downloading reverse dependencies ... downloading bahc_0.3.0.tar.gz ... ok downloading bioregion_1.2.0.tar.gz ... ok downloading ClustAssess_1.0.0.tar.gz ... ok downloading cstab_0.2-2.tar.gz ... ok downloading disto_0.2.0.tar.gz ... ok downloading funMoDisco_1.0.0.tar.gz ... ok downloading heatmap3_1.1.9.tar.gz ... ok downloading HierPortfolios_1.0.1.tar.gz ... ok downloading hypervolume_3.1.5.tar.gz ... ok downloading ICGE_0.4.2.tar.gz ... ok downloading iheatmapr_0.7.1.tar.gz ... ok downloading maotai_0.2.6.tar.gz ... ok downloading mappeR_2.0.2.tar.gz ... ok downloading MetProc_1.0.1.tar.gz ... ok downloading MLGL_1.0.0.tar.gz ... ok downloading mousetrap_3.2.3.tar.gz ... ok downloading MRPC_3.1.0.tar.gz ... ok downloading NPflow_0.13.5.tar.gz ... ok downloading pagoda2_1.0.12.tar.gz ... ok downloading PropClust_1.4-7.tar.gz ... ok downloading RAFS_0.2.5.tar.gz ... ok downloading SPARTAAS_1.2.4.tar.gz ... ok downloading SpatialVx_1.0-3.tar.gz ... ok downloading visxhclust_1.1.0.tar.gz ... ok downloading VoxR_1.0.0.tar.gz ... ok downloading WeightedCluster_1.8-1.tar.gz ... ok downloading WGCNA_1.73.tar.gz ... ok downloading familiar_1.5.0.tar.gz ... ok downloading FCPS_1.3.4.tar.gz ... ok downloading hyperSpec_0.100.2.tar.gz ... ok downloading IncDTW_1.1.4.4.tar.gz ... ok downloading linkcomm_1.0-14.tar.gz ... ok downloading MapperAlgo_1.0.2.tar.gz ... ok downloading TRexSelector_1.0.0.tar.gz ... ok installing dependencies ‘ABCanalysis’, ‘ADPclust’, ‘cclust’, ‘CEC’, ‘clusterability’, ‘clustrd’, ‘clustvarsel’, ‘cstab’, ‘DatabionicSwarm’, ‘dendsort’, ‘densityClust’, ‘DirichletReg’, ‘distillery’, ‘drat’, ‘EMCluster’, ‘explor’, ‘fastcluster’, ‘fastkmedoids’, ‘GeneralizedUmatrix’, ‘genie’, ‘Gmedian’, ‘gprofiler2’, ‘harmonicmeanp’, ‘HDclassif’, ‘isotree’, ‘laGP’, ‘leiden’, ‘MCL’, ‘MDFS’, ‘minet’, ‘mlpack’, ‘monocle3’, ‘mstknnclust’, ‘N2R’, ‘NetworkToolbox’, ‘orclus’, ‘org.Dr.eg.db’, ‘partitionComparison’, ‘power.transform’, ‘PPCI’, ‘praznik’, ‘prclust’, ‘ProjectionBasedClustering’, ‘protoclust’, ‘qualpalr’, ‘readbulk’, ‘RMTstat’, ‘Rook’, ‘rstream’, ‘rucrdtw’, ‘scatterD3’, ‘sccore’, ‘scde’, ‘SharedObject’, ‘shinyLP’, ‘smatr’, ‘smoothie’, ‘sparcl’, ‘Spectrum’, ‘splitTools’, ‘subspace’, ‘tclust’, ‘tlars’, ‘turboEM’, ‘VarSelLCM’, ‘vegclust’, ‘vioplot’ Warning: packages ‘monocle3’, ‘clusterability’ 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 ‘RcppSpdlog’, ‘extRemes’, ‘FMStable’, ‘ggvis’, ‘genieclust’, ‘IsingFit’ begin installing package ‘RcppSpdlog’ begin installing package ‘FMStable’ begin installing package ‘ggvis’ begin installing package ‘genieclust’ begin installing package ‘IsingFit’ begin installing package ‘fastkmedoids’ begin installing package ‘Gmedian’ begin installing package ‘gprofiler2’ begin installing package ‘leiden’ begin installing package ‘qualpalr’ begin installing package ‘shinyLP’ begin installing package ‘vioplot’ begin installing package ‘SharedObject’ begin installing package ‘readbulk’ begin installing package ‘dendsort’ begin installing package ‘drat’ begin installing package ‘RMTstat’ begin installing package ‘Rook’ begin installing package ‘sccore’ begin installing package ‘org.Dr.eg.db’ begin installing package ‘splitTools’ begin installing package ‘MDFS’ begin installing package ‘scatterD3’ begin installing package ‘smoothie’ begin installing package ‘smatr’ begin installing package ‘turboEM’ begin installing package ‘distillery’ begin installing package ‘vegclust’ * installing *source* package ‘readbulk’ ... ** this is package ‘readbulk’ version ‘1.1.4’ ** package ‘readbulk’ 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 (readbulk) begin installing package ‘DirichletReg’ * installing *source* package ‘splitTools’ ... ** this is package ‘splitTools’ version ‘1.0.1’ ** package ‘splitTools’ 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 (splitTools) begin installing package ‘minet’ * installing *source* package ‘RMTstat’ ... ** this is package ‘RMTstat’ version ‘0.3.1’ ** package ‘RMTstat’ 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 (RMTstat) begin installing package ‘rstream’ * installing *source* package ‘dendsort’ ... ** this is package ‘dendsort’ version ‘0.3.4’ ** package ‘dendsort’ 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 (dendsort) begin installing package ‘isotree’ * installing *source* package ‘drat’ ... ** this is package ‘drat’ version ‘0.2.5’ ** package ‘drat’ 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 (drat) begin installing package ‘laGP’ * 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 ‘power.transform’ * installing *source* package ‘scatterD3’ ... ** this is package ‘scatterD3’ version ‘1.0.1’ ** package ‘scatterD3’ 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 (scatterD3) begin installing package ‘praznik’ * installing *source* package ‘distillery’ ... ** this is package ‘distillery’ version ‘1.2-2’ ** package ‘distillery’ 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 (distillery) begin installing package ‘mlpack’ * installing *source* package ‘FMStable’ ... ** this is package ‘FMStable’ version ‘0.1-4’ ** package ‘FMStable’ 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/Rtmp5kHif5/R.INSTALL976d6d5c80c8/FMStable/src' gcc-14 -std=gnu23 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c FMStable.c -o FMStable.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R/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/lib -Wl,-O1 -o FMStable.so FMStable.o init.o -L/home/hornik/tmp/R/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/Rtmp5kHif5/R.INSTALL976d6d5c80c8/FMStable/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-FMStable/00new/FMStable/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 (FMStable) begin installing package ‘cclust’ * 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 ‘MCL’ * 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 ‘ADPclust’ * installing *source* package ‘smatr’ ... ** this is package ‘smatr’ version ‘3.4-8’ ** package ‘smatr’ 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 ** 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 (smatr) begin installing package ‘orclus’ * 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/RtmpVSqG3W/R.INSTALL977397f1fa7cf/Rook/src' gcc-14 -std=gnu23 -I"/home/hornik/tmp/R/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/lib -Wl,-O1 -o Rook.so rook.o -L/home/hornik/tmp/R/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpVSqG3W/R.INSTALL977397f1fa7cf/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 ‘ABCanalysis’ * installing *source* package ‘cclust’ ... ** this is package ‘cclust’ version ‘0.6-26’ ** package ‘cclust’ 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/RtmpLLuAMl/R.INSTALL97eea2e57a8a0/cclust/src' gcc-14 -std=gnu23 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c cclust.c -o cclust.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R/include" -DNDEBUG -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/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/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c median.c -o median.o gcc-14 -std=gnu23 -shared -L/home/hornik/tmp/R/lib -Wl,-O1 -o cclust.so cclust.o count.o init.o median.o -L/home/hornik/tmp/R/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpLLuAMl/R.INSTALL97eea2e57a8a0/cclust/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-cclust/00new/cclust/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 (cclust) begin installing package ‘EMCluster’ * installing *source* package ‘rstream’ ... ** this is package ‘rstream’ version ‘1.3.7’ ** package ‘rstream’ 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/Rtmpt62JJJ/R.INSTALL97b7a7f9b6ea6/rstream/src' gcc-14 -std=gnu23 -I"/home/hornik/tmp/R/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_RNG.c -o R_RNG.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R/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_RngStreams.c -o R_RngStreams.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c RngStreams.c -o RngStreams.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R/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/lib -Wl,-O1 -o rstream.so R_RNG.o R_RngStreams.o RngStreams.o init.o -L/home/hornik/tmp/R/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/Rtmpt62JJJ/R.INSTALL97b7a7f9b6ea6/rstream/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-rstream/00new/rstream/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 (rstream) begin installing package ‘GeneralizedUmatrix’ * installing *source* package ‘orclus’ ... ** this is package ‘orclus’ version ‘0.2-6’ ** package ‘orclus’ 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 (orclus) begin installing package ‘mstknnclust’ * installing *source* package ‘ADPclust’ ... ** this is package ‘ADPclust’ version ‘0.7’ ** package ‘ADPclust’ 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 (ADPclust) begin installing package ‘densityClust’ * 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 ‘tclust’ * installing *source* package ‘ABCanalysis’ ... ** this is package ‘ABCanalysis’ version ‘1.2.1’ ** package ‘ABCanalysis’ 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 (ABCanalysis) begin installing package ‘Spectrum’ * installing *source* package ‘DirichletReg’ ... ** this is package ‘DirichletReg’ version ‘0.7-1’ ** package ‘DirichletReg’ 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/RtmpgEsMzd/R.INSTALL97a6a4a09c258/DirichletReg/src' gcc-14 -std=gnu23 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c ddirichlet.c -o ddirichlet.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R/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/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c rdirichlet.c -o rdirichlet.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c wght_LL.c -o wght_LL.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c wght_LL_grad_alternative.c -o wght_LL_grad_alternative.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c wght_LL_grad_common.c -o wght_LL_grad_common.o gcc-14 -std=gnu23 -shared -L/home/hornik/tmp/R/lib -Wl,-O1 -o DirichletReg.so ddirichlet.o init.o rdirichlet.o wght_LL.o wght_LL_grad_alternative.o wght_LL_grad_common.o -L/home/hornik/tmp/R/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpgEsMzd/R.INSTALL97a6a4a09c258/DirichletReg/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-DirichletReg/00new/DirichletReg/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 (DirichletReg) begin installing package ‘protoclust’ * installing *source* package ‘mstknnclust’ ... ** this is package ‘mstknnclust’ version ‘0.3.2’ ** package ‘mstknnclust’ 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 (mstknnclust) begin installing package ‘PPCI’ * installing *source* package ‘power.transform’ ... ** this is package ‘power.transform’ version ‘1.0.1’ ** package ‘power.transform’ 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 (power.transform) begin installing package ‘clustrd’ * installing *source* package ‘minet’ ... ** this is package ‘minet’ version ‘3.66.0’ ** 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/RtmpjXvNvM/R.INSTALL97b6926ff2a55/minet/src' g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c aracne.cpp -o aracne.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c clr.cpp -o clr.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c minet.cpp -o minet.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c mrnet.cpp -o mrnet.o mrnet.cpp: In function ‘SEXPREC* mrnet(SEXP, SEXP)’: mrnet.cpp:190:34: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 190 | for( int l=0; l Xoroshiro128Random::randomSample(int, int)’: pam.h:82:35: warning: comparison of integer expressions of different signedness: ‘std::unordered_map::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 82 | while (sample_dict.size() < samplesize) { | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ pam.h: At global scope: pam.h:465:25: warning: ‘virtual Assignment& Assignment::operator=(const Assignment&)’ was hidden [-Woverloaded-virtual=] 465 | virtual Assignment& operator=(const Assignment& other); | ^~~~~~~~ pam.h:533:7: note: by ‘FastAssignment& FastAssignment::operator=(const FastAssignment&)’ 533 | class FastAssignment : public Assignment | ^~~~~~~~~~~~~~ pam.cpp: In member function ‘double LAB::getMinDist(int, std::vector&, std::vector&)’: pam.cpp:132:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 132 | for (int i=0; i LAB::run(const std::vector&, int)’: pam.cpp:166:28: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 166 | for (int j=0; j::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 191 | while(medids.size() < k) { | ~~~~~~~~~~~~~~^~~ pam.cpp:203:28: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 203 | for (int j=0; j&)’: pam.cpp:374:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 374 | for (int j=0; j&, std::vector&, std::vector&, std::vector&)’: pam.cpp:522:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 522 | for (int j=0; j::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 527 | for(int i = 0; i < cost.size(); i++) { | ~~^~~~~~~~~~~~~ pam.cpp: In member function ‘virtual void FastPAM::computeReassignmentCost(int, std::vector&)’: pam.cpp:566:37: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 566 | for(int pi = pj + 1; pi < cost.size(); pi++) { | ~~~^~~~~~~~~~~~~ pam.cpp: In member function ‘virtual double FastPAM::assignToNearestCluster(std::vector&)’: pam.cpp:608:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 608 | for (int h=0; h< means.size(); ++h) { | ~^~~~~~~~~~~~~~ pam.cpp: In member function ‘int FastPAM::argmin(const std::vector&)’: pam.cpp:639:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 639 | for(int i = 0; i < best.size(); i++) { | ~~^~~~~~~~~~~~~ pam.cpp: In member function ‘int FastPAM::updateSecondNearest(int, std::vector&, int, double, int)’: pam.cpp:716:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 716 | for (int i=0; i PAMUtils::randomSample(Xoroshiro128Random&, int, int, const std::vector&)’: pam.cpp:740:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 740 | for (int i=0; i::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 748 | for (int i=0; i::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 756 | if (sample_dict.size() < samplesize) { | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ pam.cpp:761:58: warning: comparison of integer