/SpectrumList_mz5.cpp:26: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from pwiz/data/msdata/mz5/../Reader.hpp:29, from pwiz/data/msdata/mz5/../MSDataFile.hpp:30, from pwiz/data/msdata/mz5/Configuration_mz5.hpp:28, from pwiz/data/msdata/mz5/Connection_mz5.hpp:28, from pwiz/data/msdata/mz5/ReferenceRead_mz5.hpp:31, from pwiz/data/msdata/SpectrumList_mz5.hpp:31: ./pwiz/utility/chemistry/MzMobilityWindow.hpp: In member function ‘bool pwiz::chemistry::MzMobilityWindow::mobilityValueInBounds(double) const’: ./pwiz/utility/chemistry/MzMobilityWindow.hpp:40:59: warning: suggest parentheses around ‘&&’ within ‘||’ [-Wparentheses] 40 | mobilityBounds.get().first < mobilityValue && mobilityValue < mobilityBounds.get().second; | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ./boost/thread/thread_only.hpp:17, from ./boost/thread/thread.hpp:12, from ./boost/thread.hpp:13, from pwiz/data/msdata/SpectrumList_mz5.cpp:29: ./boost/thread/pthread/thread_data.hpp: In member function ‘void boost::thread_attributes::set_stack_size(std::size_t)’: ./boost/thread/pthread/thread_data.hpp:61:19: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘long int’ [-Wsign-compare] 61 | if (size(byteBuffer, byteCount,compressed); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ pwiz/data/msdata/BinaryDataEncoder.cpp:131:12: note: ‘byteCount’ was declared here 131 | size_t byteCount; | ^~~~~~~~~ pwiz/data/msdata/BinaryDataEncoder.cpp:302:37: warning: ‘byteBuffer’ may be used uninitialized [-Wmaybe-uninitialized] 302 | filterArray(byteBuffer, byteCount,compressed); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ pwiz/data/msdata/BinaryDataEncoder.cpp:132:17: note: ‘byteBuffer’ was declared here 132 | const void* byteBuffer; | ^~~~~~~~~~ g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I./boost_aux/ -I./boost/ -I. -D_LARGEFILE_SOURCE -DHAVE_PWIZ_MZML_LIB -D_NODEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c pwiz/data/msdata/Diff.cpp -o pwiz/data/msdata/Diff.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I./boost_aux/ -I./boost/ -I. -D_LARGEFILE_SOURCE -DHAVE_PWIZ_MZML_LIB -D_NODEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c pwiz/data/msdata/MSData.cpp -o pwiz/data/msdata/MSData.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I./boost_aux/ -I./boost/ -I. -D_LARGEFILE_SOURCE -DHAVE_PWIZ_MZML_LIB -D_NODEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c pwiz/data/msdata/References.cpp -o pwiz/data/msdata/References.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I./boost_aux/ -I./boost/ -I. -D_LARGEFILE_SOURCE -DHAVE_PWIZ_MZML_LIB -D_NODEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c pwiz/data/msdata/SpectrumList_mzXML.cpp -o pwiz/data/msdata/SpectrumList_mzXML.o In file included from ./boost/functional/hash.hpp:6, from pwiz/data/msdata/SpectrumListBase.hpp:30, from pwiz/data/msdata/SpectrumList_mzXML.hpp:29, from pwiz/data/msdata/SpectrumList_mzXML.cpp:25: ./boost/container_hash/hash.hpp:131:33: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 131 | struct hash_base : std::unary_function {}; | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/14/bits/refwrap.h:39, from /usr/include/c++/14/vector:68, from ./pwiz/utility/misc/BinaryData.hpp:30, from ./pwiz/data/msdata/MSData.hpp:29, from pwiz/data/msdata/SpectrumListBase.hpp:28: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from ./boost/thread/thread_only.hpp:17, from ./boost/thread/thread.hpp:12, from ./boost/thread.hpp:13, from pwiz/data/msdata/SpectrumList_mzXML.cpp:30: ./boost/thread/pthread/thread_data.hpp: In member function ‘void boost::thread_attributes::set_stack_size(std::size_t)’: ./boost/thread/pthread/thread_data.hpp:61:19: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘long int’ [-Wsign-compare] 61 | if (size >, const pwiz::msdata::MSData&, bool)’: pwiz/data/msdata/SpectrumList_mzXML.cpp:84:30: warning: catching polymorphic type ‘struct pwiz::msdata::SpectrumList_mzXML::index_not_found’ by value [-Wcatch-value=] 84 | } catch (index_not_found e){ | ^ g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I./boost_aux/ -I./boost/ -I. -D_LARGEFILE_SOURCE -DHAVE_PWIZ_MZML_LIB -D_NODEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c pwiz/data/msdata/IO.cpp -o pwiz/data/msdata/IO.o pwiz/data/msdata/IO.cpp: In function ‘void pwiz::msdata::IO::writeBinaryDataArray(pwiz::minimxml::XMLWriter&, const BinaryDataArrayType&, const pwiz::msdata::BinaryDataEncoder::Config&)’: pwiz/data/msdata/IO.cpp:1657:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 1657 | if (usedConfig.byteOrder == BinaryDataEncoder::ByteOrder_BigEndian) | ^~ pwiz/data/msdata/IO.cpp:1660:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 1660 | bool zlib = false; // Handle numpress+zlib | ^~~~ pwiz/data/msdata/IO.cpp: In member function ‘virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::msdata::IO::HandlerSpectrum::startElement(const std::string&, const pwiz::minimxml::SAXParser::Handler::Attributes&, pwiz::minimxml::SAXParser::Handler::stream_offset)’: pwiz/data/msdata/IO.cpp:2132:35: warning: suggest parentheses around ‘&&’ within ‘||’ [-Wparentheses] 2132 | else if (version == 1 && name == "acquisitionList" /* mzML 1.0 */ || name == "scanList") | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ pwiz/data/msdata/IO.cpp: In member function ‘virtual pwiz::minimxml::SAXParser::Handler::Status pwiz::msdata::IO::HandlerMSData::startElement(const std::string&, const pwiz::minimxml::SAXParser::Handler::Attributes&, pwiz::minimxml::SAXParser::Handler::stream_offset)’: pwiz/data/msdata/IO.cpp:2836:31: warning: suggest parentheses around ‘&&’ within ‘||’ [-Wparentheses] 2836 | else if (version == 1 && name == "acquisitionSettings" /* mzML 1.0 */ || | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I./boost_aux/ -I./boost/ -I. -D_LARGEFILE_SOURCE -DHAVE_PWIZ_MZML_LIB -D_NODEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c pwiz/data/msdata/SpectrumList_BTDX.cpp -o pwiz/data/msdata/SpectrumList_BTDX.o In file included from ./boost/functional/hash.hpp:6, from pwiz/data/msdata/SpectrumListBase.hpp:30, from pwiz/data/msdata/SpectrumList_BTDX.hpp:30, from pwiz/data/msdata/SpectrumList_BTDX.cpp:26: ./boost/container_hash/hash.hpp:131:33: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 131 | struct hash_base : std::unary_function {}; | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/14/bits/refwrap.h:39, from /usr/include/c++/14/vector:68, from ./pwiz/utility/misc/BinaryData.hpp:30, from ./pwiz/data/msdata/MSData.hpp:29, from pwiz/data/msdata/SpectrumListBase.hpp:28: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from ./boost/thread/thread_only.hpp:17, from ./boost/thread/thread.hpp:12, from ./boost/thread.hpp:13, from pwiz/data/msdata/SpectrumList_BTDX.cpp:30: ./boost/thread/pthread/thread_data.hpp: In member function ‘void boost::thread_attributes::set_stack_size(std::size_t)’: ./boost/thread/pthread/thread_data.hpp:61:19: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘long int’ [-Wsign-compare] 61 | if (size struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 131 | struct hash_base : std::unary_function {}; | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/14/bits/refwrap.h:39, from /usr/include/c++/14/vector:68, from ./pwiz/utility/misc/BinaryData.hpp:30, from pwiz/data/msdata/MSData.hpp:29, from pwiz/data/msdata/MSDataFile.hpp:29: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I./boost_aux/ -I./boost/ -I. -D_LARGEFILE_SOURCE -DHAVE_PWIZ_MZML_LIB -D_NODEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c pwiz/data/msdata/MSNumpress.cpp -o pwiz/data/msdata/MSNumpress.o pwiz/data/msdata/MSNumpress.cpp: In function ‘void pwiz::msdata::MSNumpress::encodeInt(int, unsigned char*, size_t*)’: pwiz/data/msdata/MSNumpress.cpp:114:21: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 114 | } else if (init == mask) { | ~~~~~^~~~~~~ In file included from /usr/include/c++/14/iostream:41, from pwiz/data/msdata/MSNumpress.cpp:27: In member function ‘std::basic_ostream<_CharT, _Traits>::__ostream_type& std::basic_ostream<_CharT, _Traits>::operator<<(long long int) [with _CharT = char; _Traits = std::char_traits]’, inlined from ‘size_t pwiz::msdata::MSNumpress::decodeLinear(const unsigned char*, size_t, double*)’ at pwiz/data/msdata/MSNumpress.cpp:403:33: /usr/include/c++/14/ostream:212:25: warning: ‘extrapol’ may be used uninitialized [-Wmaybe-uninitialized] 212 | { return _M_insert(__n); } | ~~~~~~~~~^~~~~ pwiz/data/msdata/MSNumpress.cpp: In function ‘size_t pwiz::msdata::MSNumpress::decodeLinear(const unsigned char*, size_t, double*)’: pwiz/data/msdata/MSNumpress.cpp:346:15: note: ‘extrapol’ was declared here 346 | long long extrapol; | ^~~~~~~~ In member function ‘std::basic_ostream<_CharT, _Traits>::__ostream_type& std::basic_ostream<_CharT, _Traits>::operator<<(long long int) [with _CharT = char; _Traits = std::char_traits]’, inlined from ‘size_t pwiz::msdata::MSNumpress::decodeLinear(const unsigned char*, size_t, double*)’ at pwiz/data/msdata/MSNumpress.cpp:404:26: /usr/include/c++/14/ostream:212:25: warning: ‘y’ may be used uninitialized [-Wmaybe-uninitialized] 212 | { return _M_insert(__n); } | ~~~~~~~~~^~~~~ pwiz/data/msdata/MSNumpress.cpp: In function ‘size_t pwiz::msdata::MSNumpress::decodeLinear(const unsigned char*, size_t, double*)’: pwiz/data/msdata/MSNumpress.cpp:347:15: note: ‘y’ was declared here 347 | long long y; | ^ g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I./boost_aux/ -I./boost/ -I. -D_LARGEFILE_SOURCE -DHAVE_PWIZ_MZML_LIB -D_NODEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c pwiz/data/msdata/SpectrumListCache.cpp -o pwiz/data/msdata/SpectrumListCache.o In file included from ./boost/functional/hash.hpp:6, from ./boost/multi_index/detail/hash_index_args.hpp:17, from ./boost/multi_index/hashed_index_fwd.hpp:16, from ./boost/multi_index/hashed_index.hpp:43, from ./pwiz/utility/misc/mru_list.hpp:26, from pwiz/data/msdata/MemoryMRUCache.hpp:27, from pwiz/data/msdata/SpectrumListCache.hpp:28, from pwiz/data/msdata/SpectrumListCache.cpp:25: ./boost/container_hash/hash.hpp:131:33: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 131 | struct hash_base : std::unary_function {}; | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/14/bits/refwrap.h:39, from /usr/include/c++/14/vector:68, from ./pwiz/utility/misc/BinaryData.hpp:30, from pwiz/data/msdata/MSData.hpp:29, from pwiz/data/msdata/SpectrumListCache.hpp:27: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I./boost_aux/ -I./boost/ -I. -D_LARGEFILE_SOURCE -DHAVE_PWIZ_MZML_LIB -D_NODEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c pwiz/data/msdata/Index_mzML.cpp -o pwiz/data/msdata/Index_mzML.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I./boost_aux/ -I./boost/ -I. -D_LARGEFILE_SOURCE -DHAVE_PWIZ_MZML_LIB -D_NODEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c pwiz/data/msdata/SpectrumWorkerThreads.cpp -o pwiz/data/msdata/SpectrumWorkerThreads.o In file included from ./boost/functional/hash.hpp:6, from ./pwiz/data/msdata/SpectrumListBase.hpp:30, from ./pwiz/data/msdata/SpectrumListWrapper.hpp:28, from pwiz/data/msdata/SpectrumWorkerThreads.cpp:27: ./boost/container_hash/hash.hpp:131:33: warning: ‘template struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 131 | struct hash_base : std::unary_function {}; | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/stdexcept:39, from ./pwiz/utility/misc/Exception.hpp:28, from ./pwiz/utility/misc/Std.hpp:28, from pwiz/data/msdata/SpectrumWorkerThreads.cpp:24: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ In file included from ./boost/thread/thread_only.hpp:17, from ./boost/thread/thread.hpp:12, from ./boost/thread.hpp:13, from pwiz/data/msdata/SpectrumWorkerThreads.cpp:31: ./boost/thread/pthread/thread_data.hpp: In member function ‘void boost::thread_attributes::set_stack_size(std::size_t)’: ./boost/thread/pthread/thread_data.hpp:61:19: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘long int’ [-Wsign-compare] 61 | if (size >*)’: pwiz/data/identdata/Serializer_protXML.cpp:478:10: warning: ‘pwiz::identdata::{anonymous}::Handler_protXML::strict’ will be initialized after [-Wreorder] 478 | bool strict; | ^~~~~~ pwiz/data/identdata/Serializer_protXML.cpp:85:9: warning: ‘int pwiz::identdata::{anonymous}::Handler_protXML::nPeptides’ [-Wreorder] 85 | int nPeptides; | ^~~~~~~~~ pwiz/data/identdata/Serializer_protXML.cpp:91:5: warning: when initialized here [-Wreorder] 91 | Handler_protXML(IdentData& mzid, | ^~~~~~~~~~~~~~~ g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I./boost_aux/ -I./boost/ -I. -D_LARGEFILE_SOURCE -DHAVE_PWIZ_MZML_LIB -D_NODEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c pwiz/data/identdata/Serializer_pepXML.cpp -o pwiz/data/identdata/Serializer_pepXML.o pwiz/data/identdata/Serializer_pepXML.cpp: In member function ‘void pwiz::identdata::{anonymous}::HandlerSearchSummary::translateParameters()’: pwiz/data/identdata/Serializer_pepXML.cpp:1100:23: warning: possibly dangling reference to a temporary [-Wdangling-reference] 1100 | const string& decoyPrefix = getValueOrDefault(kvPairs, "decoyprefix", ""); | ^~~~~~~~~~~ pwiz/data/identdata/Serializer_pepXML.cpp:1100:54: note: the temporary was destroyed at the end of the full expression ‘pwiz::identdata::{anonymous}::HandlerSearchSummary::getValueOrDefault(kvPairs, std::__cxx11::basic_string(((const char*)"decoyprefix"), std::allocator()), std::__cxx11::basic_string(((const char*)""), std::allocator()))’ 1100 | const string& decoyPrefix = getValueOrDefault(kvPairs, "decoyprefix", ""); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ pwiz/data/identdata/Serializer_pepXML.cpp:1111:35: warning: possibly dangling reference to a temporary [-Wdangling-reference] 1111 | const string& parentToleranceUnits = getValueOrDefault(kvPairs, "tolu", ""); | ^~~~~~~~~~~~~~~~~~~~ pwiz/data/identdata/Serializer_pepXML.cpp:1111:75: note: the temporary was destroyed at the end of the full expression ‘pwiz::identdata::{anonymous}::HandlerSearchSummary::getValueOrDefault(kvPairs, std::__cxx11::basic_string(((const char*)"tolu"), std::allocator()), std::__cxx11::basic_string(((const char*)""), std::allocator()))’ 1111 | const string& parentToleranceUnits = getValueOrDefault(kvPairs, "tolu", ""); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ pwiz/data/identdata/Serializer_pepXML.cpp:1122:35: warning: possibly dangling reference to a temporary [-Wdangling-reference] 1122 | const string& fragmentToleranceUnits = getValueOrDefault(kvPairs, "itolu", ""); | ^~~~~~~~~~~~~~~~~~~~~~ pwiz/data/identdata/Serializer_pepXML.cpp:1122:77: note: the temporary was destroyed at the end of the full expression ‘pwiz::identdata::{anonymous}::HandlerSearchSummary::getValueOrDefault(kvPairs, std::__cxx11::basic_string(((const char*)"itolu"), std::allocator()), std::__cxx11::basic_string(((const char*)""), std::allocator()))’ 1122 | const string& fragmentToleranceUnits = getValueOrDefault(kvPairs, "itolu", ""); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ pwiz/data/identdata/Serializer_pepXML.cpp:1133:35: warning: possibly dangling reference to a temporary [-Wdangling-reference] 1133 | const string& instrument = getValueOrDefault(kvPairs, "instrument", ""); | ^~~~~~~~~~ pwiz/data/identdata/Serializer_pepXML.cpp:1133:65: note: the temporary was destroyed at the end of the full expression ‘pwiz::identdata::{anonymous}::HandlerSearchSummary::getValueOrDefault(kvPairs, std::__cxx11::basic_string(((const char*)"instrument"), std::allocator()), std::__cxx11::basic_string(((const char*)""), std::allocator()))’ 1133 | const string& instrument = getValueOrDefault(kvPairs, "instrument", ""); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ pwiz/data/identdata/Serializer_pepXML.cpp:1158:35: warning: possibly dangling reference to a temporary [-Wdangling-reference] 1158 | const string& precursorMzTolerance = getValueOrDefault(kvPairs, "config: precursormztolerance", ""); | ^~~~~~~~~~~~~~~~~~~~ pwiz/data/identdata/Serializer_pepXML.cpp:1158:75: note: the temporary was destroyed at the end of the full expression ‘pwiz::identdata::{anonymous}::HandlerSearchSummary::getValueOrDefault(kvPairs, std::__cxx11::basic_string(((const char*)"config: precursormztolerance"), std::allocator()), std::__cxx11::basic_string(((const char*)""), std::allocator()))’ 1158 | const string& precursorMzTolerance = getValueOrDefault(kvPairs, "config: precursormztolerance", ""); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ pwiz/data/identdata/Serializer_pepXML.cpp:1159:35: warning: possibly dangling reference to a temporary [-Wdangling-reference] 1159 | const string& precursorMzToleranceUnits = getValueOrDefault(kvPairs, "config: precursormztoleranceunits", ""); | ^~~~~~~~~~~~~~~~~~~~~~~~~ pwiz/data/identdata/Serializer_pepXML.cpp:1159:80: note: the temporary was destroyed at the end of the full expression ‘pwiz::identdata::{anonymous}::HandlerSearchSummary::getValueOrDefault(kvPairs, std::__cxx11::basic_string(((const char*)"config: precursormztoleranceunits"), std::allocator()), std::__cxx11::basic_string(((const char*)""), std::allocator()))’ 1159 | const string& precursorMzToleranceUnits = getValueOrDefault(kvPairs, "config: precursormztoleranceunits", ""); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ pwiz/data/identdata/Serializer_pepXML.cpp:1160:35: warning: possibly dangling reference to a temporary [-Wdangling-reference] 1160 | const string& precursorMzToleranceRule = getValueOrDefault(kvPairs, "config: precursormztolerancerule", ""); | ^~~~~~~~~~~~~~~~~~~~~~~~ pwiz/data/identdata/Serializer_pepXML.cpp:1160:79: note: the temporary was destroyed at the end of the full expression ‘pwiz::identdata::{anonymous}::HandlerSearchSummary::getValueOrDefault(kvPairs, std::__cxx11::basic_string(((const char*)"config: precursormztolerancerule"), std::allocator()), std::__cxx11::basic_string(((const char*)""), std::allocator()))’ 1160 | const string& precursorMzToleranceRule = getValueOrDefault(kvPairs, "config: precursormztolerancerule", ""); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ pwiz/data/identdata/Serializer_pepXML.cpp:1170:39: warning: possibly dangling reference to a temporary [-Wdangling-reference] 1170 | const string& avgPrecursorMzTolerance = getValueOrDefault(kvPairs, "config: avgprecursormztolerance", ""); | ^~~~~~~~~~~~~~~~~~~~~~~ pwiz/data/identdata/Serializer_pepXML.cpp:1170:82: note: the temporary was destroyed at the end of the full expression ‘pwiz::identdata::{anonymous}::HandlerSearchSummary::getValueOrDefault(kvPairs, std::__cxx11::basic_string(((const char*)"config: avgprecursormztolerance"), std::allocator()), std::__cxx11::basic_string(((const char*)""), std::allocator()))’ 1170 | const string& avgPrecursorMzTolerance = getValueOrDefault(kvPairs, "config: avgprecursormztolerance", ""); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ pwiz/data/identdata/Serializer_pepXML.cpp:1171:39: warning: possibly dangling reference to a temporary [-Wdangling-reference] 1171 | const string& monoPrecursorMzTolerance = getValueOrDefault(kvPairs, "config: monoprecursormztolerance", ""); | ^~~~~~~~~~~~~~~~~~~~~~~~ pwiz/data/identdata/Serializer_pepXML.cpp:1171:83: note: the temporary was destroyed at the end of the full expression ‘pwiz::identdata::{anonymous}::HandlerSearchSummary::getValueOrDefault(kvPairs, std::__cxx11::basic_string(((const char*)"config: monoprecursormztolerance"), std::allocator()), std::__cxx11::basic_string(((const char*)""), std::allocator()))’ 1171 | const string& monoPrecursorMzTolerance = getValueOrDefault(kvPairs, "config: monoprecursormztolerance", ""); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ pwiz/data/identdata/Serializer_pepXML.cpp:1186:35: warning: possibly dangling reference to a temporary [-Wdangling-reference] 1186 | const string& fragmentMzTolerance = getValueOrDefault(kvPairs, "config: fragmentmztolerance", ""); | ^~~~~~~~~~~~~~~~~~~ pwiz/data/identdata/Serializer_pepXML.cpp:1186:74: note: the temporary was destroyed at the end of the full expression ‘pwiz::identdata::{anonymous}::HandlerSearchSummary::getValueOrDefault(kvPairs, std::__cxx11::basic_string(((const char*)"config: fragmentmztolerance"), std::allocator()), std::__cxx11::basic_string(((const char*)""), std::allocator()))’ 1186 | const string& fragmentMzTolerance = getValueOrDefault(kvPairs, "config: fragmentmztolerance", ""); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ pwiz/data/identdata/Serializer_pepXML.cpp:1187:35: warning: possibly dangling reference to a temporary [-Wdangling-reference] 1187 | const string& fragmentMzToleranceUnits = getValueOrDefault(kvPairs, "config: fragmentmztoleranceunits", ""); | ^~~~~~~~~~~~~~~~~~~~~~~~ pwiz/data/identdata/Serializer_pepXML.cpp:1187:79: note: the temporary was destroyed at the end of the full expression ‘pwiz::identdata::{anonymous}::HandlerSearchSummary::getValueOrDefault(kvPairs, std::__cxx11::basic_string(((const char*)"config: fragmentmztoleranceunits"), std::allocator()), std::__cxx11::basic_string(((const char*)""), std::allocator()))’ 1187 | const string& fragmentMzToleranceUnits = getValueOrDefault(kvPairs, "config: fragmentmztoleranceunits", ""); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ pwiz/data/identdata/Serializer_pepXML.cpp:1202:35: warning: possibly dangling reference to a temporary [-Wdangling-reference] 1202 | const string& fragmentationRule = getValueOrDefault(kvPairs, "config: fragmentationrule", "cid"); | ^~~~~~~~~~~~~~~~~ pwiz/data/identdata/Serializer_pepXML.cpp:1202:72: note: the temporary was destroyed at the end of the full expression ‘pwiz::identdata::{anonymous}::HandlerSearchSummary::getValueOrDefault(kvPairs, std::__cxx11::basic_string(((const char*)"config: fragmentationrule"), std::allocator()), std::__cxx11::basic_string(((const char*)"cid"), std::allocator()))’ 1202 | const string& fragmentationRule = getValueOrDefault(kvPairs, "config: fragmentationrule", "cid"); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ pwiz/data/identdata/Serializer_pepXML.cpp:1211:35: warning: possibly dangling reference to a temporary [-Wdangling-reference] 1211 | const string& parentErrorMinus = getValueOrDefault(kvPairs, "spectrum, parent monoisotopic mass error minus", ""); | ^~~~~~~~~~~~~~~~ pwiz/data/identdata/Serializer_pepXML.cpp:1211:71: note: the temporary was destroyed at the end of the full expression ‘pwiz::identdata::{anonymous}::HandlerSearchSummary::getValueOrDefault(kvPairs, std::__cxx11::basic_string(((const char*)"spectrum, parent monoisotopic mass error minus"), std::allocator()), std::__cxx11::basic_string(((const char*)""), std::allocator()))’ 1211 | const string& parentErrorMinus = getValueOrDefault(kvPairs, "spectrum, parent monoisotopic mass error minus", ""); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ pwiz/data/identdata/Serializer_pepXML.cpp:1212:35: warning: possibly dangling reference to a temporary [-Wdangling-reference] 1212 | const string& parentErrorPlus = getValueOrDefault(kvPairs, "spectrum, parent monoisotopic mass error plus", ""); | ^~~~~~~~~~~~~~~ pwiz/data/identdata/Serializer_pepXML.cpp:1212:70: note: the temporary was destroyed at the end of the full expression ‘pwiz::identdata::{anonymous}::HandlerSearchSummary::getValueOrDefault(kvPairs, std::__cxx11::basic_string(((const char*)"spectrum, parent monoisotopic mass error plus"), std::allocator()), std::__cxx11::basic_string(((const char*)""), std::allocator()))’ 1212 | const string& parentErrorPlus = getValueOrDefault(kvPairs, "spectrum, parent monoisotopic mass error plus", ""); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ pwiz/data/identdata/Serializer_pepXML.cpp:1213:35: warning: possibly dangling reference to a temporary [-Wdangling-reference] 1213 | const string& parentErrorUnits = getValueOrDefault(kvPairs, "spectrum, parent monoisotopic mass error units", ""); | ^~~~~~~~~~~~~~~~ pwiz/data/identdata/Serializer_pepXML.cpp:1213:71: note: the temporary was destroyed at the end of the full expression ‘pwiz::identdata::{anonymous}::HandlerSearchSummary::getValueOrDefault(kvPairs, std::__cxx11::basic_string(((const char*)"spectrum, parent monoisotopic mass error units"), std::allocator()), std::__cxx11::basic_string(((const char*)""), std::allocator()))’ 1213 | const string& parentErrorUnits = getValueOrDefault(kvPairs, "spectrum, parent monoisotopic mass error units", ""); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ pwiz/data/identdata/Serializer_pepXML.cpp:1218:35: warning: possibly dangling reference to a temporary [-Wdangling-reference] 1218 | const string& fragmentError = getValueOrDefault(kvPairs, "spectrum, fragment monoisotopic mass error", ""); | ^~~~~~~~~~~~~ pwiz/data/identdata/Serializer_pepXML.cpp:1218:68: note: the temporary was destroyed at the end of the full expression ‘pwiz::identdata::{anonymous}::HandlerSearchSummary::getValueOrDefault(kvPairs, std::__cxx11::basic_string(((const char*)"spectrum, fragment monoisotopic mass error"), std::allocator()), std::__cxx11::basic_string(((const char*)""), std::allocator()))’ 1218 | const string& fragmentError = getValueOrDefault(kvPairs, "spectrum, fragment monoisotopic mass error", ""); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ pwiz/data/identdata/Serializer_pepXML.cpp:1219:35: warning: possibly dangling reference to a temporary [-Wdangling-reference] 1219 | const string& fragmentErrorUnits = getValueOrDefault(kvPairs, "spectrum, fragment monoisotopic mass error units", ""); | ^~~~~~~~~~~~~~~~~~ pwiz/data/identdata/Serializer_pepXML.cpp:1219:73: note: the temporary was destroyed at the end of the full expression ‘pwiz::identdata::{anonymous}::HandlerSearchSummary::getValueOrDefault(kvPairs, std::__cxx11::basic_string(((const char*)"spectrum, fragment monoisotopic mass error units"), std::allocator()), std::__cxx11::basic_string(((const char*)""), std::allocator()))’ 1219 | const string& fragmentErrorUnits = getValueOrDefault(kvPairs, "spectrum, fragment monoisotopic mass error units", ""); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ pwiz/data/identdata/Serializer_pepXML.cpp:1269:35: warning: possibly dangling reference to a temporary [-Wdangling-reference] 1269 | const string& decoyPrefix = getValueOrDefault(kvPairs, "decoy_prefix", ""); | ^~~~~~~~~~~ pwiz/data/identdata/Serializer_pepXML.cpp:1269:66: note: the temporary was destroyed at the end of the full expression ‘pwiz::identdata::{anonymous}::HandlerSearchSummary::getValueOrDefault(kvPairs, std::__cxx11::basic_string(((const char*)"decoy_prefix"), std::allocator()), std::__cxx11::basic_string(((const char*)""), std::allocator()))’ 1269 | const string& decoyPrefix = getValueOrDefault(kvPairs, "decoy_prefix", ""); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ pwiz/data/identdata/Serializer_pepXML.cpp: In function ‘void pwiz::identdata::{anonymous}::write_spectrum_queries(pwiz::minimxml::XMLWriter&, const pwiz::identdata::IdentData&, const std::string&, const pwiz::util::IterationListenerRegistry*)’: pwiz/data/identdata/Serializer_pepXML.cpp:801:52: warning: ‘lastSpectrumIndex’ may be used uninitialized [-Wmaybe-uninitialized] 801 | if (sii.chargeState != lastChargeState || spectrumIndex != lastSpectrumIndex) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ pwiz/data/identdata/Serializer_pepXML.cpp:775:26: note: ‘lastSpectrumIndex’ was declared here 775 | int lastChargeState, lastSpectrumIndex; | ^~~~~~~~~~~~~~~~~ g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I./boost_aux/ -I./boost/ -I. -D_LARGEFILE_SOURCE -DHAVE_PWIZ_MZML_LIB -D_NODEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c pwiz/data/identdata/Serializer_mzid.cpp -o pwiz/data/identdata/Serializer_mzid.