expressions of different signedness: ‘std::unordered_map::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 761 | for (int i=0; i::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 822 | for (int k=0; k&, std::vector&, std::vector&, std::vector&)’: pam.cpp:844:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 844 | for (int j=0; j::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 856 | for (int i=0; i::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 916 | for (int k=0; k::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1119 | for(int i = 0; i < medoids.size(); i++) { | ~~^~~~~~~~~~~~~~~~ pam.cpp: In member function ‘virtual bool Assignment::hasMedoid(int)’: pam.cpp:1157:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1157 | for (int i=0; i&, int)’: pam.cpp:344:30: warning: ‘bestid’ may be used uninitialized [-Wmaybe-uninitialized] 344 | medoids[bestcluster] = bestid; pam.cpp:313:9: note: ‘bestid’ was declared here 313 | int bestid; | ^~~~~~ g++-14 -std=gnu++11 -I"/home/hornik/tmp/R/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 rcpp_fastkmedoids.cpp -o rcpp_fastkmedoids.o In file included from rcpp_fastkmedoids.cpp:19: pam.h: In member function ‘int Xoroshiro128Random::nextInt(int)’: pam.h:57:55: warning: suggest parentheses around ‘-’ in operand of ‘&’ [-Wparentheses] 57 | int r = (int)((n & -n) == n ? nextLong() & n - 1 // power of two | ~~^~~ pam.h: In member function ‘std::vector Xoroshiro128Random::randomSample(int, int)’: pam.h:82:35: warning: comparison of integer expressions of different signedness: ‘std::unordered_map::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 82 | while (sample_dict.size() < samplesize) { | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ pam.h: At global scope: pam.h:465:25: warning: ‘virtual Assignment& Assignment::operator=(const Assignment&)’ was hidden [-Woverloaded-virtual=] 465 | virtual Assignment& operator=(const Assignment& other); | ^~~~~~~~ pam.h:533:7: note: by ‘FastAssignment& FastAssignment::operator=(const FastAssignment&)’ 533 | class FastAssignment : public Assignment | ^~~~~~~~~~~~~~ g++-14 -std=gnu++11 -shared -L/home/hornik/tmp/R/lib -Wl,-O1 -o fastkmedoids.so RcppExports.o pam.o rcpp_fastkmedoids.o -L/home/hornik/tmp/R/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpmYdcP4/R.INSTALL9770a5d1655c8/fastkmedoids/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-fastkmedoids/00new/fastkmedoids/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 (fastkmedoids) begin installing package ‘extRemes’ * installing *source* package ‘Spectrum’ ... ** this is package ‘Spectrum’ version ‘1.1’ ** package ‘Spectrum’ 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 (Spectrum) begin installing package ‘explor’ * 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/RtmpG7dyCi/R.INSTALL97c0161f64fb7/laGP/src' /home/hornik/tmp/R/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/RtmpG7dyCi/R.INSTALL97c0161f64fb7/laGP/src' gcc-14 -std=gnu23 -I"/home/hornik/tmp/R/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/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/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/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/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/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/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/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/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/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/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/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/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/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/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/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/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/lib -lRblas -lgfortran -lm -lquadmath -fopenmp -L/home/hornik/tmp/R/lib -lR make[2]: Leaving directory '/home/hornik/tmp/scratch/RtmpG7dyCi/R.INSTALL97c0161f64fb7/laGP/src' make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpG7dyCi/R.INSTALL97c0161f64fb7/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 ‘harmonicmeanp’ * installing *source* package ‘partitionComparison’ ... ** this is package ‘partitionComparison’ version ‘0.2.6’ ** package ‘partitionComparison’ 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 (partitionComparison) begin installing package ‘subspace’ * installing *source* package ‘harmonicmeanp’ ... ** this is package ‘harmonicmeanp’ version ‘3.0.1’ ** package ‘harmonicmeanp’ 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 (harmonicmeanp) begin installing package ‘NetworkToolbox’ * installing *source* package ‘fastcluster’ ... ** this is package ‘fastcluster’ version ‘1.3.0’ ** 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/Rtmp6dm5Z0/R.INSTALL9869234c66df9/fastcluster/src' g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c fastcluster_R.cpp -o fastcluster_R.o In file included from fastcluster_R.cpp:24: fastcluster.cpp:62: warning: ignoring ‘#pragma STDC FENV_ACCESS’ [-Wunknown-pragmas] 62 | #pragma STDC FENV_ACCESS ON fastcluster.cpp:63: warning: ignoring ‘#pragma messag ’ [-Wunknown-pragmas] 63 | #pragma messag("If there is a warning about unknown #pragma STDC FENV_ACCESS, this can be ignored.") fastcluster.cpp:53:35: note: ‘#pragma message: Use fenv header.’ 53 | #pragma message("Use fenv header.") | ^ g++-14 -std=gnu++17 -shared -L/home/hornik/tmp/R/lib -Wl,-O1 -o fastcluster.so fastcluster_R.o -L/home/hornik/tmp/R/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/Rtmp6dm5Z0/R.INSTALL9869234c66df9/fastcluster/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-fastcluster/00new/fastcluster/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 (fastcluster) begin installing package ‘cstab’ * installing *source* package ‘MDFS’ ... ** this is package ‘MDFS’ version ‘1.5.5’ ** package ‘MDFS’ successfully unpacked and MD5 sums checked ** using staged installation MDFS: Running configure ** 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/Rtmp3y95LZ/R.INSTALL9773f6931eb62/MDFS/src' g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fvisibility=hidden -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c cpu/discretize.cpp -o cpu/discretize.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fvisibility=hidden -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c cpu/common.cpp -o cpu/common.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fvisibility=hidden -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c r_init.cpp -o r_init.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fvisibility=hidden -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c r_interface.cpp -o r_interface.o g++-14 -std=gnu++17 -shared -L/home/hornik/tmp/R/lib -Wl,-O1 -o MDFS.so cpu/discretize.o cpu/common.o r_init.o r_interface.o -fopenmp -L/home/hornik/tmp/R/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/Rtmp3y95LZ/R.INSTALL9773f6931eb62/MDFS/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-MDFS/00new/MDFS/libs ** 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 ** 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 (MDFS) * installing *source* package ‘densityClust’ ... ** this is package ‘densityClust’ version ‘0.3.3’ ** package ‘densityClust’ 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/Rtmpi3Gvyt/R.INSTALL982324d63eadd/densityClust/src' g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/cpp11/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/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/cpp11/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c distanceToPeak.cpp -o distanceToPeak.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/cpp11/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c findDistValueByRowColInd.cpp -o findDistValueByRowColInd.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/cpp11/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c localDensity.cpp -o localDensity.o g++-14 -std=gnu++17 -shared -L/home/hornik/tmp/R/lib -Wl,-O1 -o densityClust.so cpp11.o distanceToPeak.o findDistValueByRowColInd.o localDensity.o -L/home/hornik/tmp/R/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/Rtmpi3Gvyt/R.INSTALL982324d63eadd/densityClust/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-densityClust/00new/densityClust/libs ** 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 ** 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 (densityClust) * installing *source* package ‘clustvarsel’ ... ** this is package ‘clustvarsel’ version ‘2.3.5’ ** package ‘clustvarsel’ 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 (clustvarsel) * 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/Rtmp0NHKMG/R.INSTALL9770c3a83f5f4/qualpalr/src' g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/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/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/lib -Wl,-O1 -o qualpalr.so RcppExports.o qualpal.o -fopenmp -llapack -L/home/hornik/tmp/R/lib -lRblas -lgfortran -lm -lquadmath -L/home/hornik/tmp/R/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/Rtmp0NHKMG/R.INSTALL9770c3a83f5f4/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) * installing *source* package ‘PPCI’ ... ** this is package ‘PPCI’ version ‘0.1.5’ ** package ‘PPCI’ 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 (PPCI) * installing *source* package ‘HDclassif’ ... ** this is package ‘HDclassif’ version ‘2.2.2’ ** package ‘HDclassif’ successfully unpacked and MD5 sums checked ** 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 (HDclassif) * installing *source* package ‘subspace’ ... ** this is package ‘subspace’ version ‘1.0.4’ ** package ‘subspace’ 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 ** 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 (subspace) * installing *source* package ‘prclust’ ... ** this is package ‘prclust’ version ‘1.3’ ** package ‘prclust’ 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/Rtmp62k3hv/R.INSTALL98478168d91c7/prclust/src' g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/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 ADMM_OrignialPRclust2.cpp -o ADMM_OrignialPRclust2.o ADMM_OrignialPRclust2.cpp: In function ‘double cal_S(Rcpp::NumericMatrix, Rcpp::NumericMatrix, Rcpp::NumericMatrix, double, double, double, int, int, int)’: ADMM_OrignialPRclust2.cpp:574:12: warning: ‘out’ may be used uninitialized [-Wmaybe-uninitialized] 574 | return out; | ^~~ ADMM_OrignialPRclust2.cpp:496:12: note: ‘out’ was declared here 496 | double out; | ^~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/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 -shared -L/home/hornik/tmp/R/lib -Wl,-O1 -o prclust.so ADMM_OrignialPRclust2.o RcppExports.o -L/home/hornik/tmp/R/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/Rtmp62k3hv/R.INSTALL98478168d91c7/prclust/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-prclust/00new/prclust/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 (prclust) * 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) * installing *source* package ‘explor’ ... ** this is package ‘explor’ version ‘0.3.10’ ** package ‘explor’ 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 (explor) * installing *source* package ‘rucrdtw’ ... ** this is package ‘rucrdtw’ version ‘0.1.6’ ** package ‘rucrdtw’ 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/RtmprGgWa5/R.INSTALL986047569895/rucrdtw/src' g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/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/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 dtw_functions.cpp -o dtw_functions.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/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 ed_functions.cpp -o ed_functions.o g++-14 -std=gnu++17 -shared -L/home/hornik/tmp/R/lib -Wl,-O1 -o rucrdtw.so RcppExports.o dtw_functions.o ed_functions.o -L/home/hornik/tmp/R/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmprGgWa5/R.INSTALL986047569895/rucrdtw/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-rucrdtw/00new/rucrdtw/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 (rucrdtw) * installing *source* package ‘clustrd’ ... ** this is package ‘clustrd’ version ‘1.4.0’ ** package ‘clustrd’ 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 ** 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 (clustrd) * installing *source* package ‘NetworkToolbox’ ... ** this is package ‘NetworkToolbox’ version ‘1.4.2’ ** package ‘NetworkToolbox’ 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 (NetworkToolbox) * installing *source* package ‘EMCluster’ ... ** this is package ‘EMCluster’ version ‘0.2-17’ ** package ‘EMCluster’ 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/Rtmp70icKh/R.INSTALL9817e5c9fe971/EMCluster/src' gcc-14 -std=gnu23 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c M_emcluster.c -o M_emcluster.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c M_emgroup.c -o M_emgroup.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c M_init_other.c -o M_init_other.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c RRand.c -o RRand.o RRand.c: In function ‘RRand’: RRand.c:11:41: warning: variable ‘Wallace’ set but not used [-Wunused-but-set-variable] 11 | double nij2sum, nidot2sum, ndotj2sum, Wallace; | ^~~~~~~ gcc-14 -std=gnu23 -I"/home/hornik/tmp/R/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_M_emgroup.c -o R_M_emgroup.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R/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_RRand.c -o R_RRand.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R/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_dlmvnorm.c -o R_dlmvnorm.o R_dlmvnorm.c: In function ‘R_dlmvnorm’: R_dlmvnorm.c:224:14: warning: variable ‘C_p_LTsigma’ set but not used [-Wunused-but-set-variable] 224 | int *C_p, *C_p_LTsigma; | ^~~~~~~~~~~ gcc-14 -std=gnu23 -I"/home/hornik/tmp/R/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_emcluster.c -o R_emcluster.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R/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_estep.c -o R_estep.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R/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_other_shortem.c -o R_init_other_shortem.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R/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_svd.c -o R_init_svd.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R/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_initials.c -o R_initials.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R/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_mstep.c -o R_mstep.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R/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_tool.c -o R_tool.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c chisqstat.c -o chisqstat.o chisqstat.c: In function ‘chisqstat’: chisqstat.c:37:7: warning: variable ‘i’ set but not used [-Wunused-but-set-variable] 37 | int i; | ^ gcc-14 -std=gnu23 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c classify.c -o classify.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c dlmvnorm.c -o dlmvnorm.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c eigens.c -o eigens.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c emcluster.c -o emcluster.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c emgroup.c -o emgroup.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c findzero.c -o findzero.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c hc.c -o hc.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c hclass.c -o hclass.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c hclassify.c -o hclassify.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R/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_other.c -o init_other.o init_other.c: In function ‘shortems’: init_other.c:105:7: warning: variable ‘i’ set but not used [-Wunused-but-set-variable] 105 | int i,iter,totiter=0; | ^ gcc-14 -std=gnu23 -I"/home/hornik/tmp/R/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_svd.c -o init_svd.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c initials.c -o initials.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c inverse.c -o inverse.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c it_R_emptr.c -o it_R_emptr.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c it_R_init_EM.c -o it_R_init_EM.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c it_init_EM.c -o it_init_EM.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c kmeans.c -o kmeans.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c mat_vec.c -o mat_vec.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c mb_em_EM.c -o mb_em_EM.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c mb_init.c -o mb_init.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c mb_rand_EM.c -o mb_rand_EM.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c mb_randomEMinit.c -o mb_randomEMinit.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c mb_tool.c -o mb_tool.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c meandispersion.c -o meandispersion.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c order.c -o order.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c prcomp.c -o prcomp.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c quantile.c -o quantile.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c rand_EM.c -o rand_EM.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c sorted.c -o sorted.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c srswor.c -o srswor.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c ss_M_emcluster.c -o ss_M_emcluster.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c ss_M_rand_EM.c -o ss_M_rand_EM.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c ss_R_emcluster.c -o ss_R_emcluster.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c ss_R_initials.c -o ss_R_initials.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c ss_emcluster.c -o ss_emcluster.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c ss_init_other.c -o ss_init_other.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c ss_initials.c -o ss_initials.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c ss_labInit.c -o ss_labInit.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c ss_mb_em_EM.c -o ss_mb_em_EM.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c ss_mb_init.c -o ss_mb_init.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c ss_mb_rand_EM.c -o ss_mb_rand_EM.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c ss_mb_randomEMinit.c -o ss_mb_randomEMinit.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c ss_rand_EM.c -o ss_rand_EM.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c svd.c -o svd.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c unique.c -o unique.o gcc-14 -std=gnu23 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c zzz.c -o zzz.o gcc-14 -std=gnu23 -shared -L/home/hornik/tmp/R/lib -Wl,-O1 -o EMCluster.so M_emcluster.o M_emgroup.o M_init_other.o RRand.o R_M_emgroup.o R_RRand.o R_dlmvnorm.o R_emcluster.o R_estep.o R_init_other_shortem.o R_init_svd.o R_initials.o R_mstep.o R_tool.o chisqstat.o classify.o dlmvnorm.o eigens.o emcluster.o emgroup.o findzero.o hc.o hclass.o hclassify.o init_other.o init_svd.o initials.o inverse.o it_R_emptr.o it_R_init_EM.o it_init_EM.o kmeans.o mat_vec.o mb_em_EM.o mb_init.o mb_rand_EM.o mb_randomEMinit.o mb_tool.o meandispersion.o order.o prcomp.o quantile.o rand_EM.o sorted.o srswor.o ss_M_emcluster.o ss_M_rand_EM.o ss_R_emcluster.o ss_R_initials.o ss_emcluster.o ss_init_other.o ss_initials.o ss_labInit.o ss_mb_em_EM.o ss_mb_init.o ss_mb_rand_EM.o ss_mb_randomEMinit.o ss_rand_EM.o svd.o unique.o zzz.o -llapack -L/home/hornik/tmp/R/lib -lRblas -lgfortran -lm -lquadmath -L/home/hornik/tmp/R/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/Rtmp70icKh/R.INSTALL9817e5c9fe971/EMCluster/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-EMCluster/00new/EMCluster/libs ** R ** data *** moving datasets to lazyload DB ** 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 (EMCluster) * installing *source* package ‘extRemes’ ... ** this is package ‘extRemes’ version ‘2.2’ ** package ‘extRemes’ 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 ** 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 (extRemes) begin installing package ‘scde’ * installing *source* package ‘CEC’ ... ** this is package ‘CEC’ version ‘0.11.2’ ** package ‘CEC’ 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/Rtmp0FlMzZ/R.INSTALL984a3461bc8a9/CEC/src' g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c cec_r.cpp -o cec_r.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c cec_starter.cpp -o cec_starter.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -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/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c models/cov_utils.cpp -o models/cov_utils.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/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 g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c r_params.cpp -o r_params.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c r_result.cpp -o r_result.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c random.cpp -o random.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c split_starter.cpp -o split_starter.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c starter.cpp -o starter.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c variable_starter.cpp -o variable_starter.o g++-14 -std=gnu++17 -shared -L/home/hornik/tmp/R/lib -Wl,-O1 -o CEC.so cec_r.o cec_starter.o init.o models/cov_utils.o params.o r_params.o r_result.o random.o split_starter.o starter.o variable_starter.o -llapack -L/home/hornik/tmp/R/lib -lRblas -lgfortran -lm -lquadmath -L/home/hornik/tmp/R/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/Rtmp0FlMzZ/R.INSTALL984a3461bc8a9/CEC/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-CEC/00new/CEC/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 ** 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 (CEC) * installing *source* package ‘genieclust’ ... ** this is package ‘genieclust’ version ‘1.1.6’ ** package ‘genieclust’ 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/RtmpYFsIGz/R.INSTALL976e628b6e7d0/genieclust/src' g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/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 -fopenmp -DGENIECLUST_R -fpic -g -O2 -Wall -pedantic -mtune=native -c RcppExports.cpp -o RcppExports.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/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 -fopenmp -DGENIECLUST_R -fpic -g -O2 -Wall -pedantic -mtune=native -c r_compare_partitions.cpp -o r_compare_partitions.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/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 -fopenmp -DGENIECLUST_R -fpic -g -O2 -Wall -pedantic -mtune=native -c r_cvi.cpp -o r_cvi.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/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 -fopenmp -DGENIECLUST_R -fpic -g -O2 -Wall -pedantic -mtune=native -c r_emst.cpp -o r_emst.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/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 -fopenmp -DGENIECLUST_R -fpic -g -O2 -Wall -pedantic -mtune=native -c r_gclust.cpp -o r_gclust.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/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 -fopenmp -DGENIECLUST_R -fpic -g -O2 -Wall -pedantic -mtune=native -c r_inequality.cpp -o r_inequality.o g++-14 -std=gnu++17 -shared -L/home/hornik/tmp/R/lib -Wl,-O1 -o genieclust.so RcppExports.o r_compare_partitions.o r_cvi.o r_emst.o r_gclust.o r_inequality.o -fopenmp -L/home/hornik/tmp/R/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpYFsIGz/R.INSTALL976e628b6e7d0/genieclust/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-genieclust/00new/genieclust/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 (genieclust) begin installing package ‘genie’ * 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/RtmpmqlRWt/R.INSTALL976fddf4d804/Gmedian/src' g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/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/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/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/lib -Wl,-O1 -o Gmedian.so Gmedian.o RcppExports.o Weiszfeld.o -L/home/hornik/tmp/R/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpmqlRWt/R.INSTALL976fddf4d804/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) * 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/RtmpD6GAZq/R.INSTALL977191ba30cfa/SharedObject/src' g++-14 -std=gnu++11 -I"/home/hornik/tmp/R/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/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/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/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/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/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/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/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/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/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/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/RtmpD6GAZq/R.INSTALL977191ba30cfa/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) * installing *source* package ‘cstab’ ... ** this is package ‘cstab’ version ‘0.2-2’ ** package ‘cstab’ 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/RtmpyZR4CB/R.INSTALL9890d56b4a69b/cstab/src' g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/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/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 distMat.cpp -o distMat.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/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 instabCorrection.cpp -o instabCorrection.o instabCorrection.cpp: In function ‘double rootCombLookup(std::vector, std::vector)’: instabCorrection.cpp:57:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 57 | for(i = 0; i < ns.size(); i++) n += ns[i]; | ~~^~~~~~~~~~~ instabCorrection.cpp:58:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 58 | for(i = 0; i < ns.size(); i++){ | ~~^~~~~~~~~~~ instabCorrection.cpp: In function ‘double stabExp(std::vector, std::vector)’: instabCorrection.cpp:72:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 72 | for(i = 0; i < ns.size(); i++) n += ns[i]; | ~~^~~~~~~~~~~ instabCorrection.cpp:73:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 73 | for(i = 0; i < ns.size(); i++){ | ~~^~~~~~~~~~~ instabCorrection.cpp:76:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 76 | for(int j = 0; j < ns.size(); j++) { | ~~^~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/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 kmeansPredict.cpp -o kmeansPredict.o g++-14 -std=gnu++17 -shared -L/home/hornik/tmp/R/lib -Wl,-O1 -o cstab.so RcppExports.o distMat.o instabCorrection.o kmeansPredict.o -L/home/hornik/tmp/R/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpyZR4CB/R.INSTALL9890d56b4a69b/cstab/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-cstab/00new/cstab/libs ** 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 ** 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 (cstab) * installing *source* package ‘sccore’ ... ** this is package ‘sccore’ version ‘1.0.6’ ** package ‘sccore’ 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/RtmpMlIgT8/R.INSTALL97735fced693/sccore/src' g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/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/RcppProgress/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 -I"../inst/include" -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:5: /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; | ^~~~~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/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/RcppProgress/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 -I"../inst/include" -fpic -g -O2 -Wall -pedantic -mtune=native -c graph_embedding.cpp -o graph_embedding.o graph_embedding.cpp: In function ‘std::unordered_map get_hitting_time_map(const std::vector&, const std::vector&)’: graph_embedding.cpp:70:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 70 | for (int v2 = 0; v2 < adjacent_ids.size(); ++v2) { | ~~~^~~~~~~~~~~~~~~~~~~~~ graph_embedding.cpp: In function ‘void dfs_hitting_time(const std::vector >&, const std::vector >&, int, std::vector&, path_map_t&, double, int, double, int, double)’: graph_embedding.cpp:130:55: warning: comparison of integer expressions of different signedness: ‘std::unordered_map::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 130 | if ((current_prob < min_prob && result_paths.size() >= min_visited_verts) || current_prob < min_prob_lower) | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ graph_embedding.cpp:135:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 135 | for (int i = 0; i < adjacency_list.at(vertex_id).size(); ++i) | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ graph_embedding.cpp: In function ‘std::pair, std::vector > hitting_time_per_neighbor(const std::vector >&, const std::vector >&, int, double, int, double, int)’: graph_embedding.cpp:156:40: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 156 | if (start_vertex < 0 || start_vertex >= adjacency_list.size()) | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ graph_embedding.cpp: In function ‘std::pair >, std::vector > > hitting_time_per_neighbors(const std::vector >&, const std::vector >&, int, int, double, int, double, int, bool)’: graph_embedding.cpp:188:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 188 | if (n_verts <= 0 || n_verts >= adjacency_list.size()) { | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ graph_embedding.cpp: In instantiation of ‘std::vector reorder(const std::vector&, std::vector, size_t) [with T = double; size_t = long unsigned int]’: graph_embedding.cpp:175:31: required from here 175 | auto values_sorted = reorder(values, sorted_ids, max_adj_num); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ graph_embedding.cpp:39:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 39 | for (int i = 0; i < max_size; ++i) { | ~~^~~~~~~~~~ graph_embedding.cpp: In instantiation of ‘std::vector reorder(const std::vector&, std::vector, size_t) [with T = int; size_t = long unsigned int]’: graph_embedding.cpp:176:32: required from here 176 | auto indexes_sorted = reorder(indexes, sorted_ids, max_adj_num); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ graph_embedding.cpp:39:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 39 | for (int i = 0; i < max_size; ++i) { | ~~^~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/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/RcppProgress/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 -I"../inst/include" -fpic -g -O2 -Wall -pedantic -mtune=native -c matrix_utils.cpp -o matrix_utils.o matrix_utils.cpp: In function ‘arma::mat jsDist(const arma::mat&)’: matrix_utils.cpp:18:17: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 18 | for(int i=0; i<(m.n_cols-1); i++) { | ~^~~~~~~~~~~~~ matrix_utils.cpp:20:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const unsigned int’} [-Wsign-compare] 20 | for(int j=i+1; j 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; | ^~~~~~~~~~~~~~~~ propagate_labels.cpp: In function ‘si_map_t parse_edges(const Rcpp::StringMatrix&, const std::vector&, std::vector&, s_vec_t)’: propagate_labels.cpp:42:25: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 42 | if (edge_verts.nrow() != edge_weights.size() || edge_verts.ncol() != 2) | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ propagate_labels.cpp:50:26: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 50 | for (size_t i = 0; i < edge_verts.nrow(); ++i) { | ~~^~~~~~~~~~~~~~~~~~~ propagate_labels.cpp:57:24: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 57 | for (size_t i = 0; i < edge_verts.nrow(); ++i) { // TODO: add informative message in case vertex name is not presented in the map | ~~^~~~~~~~~~~~~~~~~~~ propagate_labels.cpp: In function ‘Rcpp::NumericMatrix propagate_labels(const Rcpp::StringMatrix&, const std::vector&, const Rcpp::StringVector&, int, bool, double, double, double, bool)’: propagate_labels.cpp:79:25: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 79 | if (edge_verts.nrow() != edge_weights.size() || edge_verts.ncol() != 2) | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /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 | ^~~~~~ propagate_labels.cpp:87:7: required from here 87 | Mat label_probs = Mat::Zero(vertex_ids.size(), label_ids.size()); | ^~~~~~~~~~~ /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 | ^~~~~~ propagate_labels.cpp:87:7: required from here 87 | Mat label_probs = Mat::Zero(vertex_ids.size(), label_ids.size()); | ^~~~~~~~~~~ /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 | ^~~~~~~~~~~~~~ propagate_labels.cpp:87:30: required from here 87 | Mat label_probs = Mat::Zero(vertex_ids.size(), label_ids.size()); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /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; | ^~~~~~~~~~~~~~~~ propagate_labels.cpp:90:24: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘long unsigned int’} and ‘R_xlen_t’ {aka ‘long int’} [-Wsign-compare] 90 | for (size_t i = 0; i < vert_labels.size(); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~ propagate_labels.cpp:105:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::unordered_map, long unsigned int>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 105 | for (int v_id = 0; v_id < vertex_ids.size(); ++v_id) { | ~~~~~^~~~~~~~~~~~~~~~~~~ propagate_labels.cpp:106:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::unordered_map, long unsigned int>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 106 | for (int l_id = 0; l_id < label_ids.size(); ++l_id) { | ~~~~~^~~~~~~~~~~~~~~~~~ /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 | ^~~~~ propagate_labels.cpp:153:19: required from here 153 | cm_new.row(e.v_start) += count_matrix.row(e.v_end) * weight; | ~~~~~~~~~~^~~~~~~~~~~ /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, false>, 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, false>, 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, false>, const Eigen::CwiseNullaryOp, const Eigen::Matrix > >’ 77 | class CwiseBinaryOp : | ^~~~~~~~~~~~~ propagate_labels.cpp:153:62: required from here 153 | cm_new.row(e.v_start) += count_matrix.row(e.v_end) * weight; | ^~~~~~ /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>, 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, false>, 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, false>, 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, false>, 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, false>, const Eigen::CwiseNullaryOp, const Eigen::Matrix > >’ 77 | class CwiseBinaryOp : | ^~~~~~~~~~~~~ propagate_labels.cpp:153:62: required from here 153 | cm_new.row(e.v_start) += count_matrix.row(e.v_end) * weight; | ^~~~~~ /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 | ^~~~~~ propagate_labels.cpp:153:62: required from here 153 | cm_new.row(e.v_start) += count_matrix.row(e.v_end) * weight; | ^~~~~~ /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; | ^~~~~~~~~~~~~~~~ propagate_labels.cpp: In function ‘void smooth_count_matrix_c(const std::vector&, Mat&, int, double, double, double, bool, bool, const std::vector&)’: propagate_labels.cpp:172:38: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘long unsigned int’} and ‘Eigen::Index’ {aka ‘long int’} [-Wsign-compare] 172 | for (size_t row_id = 0; row_id < cm_new.rows(); ++row_id) { | ~~~~~~~^~~~~~~~~~~~~~~ /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, 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, 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, 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::Matrix, 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::Matrix, const Eigen::Matrix >’ 77 | class CwiseBinaryOp : | ^~~~~~~~~~~~~ propagate_labels.cpp:178:26: required from here 178 | inf_norm = (cm_new - count_matrix).array().abs().matrix().lpNorm(); | ^~~~~~~~~~~~ /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, 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, const Eigen::Matrix > > >’ 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::Matrix, const Eigen::Matrix > > >’ 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, const Eigen::Matrix, const Eigen::Matrix > >’ 42 | class ArrayWrapper : public ArrayBase > | ^~~~~~~~~~~~ propagate_labels.cpp:178:45: required from here 178 | inf_norm = (cm_new - count_matrix).array().abs().matrix().lpNorm(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /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, const Eigen::Matrix, 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::ArrayWrapper, const Eigen::Matrix, const Eigen::Matrix > > > >’ 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, const Eigen::Matrix, const Eigen::Matrix > > > >’ 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, const Eigen::Matrix, const Eigen::Matrix > >, 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, const Eigen::Matrix, const Eigen::Matrix > > >’ 55 | class CwiseUnaryOp : public CwiseUnaryOpImpl::StorageKind>, internal::no_assignment_operator | ^~~~~~~~~~~~ propagate_labels.cpp:178:51: required from here 178 | inf_norm = (cm_new - count_matrix).array().abs().matrix().lpNorm(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /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, const Eigen::Matrix, 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::ArrayWrapper, const Eigen::Matrix, 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::ArrayWrapper, const Eigen::Matrix, const Eigen::Matrix > > > > >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/ArrayWrapper.h:140:7: required from ‘class Eigen::MatrixWrapper, const Eigen::ArrayWrapper, const Eigen::Matrix, const Eigen::Matrix > > > >’ 140 | class MatrixWrapper : public MatrixBase > | ^~~~~~~~~~~~~ propagate_labels.cpp:178:60: required from here 178 | inf_norm = (cm_new - count_matrix).array().abs().matrix().lpNorm(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /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; | ^~~~~~~~~~~~~~~~ propagate_labels.cpp: In function ‘SEXPREC* smooth_count_matrix(const Rcpp::StringMatrix&, const std::vector&, const Rcpp::NumericMatrix&, const std::vector&, int, double, double, double, bool, bool)’: propagate_labels.cpp:216:25: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 216 | if (edge_verts.nrow() != edge_weights.size()) | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ propagate_labels.cpp: In function ‘Rcpp::List adjacentVertices(const Rcpp::StringMatrix&)’: propagate_labels.cpp:262:24: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 262 | for (size_t i = 0; i < edge_verts.nrow(); ++i) { | ~~^~~~~~~~~~~~~~~~~~~ propagate_labels.cpp: In function ‘Rcpp::List adjacent_vertex_weights(const Rcpp::StringMatrix&, const std::vector&)’: propagate_labels.cpp:286:24: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 286 | for (size_t i = 0; i < edge_verts.nrow(); ++i) { | ~~^~~~~~~~~~~~~~~~~~~ /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/SelfCwiseBinaryOp.h:41:67: required from ‘Derived& Eigen::DenseBase::operator/=(const Scalar&) [with Derived = Eigen::Block, 1, -1, false>; Scalar = double]’ 41 | internal::call_assignment(this->derived(), PlainObject::Constant(rows(),cols(),other), internal::div_assign_op()); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ propagate_labels.cpp:173:52: required from here 173 | cm_new.row(row_id) /= sum_weights.at(row_id); | ^ /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::MatrixWrapper, const Eigen::ArrayWrapper, const Eigen::Matrix, 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::MatrixWrapper, const Eigen::ArrayWrapper, const Eigen::Matrix, 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::MatrixWrapper, const Eigen::ArrayWrapper, const Eigen::Matrix, const Eigen::Matrix > > > > > >’ 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::MatrixWrapper, const Eigen::ArrayWrapper, const Eigen::Matrix, const Eigen::Matrix > > > >, 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::MatrixWrapper, const Eigen::ArrayWrapper, const Eigen::Matrix, const Eigen::Matrix > > > > >’ 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:244:22: required from ‘static Eigen::internal::lpNorm_selector::RealScalar Eigen::internal::lpNorm_selector::run(const Eigen::MatrixBase&) [with Derived = Eigen::MatrixWrapper, const Eigen::ArrayWrapper, const Eigen::Matrix, const Eigen::Matrix > > > >; RealScalar = double]’ 244 | return m.cwiseAbs().maxCoeff(); | ~~~~~~~~~~^~ /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::MatrixWrapper, const Eigen::ArrayWrapper, const Eigen::Matrix, const Eigen::Matrix > > > >; typename Eigen::NumTraits::Scalar>::Real = double; typename Eigen::internal::traits::Scalar = double]’ 269 | return internal::lpNorm_selector::run(*this); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~ propagate_labels.cpp:178:86: required from here 178 | inf_norm = (cm_new - count_matrix).array().abs().matrix().lpNorm(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /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, 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/CoreEvaluators.h:739:41: required from ‘struct Eigen::internal::binary_evaluator, const Eigen::Block, 1, -1, false>, const Eigen::CwiseNullaryOp, const Eigen::Matrix > >, 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::Block, 1, -1, false>, const Eigen::CwiseNullaryOp, const Eigen::Matrix > > >’ 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::Block, 1, -1, false>; SrcXprType = Eigen::CwiseBinaryOp, const Eigen::Block, 1, -1, false>, const Eigen::CwiseNullaryOp, const Eigen::Matrix > >; 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::Block, 1, -1, false>; SrcXprType = Eigen::CwiseBinaryOp, const Eigen::Block, 1, -1, false>, const Eigen::CwiseNullaryOp, const Eigen::Matrix > >; 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, 1, -1, false>; Src = Eigen::CwiseBinaryOp, const Eigen::Block, 1, -1, false>, const Eigen::CwiseNullaryOp, const Eigen::Matrix > >; 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, 1, -1, false>; Src = Eigen::CwiseBinaryOp, const Eigen::Block, 1, -1, false>, const Eigen::CwiseNullaryOp, const Eigen::Matrix > >; 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::Block, 1, -1, false>, const Eigen::CwiseNullaryOp, const Eigen::Matrix > >; Derived = Eigen::Block, 1, -1, false>]’ 177 | call_assignment(derived(), other.derived(), internal::add_assign_op()); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ propagate_labels.cpp:153:62: required