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I./boost_aux/ -I./boost/ -I. -D_LARGEFILE_SOURCE -DHAVE_PWIZ_MZML_LIB -D_NODEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c pwiz/data/identdata/IO.cpp -o pwiz/data/identdata/IO.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I./boost_aux/ -I./boost/ -I. -D_LARGEFILE_SOURCE -DHAVE_PWIZ_MZML_LIB -D_NODEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c pwiz/data/identdata/References.cpp -o pwiz/data/identdata/References.o pwiz/data/identdata/References.cpp: In function ‘void pwiz::identdata::References::resolve(std::vector >&, pwiz::identdata::IdentData&)’: pwiz/data/identdata/References.cpp:148:17: warning: suggest explicit braces to avoid ambiguous ‘else’ [-Wdangling-else] 148 | else if (dynamic_cast(c.get())) | ^ g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I./boost_aux/ -I./boost/ -I. -D_LARGEFILE_SOURCE -DHAVE_PWIZ_MZML_LIB -D_NODEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c pwiz/data/identdata/MascotReader.cpp -o pwiz/data/identdata/MascotReader.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I./boost_aux/ -I./boost/ -I. -D_LARGEFILE_SOURCE -DHAVE_PWIZ_MZML_LIB -D_NODEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c pwiz/data/proteome/Modification.cpp -o pwiz/data/proteome/Modification.o pwiz/data/proteome/Modification.cpp:89:5: warning: ‘template class std::auto_ptr’ is deprecated: use 'std::unique_ptr' instead [-Wdeprecated-declarations] 89 | auto_ptr formula_; | ^~~~~~~~ In file included from /usr/include/c++/14/memory:78, from ./boost/smart_ptr/detail/sp_counted_impl.hpp:35, from ./boost/smart_ptr/detail/shared_count.hpp:27, from ./boost/smart_ptr/shared_ptr.hpp:17, from ./boost/shared_ptr.hpp:17, from ./pwiz/utility/chemistry/Chemistry.hpp:33, from pwiz/data/proteome/Peptide.hpp:29, from pwiz/data/proteome/Modification.hpp:30, from pwiz/data/proteome/Modification.cpp:27: /usr/include/c++/14/bits/unique_ptr.h:59:28: note: declared here 59 | template class auto_ptr; | ^~~~~~~~ g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I./boost_aux/ -I./boost/ -I. -D_LARGEFILE_SOURCE -DHAVE_PWIZ_MZML_LIB -D_NODEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c pwiz/data/proteome/Digestion.cpp -o pwiz/data/proteome/Digestion.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I./boost_aux/ -I./boost/ -I. -D_LARGEFILE_SOURCE -DHAVE_PWIZ_MZML_LIB -D_NODEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c pwiz/data/proteome/Peptide.cpp -o pwiz/data/proteome/Peptide.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I./boost_aux/ -I./boost/ -I. -D_LARGEFILE_SOURCE -DHAVE_PWIZ_MZML_LIB -D_NODEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c pwiz/data/proteome/AminoAcid.cpp -o pwiz/data/proteome/AminoAcid.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I./boost_aux/ -I./boost/ -I. -D_LARGEFILE_SOURCE -DHAVE_PWIZ_MZML_LIB -D_NODEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c pwiz/utility/minimxml/XMLWriter.cpp -o pwiz/utility/minimxml/XMLWriter.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I./boost_aux/ -I./boost/ -I. -D_LARGEFILE_SOURCE -DHAVE_PWIZ_MZML_LIB -D_NODEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c pwiz/utility/minimxml/SAXParser.cpp -o pwiz/utility/minimxml/SAXParser.o pwiz/utility/minimxml/SAXParser.cpp: In function ‘void pwiz::minimxml::SAXParser::parse(std::istream&, Handler&)’: pwiz/utility/minimxml/SAXParser.cpp:543:61: warning: offset ‘1’ outside bounds of constant string [-Warray-bounds=] 543 | Handler::Status status = wrangler.endElement(buffer.c_str()+1, position); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ pwiz/utility/minimxml/SAXParser.cpp:549:17: warning: ‘inCDATA’ may be used uninitialized [-Wmaybe-uninitialized] 549 | if (inCDATA) | ^~ pwiz/utility/minimxml/SAXParser.cpp:501:14: note: ‘inCDATA’ was declared here 501 | bool inCDATA; | ^~~~~~~ g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I./boost_aux/ -I./boost/ -I. -D_LARGEFILE_SOURCE -DHAVE_PWIZ_MZML_LIB -D_NODEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c pwiz/utility/chemistry/Chemistry.cpp -o pwiz/utility/chemistry/Chemistry.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I./boost_aux/ -I./boost/ -I. -D_LARGEFILE_SOURCE -DHAVE_PWIZ_MZML_LIB -D_NODEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c pwiz/utility/chemistry/ChemistryData.cpp -o pwiz/utility/chemistry/ChemistryData.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I./boost_aux/ -I./boost/ -I. -D_LARGEFILE_SOURCE -DHAVE_PWIZ_MZML_LIB -D_NODEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c pwiz/utility/chemistry/MZTolerance.cpp -o pwiz/utility/chemistry/MZTolerance.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I./boost_aux/ -I./boost/ -I. -D_LARGEFILE_SOURCE -DHAVE_PWIZ_MZML_LIB -D_NODEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c pwiz/utility/misc/IntegerSet.cpp -o pwiz/utility/misc/IntegerSet.o pwiz/utility/misc/IntegerSet.cpp: In member function ‘bool pwiz::util::IntegerSet::Iterator::operator==(const pwiz::util::IntegerSet::Iterator&) const’: pwiz/utility/misc/IntegerSet.cpp:307:63: warning: suggest parentheses around ‘&&’ within ‘||’ [-Wparentheses] 307 | return (it_!=end_ && that.it_!=that.end_ && it_==that.it_ && value_==that.value_ || | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I./boost_aux/ -I./boost/ -I. -D_LARGEFILE_SOURCE -DHAVE_PWIZ_MZML_LIB -D_NODEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c pwiz/utility/misc/Base64.cpp -o pwiz/utility/misc/Base64.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I./boost_aux/ -I./boost/ -I. -D_LARGEFILE_SOURCE -DHAVE_PWIZ_MZML_LIB -D_NODEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c pwiz/utility/misc/BinaryData.cpp -o pwiz/utility/misc/BinaryData.o pwiz/utility/misc/BinaryData.cpp:303: warning: ignoring ‘#pragma managed ’ [-Wunknown-pragmas] 303 | #pragma managed(push, off) pwiz/utility/misc/BinaryData.cpp:475: warning: ignoring ‘#pragma managed ’ [-Wunknown-pragmas] 475 | #pragma managed(pop) g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I./boost_aux/ -I./boost/ -I. -D_LARGEFILE_SOURCE -DHAVE_PWIZ_MZML_LIB -D_NODEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c pwiz/utility/misc/IterationListener.cpp -o pwiz/utility/misc/IterationListener.