from here 153 | cm_new.row(e.v_start) += count_matrix.row(e.v_end) * weight; | ^~~~~~ /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::CwiseUnaryOp, const Eigen::MatrixWrapper, const Eigen::ArrayWrapper, const Eigen::Matrix, const 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::CwiseUnaryOp, const Eigen::MatrixWrapper, const Eigen::ArrayWrapper, const Eigen::Matrix, const Eigen::Matrix > > > > >; Func = Eigen::internal::scalar_max_op; Evaluator = Eigen::internal::redux_evaluator, const Eigen::MatrixWrapper, const Eigen::ArrayWrapper, const Eigen::Matrix, const Eigen::Matrix > > > > > >; 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_max_op; Derived = Eigen::CwiseUnaryOp, const Eigen::MatrixWrapper, const Eigen::ArrayWrapper, const Eigen::Matrix, const 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:448:25: required from ‘typename Eigen::internal::traits::Scalar Eigen::DenseBase::maxCoeff() const [with int NaNPropagation = 0; Derived = Eigen::CwiseUnaryOp, const Eigen::MatrixWrapper, const Eigen::ArrayWrapper, const Eigen::Matrix, const Eigen::Matrix > > > > >; typename Eigen::internal::traits::Scalar = double]’ 448 | return derived().redux(Eigen::internal::scalar_max_op()); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:466:37: required from ‘typename Eigen::internal::traits::Scalar Eigen::DenseBase::maxCoeff() const [with Derived = Eigen::CwiseUnaryOp, const Eigen::MatrixWrapper, const Eigen::ArrayWrapper, const Eigen::Matrix, const Eigen::Matrix > > > > >; typename Eigen::internal::traits::Scalar = double]’ 466 | return maxCoeff(); | ~~~~~~~~~~~~~~~~~~~~~~~^~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Dot.h:244:33: required from ‘static Eigen::internal::lpNorm_selector::RealScalar Eigen::internal::lpNorm_selector::run(const Eigen::MatrixBase&) [with Derived = Eigen::MatrixWrapper, const Eigen::ArrayWrapper, const Eigen::Matrix, const Eigen::Matrix > > > >; RealScalar = double]’ 244 | return m.cwiseAbs().maxCoeff(); | ~~~~~~~~~~~~~~~~~~~~~^~ /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::MatrixWrapper, const Eigen::ArrayWrapper, const Eigen::Matrix, const Eigen::Matrix > > > >; typename Eigen::NumTraits::Scalar>::Real = double; typename Eigen::internal::traits::Scalar = double]’ 269 | return internal::lpNorm_selector::run(*this); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~ propagate_labels.cpp:178:86: required from here 178 | inf_norm = (cm_new - count_matrix).array().abs().matrix().lpNorm(); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ /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); | ^~~~~~~~~ g++-14 -std=gnu++17 -shared -L/home/hornik/tmp/R/lib -Wl,-O1 -o sccore.so RcppExports.o graph_embedding.o matrix_utils.o propagate_labels.o -lpthread -llapack -L/home/hornik/tmp/R/lib -lRblas -lgfortran -lm -lquadmath -L/home/hornik/tmp/R/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpMlIgT8/R.INSTALL97735fced693/sccore/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-sccore/00new/sccore/libs ** R ** data *** moving datasets to lazyload DB ** inst ** byte-compile and prepare package for lazy loading in method for ‘embeddingPlot’ with signature ‘"Seurat"’: no definition for class “Seurat” Note: wrong number of arguments to '*' ** 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 (sccore) * installing *source* package ‘GeneralizedUmatrix’ ... ** this is package ‘GeneralizedUmatrix’ version ‘1.3.1’ ** package ‘GeneralizedUmatrix’ 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/RtmphzDPKs/R.INSTALL981c77590fcb4/GeneralizedUmatrix/src' g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/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/RcppParallel/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c Delta3DWeightsC.cpp -o Delta3DWeightsC.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/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/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/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/RcppParallel/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c addRowWiseC.cpp -o addRowWiseC.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/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/RcppParallel/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c trainstepC.cpp -o trainstepC.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/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/RcppParallel/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c trainstepC2.cpp -o trainstepC2.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 trainstepC2.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++17 -shared -L/home/hornik/tmp/R/lib -Wl,-O1 -o GeneralizedUmatrix.so Delta3DWeightsC.o RcppExports.o addRowWiseC.o trainstepC.o trainstepC2.o -llapack -L/home/hornik/tmp/R/lib -lRblas -lgfortran -lm -lquadmath -L/home/hornik/tmp/R/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmphzDPKs/R.INSTALL981c77590fcb4/GeneralizedUmatrix/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-GeneralizedUmatrix/00new/GeneralizedUmatrix/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 (GeneralizedUmatrix) begin installing package ‘DatabionicSwarm’ begin installing package ‘ProjectionBasedClustering’ * installing *source* package ‘tlars’ ... ** this is package ‘tlars’ version ‘1.0.1’ ** package ‘tlars’ 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/RtmpI32JWY/R.INSTALL9867c203a7740/tlars/src' g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -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/Rcpp/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/include" -DNDEBUG -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/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c export_tlars_cpp.cpp -o export_tlars_cpp.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -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/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c tlars_cpp.cpp -o tlars_cpp.o g++-14 -std=gnu++17 -shared -L/home/hornik/tmp/R/lib -Wl,-O1 -o tlars.so RcppExports.o export_tlars_cpp.o tlars_cpp.o -fopenmp -llapack -L/home/hornik/tmp/R/lib -lRblas -lgfortran -lm -lquadmath -L/home/hornik/tmp/R/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpI32JWY/R.INSTALL9867c203a7740/tlars/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-tlars/00new/tlars/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 (tlars) * installing *source* package ‘RcppSpdlog’ ... ** this is package ‘RcppSpdlog’ version ‘0.0.21’ ** package ‘RcppSpdlog’ 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/Rtmp7k2VEN/R.INSTALL976da29e9928e/RcppSpdlog/src' g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/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/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 exampleRsink.cpp -o exampleRsink.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/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 formatter.cpp -o formatter.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/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 interface.cpp -o interface.o g++-14 -std=gnu++17 -shared -L/home/hornik/tmp/R/lib -Wl,-O1 -o RcppSpdlog.so RcppExports.o exampleRsink.o formatter.o interface.o -L/home/hornik/tmp/R/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/Rtmp7k2VEN/R.INSTALL976da29e9928e/RcppSpdlog/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-RcppSpdlog/00new/RcppSpdlog/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 (RcppSpdlog) begin installing package ‘N2R’ * installing *source* package ‘tclust’ ... ** this is package ‘tclust’ version ‘2.1-0’ ** package ‘tclust’ 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/RtmpWvBL0T/R.INSTALL982e210f5ab4a/tclust/src' g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/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/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 rlg.cpp -o rlg.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/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 tclust.cpp -o tclust.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/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 tkmeans.cpp -o tkmeans.o g++-14 -std=gnu++17 -shared -L/home/hornik/tmp/R/lib -Wl,-O1 -o tclust.so RcppExports.o rlg.o tclust.o tkmeans.o -fopenmp -llapack -L/home/hornik/tmp/R/lib -lRblas -lgfortran -lm -lquadmath -L/home/hornik/tmp/R/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpWvBL0T/R.INSTALL982e210f5ab4a/tclust/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-tclust/00new/tclust/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 (tclust) * installing *source* package ‘genie’ ... ** this is package ‘genie’ version ‘1.0.5’ ** package ‘genie’ 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/RtmppxQghx/R.INSTALL98c974b766ad3/genie/src' g++-14 -std=gnu++11 -I"/home/hornik/tmp/R/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 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c RcppExports.cpp -o RcppExports.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R/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 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c disjoint_sets.cpp -o disjoint_sets.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R/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 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c hclust2_common.cpp -o hclust2_common.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R/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 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c hclust2_distance.cpp -o hclust2_distance.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R/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 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c hclust2_mstbased_gini.cpp -o hclust2_mstbased_gini.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R/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 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c hclust2_nnbased_single.cpp -o hclust2_nnbased_single.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R/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 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c hclust2_rcpp_gini.cpp -o hclust2_rcpp_gini.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R/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 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c hclust2_result.cpp -o hclust2_result.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R/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 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c hclust2_vptree_single.cpp -o hclust2_vptree_single.o g++-14 -std=gnu++11 -I"/home/hornik/tmp/R/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 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c init.cpp -o init.o g++-14 -std=gnu++11 -shared -L/home/hornik/tmp/R/lib -Wl,-O1 -o genie.so RcppExports.o disjoint_sets.o hclust2_common.o hclust2_distance.o hclust2_mstbased_gini.o hclust2_nnbased_single.o hclust2_rcpp_gini.o hclust2_result.o hclust2_vptree_single.o init.o -fopenmp -L/home/hornik/tmp/R/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmppxQghx/R.INSTALL98c974b766ad3/genie/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-genie/00new/genie/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 (genie) * installing *source* package ‘scde’ ... ** this is package ‘scde’ version ‘2.36.0’ ** 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/RtmpqPvNGw/R.INSTALL98b9069a4656a/scde/src' g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/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 bwpca.cpp -o bwpca.o bwpca.cpp: In function ‘void set_random_matrix(arma::mat&, arma::mat&)’: bwpca.cpp:24:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const unsigned int’} [-Wsign-compare] 24 | for(int j=0;j::run(double*, int, int, double*, int, double, double, int, int, int, int, bool, int, double, double, double*, bool, double) [with treeT = SplitTree; double (* dist_fn)(const DataPoint&, const DataPoint&) = euclidean_distance]’, inlined from ‘Rcpp::NumericMatrix opt_multicore_tnse_cpp(Rcpp::NumericMatrix, int, double, int, int, double, int, double, double, int, double, int)’ at tsne.cpp:653:23: tsne.cpp:186:17: warning: ‘error_rc_prev’ may be used uninitialized [-Wmaybe-uninitialized] 186 | if (error_rc < error_rc_prev && iter > auto_iter_buffer_ee) { | ^~ tsne.cpp: In function ‘Rcpp::NumericMatrix opt_multicore_tnse_cpp(Rcpp::NumericMatrix, int, double, int, int, double, int, double, double, int, double, int)’: tsne.cpp:159:12: note: ‘error_rc_prev’ was declared here 159 | double error_rc_prev; // to store previous iteration's error rate of change in auto_iter mode | ^~~~~~~~~~~~~ In member function ‘double TSNE::computeGradient(int*, int*, double*, double*, int, int, double*, double, bool) [with treeT = SplitTree; double (* dist_fn)(const DataPoint&, const DataPoint&) = euclidean_distance]’, inlined from ‘void TSNE::run(double*, int, int, double*, int, double, double, int, int, int, int, bool, int, double, double, double*, bool, double) [with treeT = SplitTree; double (* dist_fn)(const DataPoint&, const DataPoint&) = euclidean_distance]’ at tsne.cpp:180:39, inlined from ‘Rcpp::NumericMatrix opt_multicore_tnse_cpp(Rcpp::NumericMatrix, int, double, int, int, double, int, double, double, int, double, int)’ at tsne.cpp:653:23: tsne.cpp:271:13: warning: ‘need_eval_error_algo’ may be used uninitialized [-Wmaybe-uninitialized] 271 | #pragma omp parallel for reduction(+:P_i_sum,C) | ^~~ tsne.cpp: In function ‘Rcpp::NumericMatrix opt_multicore_tnse_cpp(Rcpp::NumericMatrix, int, double, int, int, double, int, double, double, int, double, int)’: tsne.cpp:169:14: note: ‘need_eval_error_algo’ was declared here 169 | bool need_eval_error_algo, need_eval_error_verbose = false; | ^~~~~~~~~~~~~~~~~~~~ In member function ‘void TSNE::run(double*, int, int, double*, int, double, double, int, int, int, int, bool, int, double, double, double*, bool, double) [with treeT = SplitTree; double (* dist_fn)(const DataPoint&, const DataPoint&) = euclidean_distance_squared]’, inlined from ‘Rcpp::NumericMatrix opt_multicore_tnse_cpp(Rcpp::NumericMatrix, int, double, int, int, double, int, double, double, int, double, int)’ at tsne.cpp:649:23: tsne.cpp:186:17: warning: ‘error_rc_prev’ may be used uninitialized [-Wmaybe-uninitialized] 186 | if (error_rc < error_rc_prev && iter > auto_iter_buffer_ee) { | ^~ tsne.cpp: In function ‘Rcpp::NumericMatrix opt_multicore_tnse_cpp(Rcpp::NumericMatrix, int, double, int, int, double, int, double, double, int, double, int)’: tsne.cpp:159:12: note: ‘error_rc_prev’ was declared here 159 | double error_rc_prev; // to store previous iteration's error rate of change in auto_iter mode | ^~~~~~~~~~~~~ In member function ‘double TSNE::computeGradient(int*, int*, double*, double*, int, int, double*, double, bool) [with treeT = SplitTree; double (* dist_fn)(const DataPoint&, const DataPoint&) = euclidean_distance_squared]’, inlined from ‘void TSNE::run(double*, int, int, double*, int, double, double, int, int, int, int, bool, int, double, double, double*, bool, double) [with treeT = SplitTree; double (* dist_fn)(const DataPoint&, const DataPoint&) = euclidean_distance_squared]’ at tsne.cpp:180:39, inlined from ‘Rcpp::NumericMatrix opt_multicore_tnse_cpp(Rcpp::NumericMatrix, int, double, int, int, double, int, double, double, int, double, int)’ at tsne.cpp:649:23: tsne.cpp:271:13: warning: ‘need_eval_error_algo’ may be used uninitialized [-Wmaybe-uninitialized] 271 | #pragma omp parallel for reduction(+:P_i_sum,C) | ^~~ tsne.cpp: In function ‘Rcpp::NumericMatrix opt_multicore_tnse_cpp(Rcpp::NumericMatrix, int, double, int, int, double, int, double, double, int, double, int)’: tsne.cpp:169:14: note: ‘need_eval_error_algo’ was declared here 169 | bool need_eval_error_algo, need_eval_error_verbose = false; | ^~~~~~~~~~~~~~~~~~~~ g++-14 -std=gnu++17 -shared -L/home/hornik/tmp/R/lib -Wl,-O1 -o ProjectionBasedClustering.so DijkstraSSSP.o NeRV.o RcppExports.o c_measure.o calculatedistancematrix.o conjugategradientopt.o conttrust.o datamatrix.o dataset.o distancematrix.o dynamicdouble.o euclidean.o euclideansquared.o exception.o goldensectionsearch.o inputprobentropy.o klmeasure.o klrank.o nervcostfunction.o nervoptstrat.o nervprobability.o randomdatagenerator.o rankmatrix.o recorder.o splittree.o tsne.o -llapack -L/home/hornik/tmp/R/lib -lRblas -lgfortran -lm -lquadmath -fopenmp -L/home/hornik/tmp/R/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpdQoAr8/R.INSTALL98ddd12ecd4e2/ProjectionBasedClustering/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-ProjectionBasedClustering/00new/ProjectionBasedClustering/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 (ProjectionBasedClustering) * installing *source* package ‘N2R’ ... ** this is package ‘N2R’ version ‘1.0.3’ ** package ‘N2R’ 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/Rtmp2Ho8q4/R.INSTALL98f0313370bec/N2R/src' g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/tmp/CRAN_recheck/Library/RcppSpdlog/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 -I"../inst/include" -I"./n2/include" -fopenmp -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; | ^~~~~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/tmp/CRAN_recheck/Library/RcppSpdlog/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 -I"../inst/include" -I"./n2/include" -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c check_openmp.cpp -o check_openmp.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/tmp/CRAN_recheck/Library/RcppSpdlog/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 -I"../inst/include" -I"./n2/include" -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c n2knn.cpp -o n2knn.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 n2knn.cpp:24: /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/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/Eigen/src/SparseCore/SparseMatrix.h:1040:66: required from ‘void Eigen::internal::set_from_triplets(const InputIterator&, const InputIterator&, SparseMatrixType&, DupFunctor) [with InputIterator = __gnu_cxx::__normal_iterator*, std::vector > >; SparseMatrixType = Eigen::SparseMatrix; DupFunctor = scalar_sum_op]’ 1040 | SparseMatrix trMat(mat.rows(),mat.cols()); | ^~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/SparseCore/SparseMatrix.h:1110:92: required from ‘void Eigen::SparseMatrix<_Scalar, _Flags, _StorageIndex>::setFromTriplets(const InputIterators&, const InputIterators&) [with InputIterators = __gnu_cxx::__normal_iterator*, std::vector > >; _Scalar = double; int _Options = 0; _StorageIndex = int]’ 1110 | internal::set_from_triplets >(begin, end, *this, internal::scalar_sum_op()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ n2knn.cpp:80:22: required from here 80 | mat.setFromTriplets(tripletList.begin(),tripletList.end()); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /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/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, 0>’: /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/SparseCore/SparseCompressedBase.h:336:80: required from ‘struct Eigen::internal::evaluator > >’ 336 | typedef typename DenseCoeffsBase::CoeffReturnType CoeffReturnType; | ^~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/SparseCore/SparseMatrix.h:1505:8: required from ‘struct Eigen::internal::evaluator >’ 1505 | struct evaluator > | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/SparseCore/SparseMatrix.h:1181:93: required from ‘Eigen::SparseMatrix<_Scalar, _Options, _StorageIndex>& Eigen::SparseMatrix<_Scalar, _Flags, _StorageIndex>::operator=(const Eigen::SparseMatrixBase&) [with OtherDerived = Eigen::SparseMatrix; _Scalar = double; int _Options = 0; _StorageIndex = int]’ 1181 | const bool needToTranspose = (Flags & RowMajorBit) != (internal::evaluator::Flags & RowMajorBit); | ^~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/SparseCore/SparseMatrix.h:1063:7: required from ‘void Eigen::internal::set_from_triplets(const InputIterator&, const InputIterator&, SparseMatrixType&, DupFunctor) [with InputIterator = __gnu_cxx::__normal_iterator*, std::vector > >; SparseMatrixType = Eigen::SparseMatrix; DupFunctor = scalar_sum_op]’ 1063 | mat = trMat; | ~~~~^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/SparseCore/SparseMatrix.h:1110:92: required from ‘void Eigen::SparseMatrix<_Scalar, _Flags, _StorageIndex>::setFromTriplets(const InputIterators&, const InputIterators&) [with InputIterators = __gnu_cxx::__normal_iterator*, std::vector > >; _Scalar = double; int _Options = 0; _StorageIndex = int]’ 1110 | internal::set_from_triplets >(begin, end, *this, internal::scalar_sum_op()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ n2knn.cpp:80:22: required from here 80 | mat.setFromTriplets(tripletList.begin(),tripletList.end()); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /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/SparseCore/SparseCompressedBase.h:336:80: required from ‘struct Eigen::internal::evaluator > >’ 336 | typedef typename DenseCoeffsBase::CoeffReturnType CoeffReturnType; | ^~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/SparseCore/SparseMatrix.h:1505:8: required from ‘struct Eigen::internal::evaluator >’ 1505 | struct evaluator > | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/SparseCore/SparseAssign.h:79:45: required from ‘void Eigen::internal::assign_sparse_to_sparse(DstXprType&, const SrcXprType&) [with DstXprType = Eigen::SparseMatrix; SrcXprType = Eigen::SparseMatrix]’ 79 | const bool transpose = (DstEvaluatorType::Flags & RowMajorBit) != (SrcEvaluatorType::Flags & RowMajorBit); | ^~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/SparseCore/SparseAssign.h:132:28: required from ‘static void Eigen::internal::Assignment::run(DstXprType&, const SrcXprType&, const Eigen::internal::assign_op&) [with DstXprType = Eigen::SparseMatrix; SrcXprType = Eigen::SparseMatrix; Functor = Eigen::internal::assign_op; typename DstXprType::Scalar = double; typename SrcXprType::Scalar = double]’ 132 | assign_sparse_to_sparse(dst.derived(), src.derived()); | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/SparseCore/SparseAssign.h:38:16: required from ‘Derived& Eigen::SparseMatrixBase::operator=(const Eigen::SparseMatrixBase&) [with OtherDerived = Eigen::SparseMatrix; Derived = Eigen::SparseMatrix]’ 37 | internal::Assignment > | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 38 | ::run(derived(), other.derived(), internal::assign_op()); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/SparseCore/SparseMatrix.h:1239:27: required from ‘Eigen::SparseMatrix<_Scalar, _Options, _StorageIndex>& Eigen::SparseMatrix<_Scalar, _Flags, _StorageIndex>::operator=(const Eigen::SparseMatrixBase&) [with OtherDerived = Eigen::SparseMatrix; _Scalar = double; int _Options = 0; _StorageIndex = int]’ 1239 | return Base::operator=(other.derived()); | ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/SparseCore/SparseMatrix.h:1063:7: required from ‘void Eigen::internal::set_from_triplets(const InputIterator&, const InputIterator&, SparseMatrixType&, DupFunctor) [with InputIterator = __gnu_cxx::__normal_iterator*, std::vector > >; SparseMatrixType = Eigen::SparseMatrix; DupFunctor = scalar_sum_op]’ 1063 | mat = trMat; | ~~~~^~~~~~~ /home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppEigen/include/Eigen/src/SparseCore/SparseMatrix.h:1110:92: required from ‘void Eigen::SparseMatrix<_Scalar, _Flags, _StorageIndex>::setFromTriplets(const InputIterators&, const InputIterators&) [with InputIterators = __gnu_cxx::__normal_iterator*, std::vector > >; _Scalar = double; int _Options = 0; _StorageIndex = int]’ 1110 | internal::set_from_triplets >(begin, end, *this, internal::scalar_sum_op()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ n2knn.cpp:80:22: required from here 80 | mat.setFromTriplets(tripletList.begin(),tripletList.end()); | ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /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; | ^~~~~~~~~~~~~~~~ (cd n2 && CFLAGS="-g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native " CXXFLAGS="-g -O2 -Wall -pedantic -mtune=native " MAKE="make -f \"/home/hornik/tmp/R/etc/Makeconf\" -f Makefile" make -f "/home/hornik/tmp/R/etc/Makeconf" -f Makefile lib) || exit 1; make[2]: Entering directory '/home/hornik/tmp/scratch/Rtmp2Ho8q4/R.INSTALL98f0313370bec/N2R/src/n2' g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/tmp/CRAN_recheck/Library/RcppSpdlog/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 -I"./include" -fpic -g -O2 -Wall -pedantic -mtune=native -c base.cc -o base.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/tmp/CRAN_recheck/Library/RcppSpdlog/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 -I"./include" -fpic -g -O2 -Wall -pedantic -mtune=native -c hnsw.cc -o hnsw.o hnsw.cc:386: warning: ignoring ‘#pragma omp parallel’ [-Wunknown-pragmas] 386 | #pragma omp parallel num_threads(num_threads_) hnsw.cc:390: warning: ignoring ‘#pragma omp for’ [-Wunknown-pragmas] 390 | #pragma omp for schedule(dynamic,128) hnsw.cc:401: warning: ignoring ‘#pragma omp parallel’ [-Wunknown-pragmas] 401 | #pragma omp parallel num_threads(num_threads_) hnsw.cc:404: warning: ignoring ‘#pragma omp for’ [-Wunknown-pragmas] 404 | #pragma omp for schedule(dynamic,128) hnsw.cc:621: warning: ignoring ‘#pragma omp parallel’ [-Wunknown-pragmas] 621 | #pragma omp parallel for schedule(dynamic,128) num_threads(num_threads_) g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/tmp/CRAN_recheck/Library/RcppSpdlog/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 -I"./include" -fpic -g -O2 -Wall -pedantic -mtune=native -c hnsw_node.cc -o hnsw_node.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/tmp/CRAN_recheck/Library/RcppSpdlog/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 -I"./include" -fpic -g -O2 -Wall -pedantic -mtune=native -c distance.cc -o distance.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/tmp/CRAN_recheck/Library/RcppSpdlog/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 -I"./include" -fpic -g -O2 -Wall -pedantic -mtune=native -c heuristic.cc -o heuristic.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/tmp/CRAN_recheck/Library/RcppSpdlog/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 -I"./include" -fpic -g -O2 -Wall -pedantic -mtune=native -c mmap.cc -o mmap.o ar rvs ../libn2.a base.o hnsw.o hnsw_node.o distance.o heuristic.o mmap.o ar: creating ../libn2.a a - base.o a - hnsw.o a - hnsw_node.o a - distance.o a - heuristic.o a - mmap.o make[2]: Leaving directory '/home/hornik/tmp/scratch/Rtmp2Ho8q4/R.INSTALL98f0313370bec/N2R/src/n2' g++-14 -std=gnu++17 -shared -L/home/hornik/tmp/R/lib -Wl,-O1 -o N2R.so RcppExports.o check_openmp.o n2knn.o -L. -lpthread -ln2 -lm -llapack -L/home/hornik/tmp/R/lib -lRblas -lgfortran -lm -lquadmath -fopenmp -L/home/hornik/tmp/R/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/Rtmp2Ho8q4/R.INSTALL98f0313370bec/N2R/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-N2R/00new/N2R/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 (N2R) * installing *source* package ‘DatabionicSwarm’ ... ** this is package ‘DatabionicSwarm’ version ‘2.0.0’ ** package ‘DatabionicSwarm’ 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/Rtmpb8cF18/R.INSTALL98ddf514cf32b/DatabionicSwarm/src' g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/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/RcppParallel/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c Delta3DWeightsC.cpp -o Delta3DWeightsC.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/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/RcppParallel/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c DijkstraSSSP.cpp -o DijkstraSSSP.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/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/RcppParallel/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c PswarmRadiusParallel.cpp -o PswarmRadiusParallel.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 PswarmRadiusParallel.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/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/RcppParallel/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c PswarmRadiusSequential.cpp -o PswarmRadiusSequential.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/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/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/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/RcppParallel/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c findPossiblePositionsCsingle.cpp -o findPossiblePositionsCsingle.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/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/RcppParallel/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c rDistanceToroidCsingle.cpp -o rDistanceToroidCsingle.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/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/RcppParallel/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c rcppPar_DistanceToroid.cpp -o rcppPar_DistanceToroid.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 rcppPar_DistanceToroid.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++17 -I"/home/hornik/tmp/R/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/RcppParallel/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c sampleC.cpp -o sampleC.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/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/RcppParallel/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c trainstepC.cpp -o trainstepC.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/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/RcppParallel/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c trainstepC2.cpp -o trainstepC2.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 trainstepC2.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++17 -shared -L/home/hornik/tmp/R/lib -Wl,-O1 -o DatabionicSwarm.so Delta3DWeightsC.o DijkstraSSSP.o PswarmRadiusParallel.o PswarmRadiusSequential.o RcppExports.o findPossiblePositionsCsingle.o rDistanceToroidCsingle.o rcppPar_DistanceToroid.o sampleC.o trainstepC.o trainstepC2.o -llapack -L/home/hornik/tmp/R/lib -lRblas -lgfortran -lm -lquadmath -L/home/hornik/tmp/R/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/Rtmpb8cF18/R.INSTALL98ddf514cf32b/DatabionicSwarm/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-DatabionicSwarm/00new/DatabionicSwarm/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 (DatabionicSwarm) * installing *source* package ‘isotree’ ... ** this is package ‘isotree’ version ‘0.6.1-4’ ** package ‘isotree’ 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 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++17 make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpWnjApN/R.INSTALL97be44e95e214/isotree/src' g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -DRCPP_USE_UNWIND_PROTECT -D_FOR_R -D_USE_XOSHIRO -D_USE_ROBIN_MAP -DSUPPORTS_RESTRICT=1 -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 -fopenmp -fno-math-errno -fno-trapping-math -fvisibility=hidden -fpic -g -O2 -Wall -pedantic -mtune=native -c RcppExports.cpp -o RcppExports.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -DRCPP_USE_UNWIND_PROTECT -D_FOR_R -D_USE_XOSHIRO -D_USE_ROBIN_MAP -DSUPPORTS_RESTRICT=1 -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 -fopenmp -fno-math-errno -fno-trapping-math -fvisibility=hidden -fpic -g -O2 -Wall -pedantic -mtune=native -c Rwrapper.cpp -o Rwrapper.o In file included from headers_joined.h:73, from Rwrapper.cpp:76: In function ‘double extract_spR(const PredictionData&, const sparse_ix*, const sparse_ix*, std::size_t, std::size_t, std::size_t) [with PredictionData = PredictionData; sparse_ix = int]’, inlined from ‘void traverse_hplane(std::vector&, ExtIsoForest&, PredictionData&, double&, std::vector*, ImputedData*, sparse_ix*, double*, std::size_t) [with PredictionData = PredictionData; sparse_ix = int; ImputedData = ImputedData]’ at predict.h:1156:51: predict.h:1920:38: warning: ‘lb’ may be used uninitialized [-Wmaybe-uninitialized] 1920 | if (row_end == row_st || col_num < lb || col_num > ub) | ~~~~~~~~^~~~ predict.h: In function ‘void traverse_hplane(std::vector&, ExtIsoForest&, PredictionData&, double&, std::vector*, ImputedData*, sparse_ix*, double*, std::size_t) [with PredictionData = PredictionData; sparse_ix = int; ImputedData = ImputedData]’: predict.h:1104:12: note: ‘lb’ was declared here 1104 | size_t lb, ub; | ^~ In function ‘double extract_spR(const PredictionData&, const sparse_ix*, const sparse_ix*, std::size_t, std::size_t, std::size_t) [with PredictionData = PredictionData; sparse_ix = int]’, inlined from ‘void traverse_hplane(std::vector&, ExtIsoForest&, PredictionData&, double&, std::vector*, ImputedData*, sparse_ix*, double*, std::size_t) [with PredictionData = PredictionData; sparse_ix = int; ImputedData = ImputedData]’ at predict.h:1156:51: predict.h:1920:43: warning: ‘ub’ may be used uninitialized [-Wmaybe-uninitialized] 1920 | if (row_end == row_st || col_num < lb || col_num > ub) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ predict.h: In function ‘void traverse_hplane(std::vector&, ExtIsoForest&, PredictionData&, double&, std::vector*, ImputedData*, sparse_ix*, double*, std::size_t) [with PredictionData = PredictionData; sparse_ix = int; ImputedData = ImputedData]’: predict.h:1104:16: note: ‘ub’ was declared here 1104 | size_t lb, ub; | ^~ In function ‘double extract_spR(const PredictionData&, const sparse_ix*, const sparse_ix*, std::size_t, std::size_t, std::size_t) [with PredictionData = PredictionData; sparse_ix = int]’, inlined from ‘void traverse_hplane(std::vector&, ExtIsoForest&, PredictionData&, double&, std::vector*, ImputedData*, sparse_ix*, double*, std::size_t) [with PredictionData = PredictionData; sparse_ix = int; ImputedData = ImputedData]’ at predict.h:1156:51, inlined from ‘_Z30impute_missing_values_internalIdieEvPT_PibS1_PT0_S4_miP9IsoForestP12ExtIsoForestR7Imputer._omp_fn.1’ at impute.h:263:36: predict.h:1920:38: warning: ‘lb’ may be used uninitialized [-Wmaybe-uninitialized] 1920 | if (row_end == row_st || col_num < lb || col_num > ub) | ~~~~~~~~^~~~ predict.h: In function ‘_Z30impute_missing_values_internalIdieEvPT_PibS1_PT0_S4_miP9IsoForestP12ExtIsoForestR7Imputer._omp_fn.1’: predict.h:1104:12: note: ‘lb’ was declared here 1104 | size_t lb, ub; | ^~ In function ‘double extract_spR(const PredictionData&, const sparse_ix*, const sparse_ix*, std::size_t, std::size_t, std::size_t) [with PredictionData = PredictionData; sparse_ix = int]’, inlined from ‘void traverse_hplane(std::vector&, ExtIsoForest&, PredictionData&, double&, std::vector*, ImputedData*, sparse_ix*, double*, std::size_t) [with PredictionData = PredictionData; sparse_ix = int; ImputedData = ImputedData]’ at predict.h:1156:51, inlined from ‘_Z30impute_missing_values_internalIdieEvPT_PibS1_PT0_S4_miP9IsoForestP12ExtIsoForestR7Imputer._omp_fn.1’ at impute.h:263:36: predict.h:1920:43: warning: ‘ub’ may be used uninitialized [-Wmaybe-uninitialized] 1920 | if (row_end == row_st || col_num < lb || col_num > ub) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ predict.h: In function ‘_Z30impute_missing_values_internalIdieEvPT_PibS1_PT0_S4_miP9IsoForestP12ExtIsoForestR7Imputer._omp_fn.1’: predict.h:1104:16: note: ‘ub’ was declared here 1104 | size_t lb, ub; | ^~ In file included from headers_joined.h:65: In function ‘double find_split_full_gain_weighted(real_t*, std::size_t, std::size_t, std::size_t*, std::size_t*, std::size_t, bool, double*, std::size_t, double*, std::size_t*, std::size_t*, double*, double*, std::size_t&, double&, bool, mapping&) [with real_t = double; mapping = double* __restrict__; ldouble_safe = double]’, inlined from ‘double eval_guided_crit_weighted(double*, std::size_t, GainCriterion, double, bool, double*, double&, double&, double&, double*, std::size_t*, std::size_t*, std::size_t*, std::size_t, bool, double*, std::size_t, double*, std::size_t*, std::size_t*) [with ldouble_safe = double]’ at crit.h:3166:85: crit.h:2323:68: warning: ‘ignored’ may be used uninitialized [-Wmaybe-uninitialized] 2323 | split_point = midpoint(x[ix_arr[split_ix]], x[ix_arr[split_ix+1]]); | ~~~~~~~~~~~~~~~~~^ crit.h: In function ‘double eval_guided_crit_weighted(double*, std::size_t, GainCriterion, double, bool, double*, double&, double&, double&, double*, std::size_t*, std::size_t*, std::size_t*, std::size_t, bool, double*, std::size_t, double*, std::size_t*, std::size_t*) [with ldouble_safe = double]’: crit.h:3165:16: note: ‘ignored’ was declared here 3165 | size_t ignored; | ^~~~~~~ In function ‘double find_split_full_gain_weighted(real_t*, std::size_t, std::size_t, std::size_t*, std::size_t*, std::size_t, bool, double*, std::size_t, double*, std::size_t*, std::size_t*, double*, double*, std::size_t&, double&, bool, mapping&) [with real_t = double; mapping = double* __restrict__; ldouble_safe = long double]’, inlined from ‘double eval_guided_crit_weighted(double*, std::size_t, GainCriterion, double, bool, double*, double&, double&, double&, double*, std::size_t*, std::size_t*, std::size_t*, std::size_t, bool, double*, std::size_t, double*, std::size_t*, std::size_t*) [with ldouble_safe = long double]’ at crit.h:3166:85: crit.h:2323:68: warning: ‘ignored’ may be used uninitialized [-Wmaybe-uninitialized] 2323 | split_point = midpoint(x[ix_arr[split_ix]], x[ix_arr[split_ix+1]]); | ~~~~~~~~~~~~~~~~~^ crit.h: In function ‘double eval_guided_crit_weighted(double*, std::size_t, GainCriterion, double, bool, double*, double&, double&, double&, double*, std::size_t*, std::size_t*, std::size_t*, std::size_t, bool, double*, std::size_t, double*, std::size_t*, std::size_t*) [with ldouble_safe = long double]’: crit.h:3165:16: note: ‘ignored’ was declared here 3165 | size_t ignored; | ^~~~~~~ In file included from Rwrapper.cpp:73: crit.h: In function ‘double eval_guided_crit(std::size_t*, std::size_t, std::size_t, int*, int, int*, std::size_t*, std::size_t*, double*, int&, signed char*, signed char*, GainCriterion, double, bool, MissingAction, CategSplit) [with ldouble_safe = double]’: isotree.h:222:45: warning: ‘best_combin’ may be used uninitialized [-Wmaybe-uninitialized] 222 | #define extract_bit(number, bit) (((number) >> (bit)) & 1) | ~~~~~~~~~~^~~~~~~~~ crit.h:3820:73: note: in expansion of macro ‘extract_bit’ 3820 | split_categ[buffer_pos[st_pos + pos]] = extract_bit(best_combin, pos); | ^~~~~~~~~~~ crit.h:3780:32: note: ‘best_combin’ was declared here 3780 | size_t best_combin; | ^~~~~~~~~~~ crit.h: In function ‘double eval_guided_crit_weighted(std::size_t*, std::size_t, std::size_t, int*, int, int*, std::size_t*, double*, int&, signed char*, signed char*, GainCriterion, double, bool, MissingAction, CategSplit, mapping&) [with mapping = std::vector; ldouble_safe = double]’: isotree.h:222:45: warning: ‘best_combin’ may be used uninitialized [-Wmaybe-uninitialized] 222 | #define extract_bit(number, bit) (((number) >> (bit)) & 1) | ~~~~~~~~~~^~~~~~~~~ crit.h:4168:73: note: in expansion of macro ‘extract_bit’ 4168 | split_categ[buffer_pos[st_pos + pos]] = extract_bit(best_combin, pos); | ^~~~~~~~~~~ crit.h:4124:32: note: ‘best_combin’ was declared here 4124 | size_t best_combin; | ^~~~~~~~~~~ crit.h: In function ‘double eval_guided_crit_weighted(std::size_t*, std::size_t, std::size_t, int*, int, int*, std::size_t*, double*, int&, signed char*, signed char*, GainCriterion, double, bool, MissingAction, CategSplit, mapping&) [with mapping = tsl::robin_map; ldouble_safe = double]’: isotree.h:222:45: warning: ‘best_combin’ may be used uninitialized [-Wmaybe-uninitialized] 222 | #define extract_bit(number, bit) (((number) >> (bit)) & 1) | ~~~~~~~~~~^~~~~~~~~ crit.h:4168:73: note: in expansion of macro ‘extract_bit’ 4168 | split_categ[buffer_pos[st_pos + pos]] = extract_bit(best_combin, pos); | ^~~~~~~~~~~ crit.h:4124:32: note: ‘best_combin’ was declared here 4124 | size_t best_combin; | ^~~~~~~~~~~ crit.h: In function ‘double eval_guided_crit(std::size_t*, std::size_t, std::size_t, int*, int, int*, std::size_t*, std::size_t*, double*, int&, signed char*, signed char*, GainCriterion, double, bool, MissingAction, CategSplit) [with ldouble_safe = long double]’: isotree.h:222:45: warning: ‘best_combin’ may be used uninitialized [-Wmaybe-uninitialized] 222 | #define extract_bit(number, bit) (((number) >> (bit)) & 1) | ~~~~~~~~~~^~~~~~~~~ crit.h:3820:73: note: in expansion of macro ‘extract_bit’ 3820 | split_categ[buffer_pos[st_pos + pos]] = extract_bit(best_combin, pos); | ^~~~~~~~~~~ crit.h:3780:32: note: ‘best_combin’ was declared here 3780 | size_t best_combin; | ^~~~~~~~~~~ crit.h: In function ‘double eval_guided_crit_weighted(std::size_t*, std::size_t, std::size_t, int*, int, int*, std::size_t*, double*, int&, signed char*, signed char*, GainCriterion, double, bool, MissingAction, CategSplit, mapping&) [with mapping = std::vector; ldouble_safe = long double]’: isotree.h:222:45: warning: ‘best_combin’ may be used uninitialized [-Wmaybe-uninitialized] 222 | #define extract_bit(number, bit) (((number) >> (bit)) & 1) | ~~~~~~~~~~^~~~~~~~~ crit.h:4168:73: note: in expansion of macro ‘extract_bit’ 4168 | split_categ[buffer_pos[st_pos + pos]] = extract_bit(best_combin, pos); | ^~~~~~~~~~~ crit.h:4124:32: note: ‘best_combin’ was declared here 4124 | size_t best_combin; | ^~~~~~~~~~~ crit.h: In function ‘double eval_guided_crit_weighted(std::size_t*, std::size_t, std::size_t, int*, int, int*, std::size_t*, double*, int&, signed char*, signed char*, GainCriterion, double, bool, MissingAction, CategSplit, mapping&) [with mapping = tsl::robin_map; ldouble_safe = long double]’: isotree.h:222:45: warning: ‘best_combin’ may be used uninitialized [-Wmaybe-uninitialized] 222 | #define extract_bit(number, bit) (((number) >> (bit)) & 1) | ~~~~~~~~~~^~~~~~~~~ crit.h:4168:73: note: in expansion of macro ‘extract_bit’ 4168 | split_categ[buffer_pos[st_pos + pos]] = extract_bit(best_combin, pos); | ^~~~~~~~~~~ crit.h:4124:32: note: ‘best_combin’ was declared here 4124 | size_t best_combin; | ^~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -DRCPP_USE_UNWIND_PROTECT -D_FOR_R -D_USE_XOSHIRO -D_USE_ROBIN_MAP -DSUPPORTS_RESTRICT=1 -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 -fopenmp -fno-math-errno -fno-trapping-math -fvisibility=hidden -fpic -g -O2 -Wall -pedantic -mtune=native -c formatted_exporters.cpp -o formatted_exporters.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -DRCPP_USE_UNWIND_PROTECT -D_FOR_R -D_USE_XOSHIRO -D_USE_ROBIN_MAP -DSUPPORTS_RESTRICT=1 -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 -fopenmp -fno-math-errno -fno-trapping-math -fvisibility=hidden -fpic -g -O2 -Wall -pedantic -mtune=native -c indexer.cpp -o indexer.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -DRCPP_USE_UNWIND_PROTECT -D_FOR_R -D_USE_XOSHIRO -D_USE_ROBIN_MAP -DSUPPORTS_RESTRICT=1 -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 -fopenmp -fno-math-errno -fno-trapping-math -fvisibility=hidden -fpic -g -O2 -Wall -pedantic -mtune=native -c merge_models.cpp -o merge_models.