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I./boost_aux/ -I./boost/ -I. -D_LARGEFILE_SOURCE -DHAVE_PWIZ_MZML_LIB -D_NODEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c pwiz/utility/misc/MSIHandler.cpp -o pwiz/utility/misc/MSIHandler.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I./boost_aux/ -I./boost/ -I. -D_LARGEFILE_SOURCE -DHAVE_PWIZ_MZML_LIB -D_NODEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c pwiz/utility/misc/Filesystem.cpp -o pwiz/utility/misc/Filesystem.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I./boost_aux/ -I./boost/ -I. -D_LARGEFILE_SOURCE -DHAVE_PWIZ_MZML_LIB -D_NODEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c pwiz/utility/misc/TabReader.cpp -o pwiz/utility/misc/TabReader.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I./boost_aux/ -I./boost/ -I. -D_LARGEFILE_SOURCE -DHAVE_PWIZ_MZML_LIB -D_NODEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c pwiz/utility/misc/random_access_compressed_ifstream.cpp -o pwiz/utility/misc/random_access_compressed_ifstream.o In file included from ./boost/thread/thread_only.hpp:17, from ./boost/thread/thread.hpp:12, from ./boost/thread.hpp:13, from pwiz/utility/misc/random_access_compressed_ifstream.cpp:77: ./boost/thread/pthread/thread_data.hpp: In member function ‘void boost::thread_attributes::set_stack_size(std::size_t)’: ./boost/thread/pthread/thread_data.hpp:61:19: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘long int’ [-Wsign-compare] 61 | if (size struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 131 | struct hash_base : std::unary_function {}; | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/locale:41, from ./boost/iostreams/detail/config/codecvt.hpp:63, from ./boost/iostreams/positioning.hpp:21, from pwiz/utility/misc/random_access_compressed_ifstream.hpp:71, from pwiz/utility/misc/random_access_compressed_ifstream.cpp:67: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I./boost_aux/ -I./boost/ -I. -D_LARGEFILE_SOURCE -DHAVE_PWIZ_MZML_LIB -D_NODEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c pwiz/utility/misc/SHA1.cpp -o pwiz/utility/misc/SHA1.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I./boost_aux/ -I./boost/ -I. -D_LARGEFILE_SOURCE -DHAVE_PWIZ_MZML_LIB -D_NODEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c pwiz/utility/misc/SHA1Calculator.cpp -o pwiz/utility/misc/SHA1Calculator.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I./boost_aux/ -I./boost/ -I. -D_LARGEFILE_SOURCE -DHAVE_PWIZ_MZML_LIB -D_NODEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c pwiz/utility/misc/sha1calc.cpp -o pwiz/utility/misc/sha1calc.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I./boost_aux/ -I./boost/ -I. -D_LARGEFILE_SOURCE -DHAVE_PWIZ_MZML_LIB -D_NODEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c pwiz/utility/misc/String.cpp -o pwiz/utility/misc/String.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I./boost_aux/ -I./boost/ -I. -D_LARGEFILE_SOURCE -DHAVE_PWIZ_MZML_LIB -D_NODEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c RcppExports.cpp -o RcppExports.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I./boost_aux/ -I./boost/ -I. -D_LARGEFILE_SOURCE -DHAVE_PWIZ_MZML_LIB -D_NODEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c boost/libs/thread/src/pthread/once.cpp -o boost/libs/thread/src/pthread/once.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I./boost_aux/ -I./boost/ -I. -D_LARGEFILE_SOURCE -DHAVE_PWIZ_MZML_LIB -D_NODEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c boost/libs/thread/src/pthread/thread.cpp -o boost/libs/thread/src/pthread/thread.o In file included from ./boost/thread/thread_only.hpp:17, from boost/libs/thread/src/pthread/thread.cpp:11: ./boost/thread/pthread/thread_data.hpp: In member function ‘void boost::thread_attributes::set_stack_size(std::size_t)’: ./boost/thread/pthread/thread_data.hpp:61:19: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘long int’ [-Wsign-compare] 61 | if (size struct std::unary_function’ is deprecated [-Wdeprecated-declarations] 131 | struct hash_base : std::unary_function {}; | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/14/string:49, from ./boost/thread/exceptions.hpp:20, from ./boost/thread/pthread/thread_data.hpp:10: /usr/include/c++/14/bits/stl_function.h:117:12: note: declared here 117 | struct unary_function | ^~~~~~~~~~~~~~ g++-14 -std=gnu++11 -shared -L/home/hornik/tmp/R-d-gcc-14/lib -Wl,-O1 -o mzR.so RcppPwiz.o RcppPwizModule.o RcppIdent.o RcppIdentModule.o ./boost/libs/system/src/error_code.o ./boost/libs/regex/src/posix_api.o ./boost/libs/regex/src/regex_debug.o ./boost/libs/regex/src/regex.o ./boost/libs/regex/src/wide_posix_api.o ./boost/libs/regex/src/static_mutex.o ./boost/libs/iostreams/src/zlib.o ./boost/libs/iostreams/src/file_descriptor.o ./boost/libs/filesystem/src/operations.o ./boost/libs/filesystem/src/directory.o ./boost/libs/filesystem/src/exception.o ./boost/libs/filesystem/src/path.o ./boost/libs/filesystem/src/unique_path.o ./boost/libs/filesystem/src/utf8_codecvt_facet.o ./boost/libs/chrono/src/chrono.o ./boost/libs/chrono/src/process_cpu_clocks.o ./boost/libs/chrono/src/thread_clock.o ./pwiz/data/msdata/Version.o ./pwiz/data/identdata/Version.o ./pwiz/data/common/MemoryIndex.o ./pwiz/data/common/CVTranslator.o ./pwiz/data/common/cv.o ./pwiz/data/common/ParamTypes.o ./pwiz/data/common/BinaryIndexStream.o ./pwiz/data/common/diff_std.o ./pwiz/data/common/Unimod.o ./pwiz/data/msdata/mz5/Configuration_mz5.o ./pwiz/data/msdata/mz5/Connection_mz5.o ./pwiz/data/msdata/mz5/Datastructures_mz5.o ./pwiz/data/msdata/mz5/ReferenceRead_mz5.o ./pwiz/data/msdata/mz5/ReferenceWrite_mz5.o ./pwiz/data/msdata/mz5/Translator_mz5.o ./pwiz/data/msdata/DefaultReaderList.o ./pwiz/data/msdata/ChromatogramList_mzML.o ./pwiz/data/msdata/ChromatogramList_mz5.o ./pwiz/data/msdata/examples.o ./pwiz/data/msdata/Serializer_mzML.o ./pwiz/data/msdata/Serializer_MSn.o ./pwiz/data/msdata/Reader.o ./pwiz/data/msdata/Serializer_mz5.o ./pwiz/data/msdata/Serializer_MGF.o ./pwiz/data/msdata/Serializer_mzXML.o ./pwiz/data/msdata/SpectrumListBase.o ./pwiz/data/msdata/SpectrumList_MGF.o ./pwiz/data/msdata/SpectrumList_mzML.o ./pwiz/data/msdata/SpectrumList_MSn.o ./pwiz/data/msdata/SpectrumList_mz5.o ./pwiz/data/msdata/BinaryDataEncoder.o ./pwiz/data/msdata/Diff.o ./pwiz/data/msdata/MSData.o ./pwiz/data/msdata/References.o ./pwiz/data/msdata/SpectrumList_mzXML.o ./pwiz/data/msdata/IO.o ./pwiz/data/msdata/SpectrumList_BTDX.o ./pwiz/data/msdata/SpectrumInfo.o ./pwiz/data/msdata/LegacyAdapter.o ./pwiz/data/msdata/SpectrumIterator.o ./pwiz/data/msdata/MSDataFile.o ./pwiz/data/msdata/MSNumpress.o ./pwiz/data/msdata/SpectrumListCache.o ./pwiz/data/msdata/Index_mzML.o ./pwiz/data/msdata/SpectrumWorkerThreads.o ./pwiz/data/identdata/IdentDataFile.o ./pwiz/data/identdata/IdentData.o ./pwiz/data/identdata/DefaultReaderList.o ./pwiz/data/identdata/Reader.o ./pwiz/data/identdata/Serializer_protXML.o ./pwiz/data/identdata/Serializer_pepXML.o ./pwiz/data/identdata/Serializer_mzid.o ./pwiz/data/identdata/IO.o ./pwiz/data/identdata/References.o ./pwiz/data/identdata/MascotReader.o ./pwiz/data/proteome/Modification.o ./pwiz/data/proteome/Digestion.o ./pwiz/data/proteome/Peptide.o ./pwiz/data/proteome/AminoAcid.o ./pwiz/utility/minimxml/XMLWriter.o ./pwiz/utility/minimxml/SAXParser.o ./pwiz/utility/chemistry/Chemistry.o ./pwiz/utility/chemistry/ChemistryData.o ./pwiz/utility/chemistry/MZTolerance.o ./pwiz/utility/misc/IntegerSet.o ./pwiz/utility/misc/Base64.o ./pwiz/utility/misc/BinaryData.o ./pwiz/utility/misc/IterationListener.o ./pwiz/utility/misc/MSIHandler.o ./pwiz/utility/misc/Filesystem.o ./pwiz/utility/misc/TabReader.o ./pwiz/utility/misc/random_access_compressed_ifstream.o ./pwiz/utility/misc/SHA1.o ./pwiz/utility/misc/SHA1Calculator.o ./pwiz/utility/misc/sha1calc.o ./pwiz/utility/misc/String.o ./RcppExports.o ./boost/libs/thread/src/pthread/once.o ./boost/libs/thread/src/pthread/thread.o -lpthread /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/lib/libhdf5_cpp.a /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rhdf5lib/lib/libhdf5.a -lcrypto -lcurl -lsz -laec -lz -ldl -lm -L/home/hornik/tmp/R-d-gcc-14/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmprJcsBR/R.INSTALL317ad41b37d11c/mzR/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-mzR/00new/mzR/libs ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (mzR) begin installing package ‘MSnbase’ * installing *source* package ‘MSnbase’ ... ** this is package ‘MSnbase’ version ‘2.34.1’ ** using staged installation ** libs using C compiler: ‘gcc-14 (Debian 14.2.0-19) 14.2.0’ using C++ compiler: ‘g++-14 (Debian 14.2.0-19) 14.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpYZF4CI/R.INSTALL31b13d393712f7/MSnbase/src' g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c RcppExports.cpp -o RcppExports.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c Spectrum1_class.c -o Spectrum1_class.o Spectrum1_class.c:8:13: warning: ‘_new_Spectrum1’ defined but not used [-Wunused-function] 8 | static SEXP _new_Spectrum1(SEXP msLevel, SEXP peaksCount, SEXP rt, | ^~~~~~~~~~~~~~ gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c Spectrum2_class.c -o Spectrum2_class.o Spectrum2_class.c:9:13: warning: ‘_new_Spectrum2’ defined but not used [-Wunused-function] 9 | static SEXP _new_Spectrum2(SEXP msLevel, SEXP peaksCount, SEXP rt, | ^~~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c imp_neighbour_avg.cpp -o imp_neighbour_avg.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c utils.c -o utils.o utils.c: In function ‘compar_double_dd_for_stable_asc_order’: utils.c:92:15: warning: unused variable ‘ret’ [-Wunused-variable] 92 | int i1, i2, ret; | ^~~ utils.c: In function ‘compar_double_dd_for_stable_desc_order’: utils.c:107:15: warning: unused variable ‘ret’ [-Wunused-variable] 107 | int i1, i2, ret; | ^~~ utils.c: In function ‘compar_double_asc_order’: utils.c:123:18: warning: unused variable ‘ret’ [-Wunused-variable] 123 | double d1, d2, ret; | ^~~ utils.c: In function ‘compar_double_desc_order’: utils.c:133:18: warning: unused variable ‘ret’ [-Wunused-variable] 133 | double d1, d2, ret; | ^~~ utils.c: At top level: utils.c:131:12: warning: ‘compar_double_desc_order’ defined but not used [-Wunused-function] 131 | static int compar_double_desc_order(const void *p1, const void *p2) | ^~~~~~~~~~~~~~~~~~~~~~~~ utils.c:121:12: warning: ‘compar_double_asc_order’ defined but not used [-Wunused-function] 121 | static int compar_double_asc_order(const void *p1, const void *p2) | ^~~~~~~~~~~~~~~~~~~~~~~ g++-14 -std=gnu++17 -shared -L/home/hornik/tmp/R-d-gcc-14/lib -Wl,-O1 -o MSnbase.so RcppExports.o Spectrum1_class.o Spectrum2_class.o imp_neighbour_avg.o utils.o -L/home/hornik/tmp/R-d-gcc-14/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpYZF4CI/R.INSTALL31b13d393712f7/MSnbase/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-MSnbase/00new/MSnbase/libs ** R ** data *** moving datasets to lazyload DB Creating a new generic function for ‘trimws’ in package ‘MSnbase’ in method for ‘coerce’ with signature ‘"IBSpectra","MSnSet"’: no definition for class “IBSpectra” in method for ‘plotMzDelta’ with signature ‘"mzRramp"’: no definition for class “mzRramp” ** inst ** byte-compile and prepare package for lazy loading Creating a new generic function for ‘trimws’ in package ‘MSnbase’ in method for ‘coerce’ with signature ‘"IBSpectra","MSnSet"’: no definition for class “IBSpectra” in method for ‘plotMzDelta’ with signature ‘"mzRramp"’: no definition for class “mzRramp” ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (MSnbase) begin installing package ‘xcms’ * installing *source* package ‘xcms’ ... ** this is package ‘xcms’ version ‘4.6.0’ ** using staged installation ** libs using C compiler: ‘gcc-14 (Debian 14.2.0-19) 14.2.0’ using C++ compiler: ‘g++-14 (Debian 14.2.0-19) 14.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpsDXRjv/R.INSTALL31b286300805fa/xcms/src' rm -f massifquant/xcms_massifquant.o massifquant/TrMgr.o massifquant/Tracker.o massifquant/SegProc.o massifquant/DataKeeper.o massifquant/OpOverload.o obiwarp/mat.o obiwarp/vec.o obiwarp/xcms_dynprog.o obiwarp/xcms_lmat.o xcms_obiwarp.o fastMatch.o mzClust_hclust.o mzROI.o util.o xcms.o binners.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c massifquant/xcms_massifquant.cpp -o massifquant/xcms_massifquant.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c massifquant/TrMgr.cpp -o massifquant/TrMgr.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c massifquant/Tracker.cpp -o massifquant/Tracker.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c massifquant/SegProc.cpp -o massifquant/SegProc.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c massifquant/DataKeeper.cpp -o massifquant/DataKeeper.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c massifquant/OpOverload.cpp -o massifquant/OpOverload.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c obiwarp/mat.cpp -o obiwarp/mat.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c obiwarp/vec.cpp -o obiwarp/vec.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c obiwarp/xcms_dynprog.cpp -o obiwarp/xcms_dynprog.o obiwarp/xcms_dynprog.cpp: In member function ‘void DynProg::find_path(VEC::MatF&, VEC::VecF&, int, float, float, int, float)’: obiwarp/xcms_dynprog.cpp:1113:9: warning: variable ‘bestscore’ set but not used [-Wunused-but-set-variable] 1113 | float bestscore; | ^~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c obiwarp/xcms_lmat.cpp -o obiwarp/xcms_lmat.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c xcms_obiwarp.cpp -o xcms_obiwarp.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c fastMatch.c -o fastMatch.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c mzClust_hclust.c -o mzClust_hclust.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c mzROI.c -o mzROI.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c util.c -o util.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c xcms.c -o xcms.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c binners.c -o binners.o binners.c: In function ‘_breaks_on_binSize’: binners.c:357:7: warning: unused variable ‘idx’ [-Wunused-variable] 357 | int idx = 0; | ^~~ g++-14 -std=gnu++17 -shared -L/home/hornik/tmp/R-d-gcc-14/lib -Wl,-O1 -o xcms.so massifquant/xcms_massifquant.o massifquant/TrMgr.o massifquant/Tracker.o massifquant/SegProc.o massifquant/DataKeeper.o massifquant/OpOverload.o obiwarp/mat.o obiwarp/vec.o obiwarp/xcms_dynprog.o obiwarp/xcms_lmat.o xcms_obiwarp.o fastMatch.o mzClust_hclust.o mzROI.o util.o xcms.o binners.o -L/home/hornik/tmp/R-d-gcc-14/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpsDXRjv/R.INSTALL31b286300805fa/xcms/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-xcms/00new/xcms/libs ** R ** data ** inst ** byte-compile and prepare package for lazy loading Creating a new generic function for ‘group’ in package ‘xcms’ Creating a new generic function for ‘sigma’ in package ‘xcms’ ** help *** installing help indices *** copying figures ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (xcms) checking BiocManager_1.30.26.tar.gz ... checking aroma.core_3.3.1.tar.gz ... checking anyLib_1.0.5.tar.gz ... checking BayesianPlatformDesignTimeTrend_1.2.3.tar.gz ... checking CALANGO_1.0.20.tar.gz ... checking CAMML_1.0.0.tar.gz ... checking FastUtils_0.2.1.tar.gz ... checking ggm_2.5.1.tar.gz ... checking HiCociety_0.1.38.tar.gz ... checking gpcp_0.1.0.tar.gz ... checking influential_2.2.9.tar.gz ... checking librarian_1.8.1.tar.gz ... checking lipidomeR_0.1.2.tar.gz ... checking mergen_0.2.1.tar.gz ... checking NMF_0.28.tar.gz ... checking MuPETFlow_0.1.1.tar.gz ... checking pkgndep_1.99.3.tar.gz ... checking rafalib_1.0.4.tar.gz ... checking RCPA_0.2.6.tar.gz ... checking riskmetric_0.2.5.tar.gz ... checking rjtools_1.0.18.tar.gz ... checking rvcheck_0.2.1.tar.gz ... checking rworkflows_1.0.6.tar.gz ... checking SCRIP_1.0.0.tar.gz ... checking tinyarray_2.4.3.tar.gz ... checking umiAnalyzer_1.0.0.tar.gz ... checking available_1.1.0.tar.gz ... checking bbl_1.0.0.tar.gz ... checking pacman_0.5.1.tar.gz ... checking metacoder_0.3.8.tar.gz ... checking ggsector_1.7.0.tar.gz ... checking LCMSQA_1.0.2.tar.gz ... checking pliman_3.0.0.tar.gz ... checking BeeBDC_1.2.1.tar.gz ... checking GeneSelectR_1.0.1.tar.gz ... checking orthGS_0.1.8.tar.gz ... checking CytoProfile_0.2.1.tar.gz ... checking demulticoder_0.1.2.tar.gz ... checking maGUI_4.0.tar.gz ... checking devtools_2.4.5.tar.gz ... checking ibawds_1.1.0.tar.gz ... checking TcGSA_0.12.10.tar.gz ... checking pathwayTMB_0.1.3.tar.gz ... checking ClustAssess_1.1.0.tar.gz ... checking tidyHeatmap_1.11.6.tar.gz ... checking RcmdrPlugin.BiclustGUI_1.1.3.1.tar.gz ... checking MetabolSSMF_0.1.0.tar.gz ... checking pkggraph_0.2.3.tar.gz ... checking SRTsim_0.99.7.tar.gz ... checking multiclassPairs_0.4.3.tar.gz ... checking bulkAnalyseR_1.1.0.tar.gz ... checking pcutils_0.2.8.tar.gz ... checking deepdep_0.4.3.tar.gz ... checking MiscMetabar_0.14.2.tar.gz ... checking genBaRcode_1.2.8.tar.gz ... checking discourseGT_1.2.0.tar.gz ... checking RepeatedHighDim_2.4.0.tar.gz ... checking rsconnect_1.4.1.tar.gz ... checking PCMBase_1.2.14.tar.gz ... checking updateme_0.1.0.tar.gz ... checking switchr_0.14.8.tar.gz ... checking manynet_1.3.2.tar.gz ... checking CNVScope_3.7.2.tar.gz ... checking renv_1.1.4.tar.gz ... checking wrswoR_1.1.1.tar.gz ... checking SeuratExplorer_0.1.0.tar.gz ... Depends: Package: BiocManager Imports: utils Timings: user system elapsed BiocManager 35.486 4.247 45.699 Results: Check status summary: NOTE OK Source packages 0 1 Reverse depends 10 55 Check results summary: BiocManager ... OK rdepends_anyLib ... OK rdepends_aroma.core ... NOTE * checking Rd cross-references ... NOTE rdepends_available ... OK rdepends_BayesianPlatformDesignTimeTrend ... OK rdepends_bbl ... OK rdepends_BeeBDC ... NOTE * checking DESCRIPTION meta-information ... NOTE rdepends_bulkAnalyseR ... OK rdepends_CALANGO ... OK rdepends_CAMML ... NOTE * checking Rd cross-references ... NOTE rdepends_ClustAssess ... OK rdepends_CNVScope ... OK rdepends_CytoProfile ... OK rdepends_deepdep ... OK rdepends_demulticoder ... OK rdepends_devtools ... NOTE * checking Rd cross-references ... NOTE rdepends_discourseGT ... OK rdepends_FastUtils ... OK rdepends_genBaRcode ... OK rdepends_GeneSelectR ... OK rdepends_ggm ... NOTE * checking Rd cross-references ... NOTE rdepends_ggsector ... OK rdepends_gpcp ... OK rdepends_HiCociety ... OK rdepends_ibawds ... OK rdepends_influential ... OK rdepends_LCMSQA ... OK rdepends_librarian ... OK rdepends_lipidomeR ... OK rdepends_maGUI ... OK rdepends_manynet ... OK rdepends_mergen ... OK rdepends_MetabolSSMF ... OK rdepends_metacoder ... OK rdepends_MiscMetabar ... OK rdepends_multiclassPairs ... OK rdepends_MuPETFlow ... OK rdepends_NMF ... OK rdepends_orthGS ... OK rdepends_pacman ... OK rdepends_pathwayTMB ... OK rdepends_PCMBase ... NOTE * checking Rd cross-references ... NOTE rdepends_pcutils ... OK rdepends_pkggraph ... NOTE * checking package subdirectories ... NOTE rdepends_pkgndep ... OK rdepends_pliman ... OK rdepends_rafalib ... OK rdepends_RcmdrPlugin.BiclustGUI ... NOTE * checking Rd cross-references ... NOTE rdepends_RCPA ... OK rdepends_renv ... OK rdepends_RepeatedHighDim ... OK rdepends_riskmetric ... OK rdepends_rjtools ... OK rdepends_rsconnect ... OK rdepends_rvcheck ... OK rdepends_rworkflows ... OK rdepends_SCRIP ... OK rdepends_SeuratExplorer ... OK rdepends_SRTsim ... OK rdepends_switchr ... OK rdepends_TcGSA ... NOTE * checking Rd cross-references ... NOTE rdepends_tidyHeatmap ... OK rdepends_tinyarray ... OK rdepends_umiAnalyzer ... OK rdepends_updateme ... NOTE * checking DESCRIPTION meta-information ... NOTE rdepends_wrswoR ... OK Check results changes: Package: CNVScope Check: CRAN incoming feasibility Old result: NOTE Package: influential Check: CRAN incoming feasibility Old result: NOTE Package: lipidomeR Check: CRAN incoming feasibility Old result: NOTE Package: multiclassPairs Check: CRAN incoming feasibility Old result: NOTE Package: pacman Check: CRAN incoming feasibility Old result: NOTE Package: RcmdrPlugin.BiclustGUI Check: CRAN incoming feasibility Old result: NOTE Package: SCRIP Check: CRAN incoming feasibility Old result: NOTE Package: switchr Check: CRAN incoming feasibility Old result: NOTE