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -DRCPP_USE_UNWIND_PROTECT -D_FOR_R -D_USE_XOSHIRO -D_USE_ROBIN_MAP -DSUPPORTS_RESTRICT=1 -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 -fopenmp -fno-math-errno -fno-trapping-math -fvisibility=hidden -fpic -g -O2 -Wall -pedantic -mtune=native -c serialize.cpp -o serialize.o In function ‘void write_bytes(const void*, std::size_t, FILE*&) [with dtype = char]’, inlined from ‘void serialize_combined(const char*, const char*, const char*, const char*, const char*, std::size_t, otype&) [with otype = _IO_FILE*]’ at serialize.cpp:3934:26: serialize.cpp:470:5: warning: ‘size_model1’ may be used uninitialized [-Wmaybe-uninitialized] 470 | if (n_els == 0) return; | ^~ serialize.cpp: In function ‘void serialize_combined(const char*, const char*, const char*, const char*, const char*, std::size_t, otype&) [with otype = _IO_FILE*]’: serialize.cpp:3840:12: note: ‘size_model1’ was declared here 3840 | size_t size_model1, size_model2, size_model3, size_model4; | ^~~~~~~~~~~ In function ‘void write_bytes(const void*, std::size_t, FILE*&) [with dtype = char]’, inlined from ‘void serialize_combined(const char*, const char*, const char*, const char*, const char*, std::size_t, otype&) [with otype = _IO_FILE*]’ at serialize.cpp:3936:26: serialize.cpp:470:5: warning: ‘size_model2’ may be used uninitialized [-Wmaybe-uninitialized] 470 | if (n_els == 0) return; | ^~ serialize.cpp: In function ‘void serialize_combined(const char*, const char*, const char*, const char*, const char*, std::size_t, otype&) [with otype = _IO_FILE*]’: serialize.cpp:3840:25: note: ‘size_model2’ was declared here 3840 | size_t size_model1, size_model2, size_model3, size_model4; | ^~~~~~~~~~~ In function ‘void write_bytes(const void*, std::size_t, FILE*&) [with dtype = char]’, inlined from ‘void serialize_combined(const char*, const char*, const char*, const char*, const char*, std::size_t, otype&) [with otype = _IO_FILE*]’ at serialize.cpp:3938:26: serialize.cpp:470:5: warning: ‘size_model3’ may be used uninitialized [-Wmaybe-uninitialized] 470 | if (n_els == 0) return; | ^~ serialize.cpp: In function ‘void serialize_combined(const char*, const char*, const char*, const char*, const char*, std::size_t, otype&) [with otype = _IO_FILE*]’: serialize.cpp:3840:38: note: ‘size_model3’ was declared here 3840 | size_t size_model1, size_model2, size_model3, size_model4; | ^~~~~~~~~~~ In function ‘void write_bytes(const void*, std::size_t, FILE*&) [with dtype = char]’, inlined from ‘void serialize_combined(const char*, const char*, const char*, const char*, const char*, std::size_t, otype&) [with otype = _IO_FILE*]’ at serialize.cpp:3940:26: serialize.cpp:470:5: warning: ‘size_model4’ may be used uninitialized [-Wmaybe-uninitialized] 470 | if (n_els == 0) return; | ^~ serialize.cpp: In function ‘void serialize_combined(const char*, const char*, const char*, const char*, const char*, std::size_t, otype&) [with otype = _IO_FILE*]’: serialize.cpp:3840:51: note: ‘size_model4’ was declared here 3840 | size_t size_model1, size_model2, size_model3, size_model4; | ^~~~~~~~~~~ In function ‘void write_bytes(const void*, std::size_t, std::ostream&) [with dtype = char]’, inlined from ‘void serialize_combined(const char*, const char*, const char*, const char*, const char*, std::size_t, otype&) [with otype = std::basic_ostream]’ at serialize.cpp:3934:26: serialize.cpp:462:5: warning: ‘size_model1’ may be used uninitialized [-Wmaybe-uninitialized] 462 | if (n_els == 0) return; | ^~ serialize.cpp: In function ‘void serialize_combined(const char*, const char*, const char*, const char*, const char*, std::size_t, otype&) [with otype = std::basic_ostream]’: serialize.cpp:3840:12: note: ‘size_model1’ was declared here 3840 | size_t size_model1, size_model2, size_model3, size_model4; | ^~~~~~~~~~~ In function ‘void write_bytes(const void*, std::size_t, std::ostream&) [with dtype = char]’, inlined from ‘void serialize_combined(const char*, const char*, const char*, const char*, const char*, std::size_t, otype&) [with otype = std::basic_ostream]’ at serialize.cpp:3936:26: serialize.cpp:462:5: warning: ‘size_model2’ may be used uninitialized [-Wmaybe-uninitialized] 462 | if (n_els == 0) return; | ^~ serialize.cpp: In function ‘void serialize_combined(const char*, const char*, const char*, const char*, const char*, std::size_t, otype&) [with otype = std::basic_ostream]’: serialize.cpp:3840:25: note: ‘size_model2’ was declared here 3840 | size_t size_model1, size_model2, size_model3, size_model4; | ^~~~~~~~~~~ In function ‘void write_bytes(const void*, std::size_t, std::ostream&) [with dtype = char]’, inlined from ‘void serialize_combined(const char*, const char*, const char*, const char*, const char*, std::size_t, otype&) [with otype = std::basic_ostream]’ at serialize.cpp:3938:26: serialize.cpp:462:5: warning: ‘size_model3’ may be used uninitialized [-Wmaybe-uninitialized] 462 | if (n_els == 0) return; | ^~ serialize.cpp: In function ‘void serialize_combined(const char*, const char*, const char*, const char*, const char*, std::size_t, otype&) [with otype = std::basic_ostream]’: serialize.cpp:3840:38: note: ‘size_model3’ was declared here 3840 | size_t size_model1, size_model2, size_model3, size_model4; | ^~~~~~~~~~~ In function ‘void write_bytes(const void*, std::size_t, std::ostream&) [with dtype = char]’, inlined from ‘void serialize_combined(const char*, const char*, const char*, const char*, const char*, std::size_t, otype&) [with otype = std::basic_ostream]’ at serialize.cpp:3940:26: serialize.cpp:462:5: warning: ‘size_model4’ may be used uninitialized [-Wmaybe-uninitialized] 462 | if (n_els == 0) return; | ^~ serialize.cpp: In function ‘void serialize_combined(const char*, const char*, const char*, const char*, const char*, std::size_t, otype&) [with otype = std::basic_ostream]’: serialize.cpp:3840:51: note: ‘size_model4’ was declared here 3840 | size_t size_model1, size_model2, size_model3, size_model4; | ^~~~~~~~~~~ In function ‘void write_bytes(const void*, std::size_t, char*&) [with dtype = char]’, inlined from ‘void serialize_combined(const char*, const char*, const char*, const char*, const char*, std::size_t, otype&) [with otype = char*]’ at serialize.cpp:3934:26: serialize.cpp:454:5: warning: ‘size_model1’ may be used uninitialized [-Wmaybe-uninitialized] 454 | if (n_els == 0) return; | ^~ serialize.cpp: In function ‘void serialize_combined(const char*, const char*, const char*, const char*, const char*, std::size_t, otype&) [with otype = char*]’: serialize.cpp:3840:12: note: ‘size_model1’ was declared here 3840 | size_t size_model1, size_model2, size_model3, size_model4; | ^~~~~~~~~~~ In function ‘void write_bytes(const void*, std::size_t, char*&) [with dtype = char]’, inlined from ‘void serialize_combined(const char*, const char*, const char*, const char*, const char*, std::size_t, otype&) [with otype = char*]’ at serialize.cpp:3936:26: serialize.cpp:454:5: warning: ‘size_model2’ may be used uninitialized [-Wmaybe-uninitialized] 454 | if (n_els == 0) return; | ^~ serialize.cpp: In function ‘void serialize_combined(const char*, const char*, const char*, const char*, const char*, std::size_t, otype&) [with otype = char*]’: serialize.cpp:3840:25: note: ‘size_model2’ was declared here 3840 | size_t size_model1, size_model2, size_model3, size_model4; | ^~~~~~~~~~~ In function ‘void write_bytes(const void*, std::size_t, char*&) [with dtype = char]’, inlined from ‘void serialize_combined(const char*, const char*, const char*, const char*, const char*, std::size_t, otype&) [with otype = char*]’ at serialize.cpp:3938:26: serialize.cpp:454:5: warning: ‘size_model3’ may be used uninitialized [-Wmaybe-uninitialized] 454 | if (n_els == 0) return; | ^~ serialize.cpp: In function ‘void serialize_combined(const char*, const char*, const char*, const char*, const char*, std::size_t, otype&) [with otype = char*]’: serialize.cpp:3840:38: note: ‘size_model3’ was declared here 3840 | size_t size_model1, size_model2, size_model3, size_model4; | ^~~~~~~~~~~ In function ‘void write_bytes(const void*, std::size_t, char*&) [with dtype = char]’, inlined from ‘void serialize_combined(const char*, const char*, const char*, const char*, const char*, std::size_t, otype&) [with otype = char*]’ at serialize.cpp:3940:26: serialize.cpp:454:5: warning: ‘size_model4’ may be used uninitialized [-Wmaybe-uninitialized] 454 | if (n_els == 0) return; | ^~ serialize.cpp: In function ‘void serialize_combined(const char*, const char*, const char*, const char*, const char*, std::size_t, otype&) [with otype = char*]’: serialize.cpp:3840:51: note: ‘size_model4’ was declared here 3840 | size_t size_model1, size_model2, size_model3, size_model4; | ^~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -DRCPP_USE_UNWIND_PROTECT -D_FOR_R -D_USE_XOSHIRO -D_USE_ROBIN_MAP -DSUPPORTS_RESTRICT=1 -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 -fopenmp -fno-math-errno -fno-trapping-math -fvisibility=hidden -fpic -g -O2 -Wall -pedantic -mtune=native -c sql.cpp -o sql.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -DRCPP_USE_UNWIND_PROTECT -D_FOR_R -D_USE_XOSHIRO -D_USE_ROBIN_MAP -DSUPPORTS_RESTRICT=1 -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 -fopenmp -fno-math-errno -fno-trapping-math -fvisibility=hidden -fpic -g -O2 -Wall -pedantic -mtune=native -c subset_models.cpp -o subset_models.o g++-14 -std=gnu++17 -shared -L/home/hornik/tmp/R/lib -Wl,-O1 -o isotree.so RcppExports.o Rwrapper.o formatted_exporters.o indexer.o merge_models.o serialize.o sql.o subset_models.o -fopenmp -L/home/hornik/tmp/R/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpWnjApN/R.INSTALL97be44e95e214/isotree/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-isotree/00new/isotree/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 (isotree) * installing *source* package ‘VarSelLCM’ ... ** this is package ‘VarSelLCM’ version ‘2.1.3.1’ ** package ‘VarSelLCM’ 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/Rtmp8gWMNB/R.INSTALL984e55833c6cb/VarSelLCM/src' g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/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/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c Algorithm.cpp -o Algorithm.o Algorithm.cpp: In member function ‘void Algorithm::Run(Rcpp::S4*)’: Algorithm.cpp:29:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const unsigned int’} [-Wsign-compare] 29 | for (int ini=0; inim_whotakewhat[j][h].n_rows; i++) nkjh(m_zCandCurrent(data_p->m_whotakewhat[j][h](i)), h)+=data_p->m_w(data_p->m_whotakewhat[j][h](i)); | ~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ AlgorithmCategorical.cpp: In member function ‘double AlgorithmCategorical::IntegreOneVariableCategoricalDiscrim(const int&, const arma::colvec&)’: AlgorithmCategorical.cpp:37:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const unsigned int’} [-Wsign-compare] 37 | for (int i=0; im_whotakewhat[j][h].n_rows; i++) nkjh(z(data_p->m_whotakewhat[j][h](i)), h)+=data_p->m_w(data_p->m_whotakewhat[j][h](i)); | ~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/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/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c AlgorithmContinuous.cpp -o AlgorithmContinuous.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R/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/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c AlgorithmInteger.cpp -o AlgorithmInteger.o AlgorithmInteger.cpp: In member function ‘double AlgorithmInteger::IntegreOneVariable(const arma::vec&, const int&)’: AlgorithmInteger.cpp:24:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const unsigned int’} [-Wsign-compare] 24 | for (int i=0; i dlogPoisson(const arma::Col&, const arma::Col&, double)’: XEMInteger.cpp:6:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const unsigned int’} [-Wsign-compare] 6 | for (int i=0; i dlogPoissonbis(const arma::Col&, const arma::Col&, double)’: XEMMixed.cpp:11:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const unsigned int’} [-Wsign-compare] 11 | for (int i=0; i dlogPoissonter(const arma::Col&, const arma::Col&, double)’: XEMPen.cpp:11:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const unsigned int’} [-Wsign-compare] 11 | for (int i=0; i= 3.0.0) Timings: user system elapsed fastcluster 42.346 3.991 47.638 Results: Check status summary: NOTE OK Source packages 0 1 Reverse depends 9 25 Check results summary: fastcluster ... OK rdepends_bahc ... OK rdepends_bioregion ... OK rdepends_ClustAssess ... OK rdepends_cstab ... OK rdepends_disto ... NOTE * checking package subdirectories ... NOTE * checking Rd files ... [0s/0s] NOTE rdepends_familiar ... OK rdepends_FCPS ... OK rdepends_funMoDisco ... OK rdepends_heatmap3 ... NOTE * checking Rd files ... [0s/0s] NOTE rdepends_HierPortfolios ... OK rdepends_hyperSpec ... NOTE * checking Rd cross-references ... NOTE rdepends_hypervolume ... OK rdepends_ICGE ... NOTE * checking Rd cross-references ... NOTE rdepends_iheatmapr ... OK rdepends_IncDTW ... NOTE * checking C++ specification ... NOTE rdepends_linkcomm ... NOTE * checking Rd cross-references ... NOTE rdepends_maotai ... OK rdepends_mappeR ... OK rdepends_MapperAlgo ... OK rdepends_MetProc ... NOTE * checking for non-standard things in the check directory ... NOTE rdepends_MLGL ... NOTE * checking Rd files ... [0s/1s] NOTE * checking Rd cross-references ... NOTE rdepends_mousetrap ... OK rdepends_MRPC ... NOTE * checking Rd cross-references ... NOTE rdepends_NPflow ... OK rdepends_pagoda2 ... OK rdepends_PropClust ... OK rdepends_RAFS ... OK rdepends_SPARTAAS ... OK rdepends_SpatialVx ... OK rdepends_TRexSelector ... OK rdepends_visxhclust ... OK rdepends_VoxR ... OK rdepends_WeightedCluster ... OK rdepends_WGCNA ... OK Check results changes: Package: bahc Check: CRAN incoming feasibility Old result: NOTE Package: cstab Check: CRAN incoming feasibility Old result: NOTE Package: heatmap3 Check: CRAN incoming feasibility Old result: NOTE Package: IncDTW Check: CRAN incoming feasibility Old result: NOTE Package: linkcomm Check: CRAN incoming feasibility Old result: NOTE Package: MetProc Check: CRAN incoming feasibility Old result: NOTE Package: MRPC Check: CRAN incoming feasibility Old result: NOTE Package: PropClust Check: CRAN incoming feasibility Old result: NOTE Package: TRexSelector Check: CRAN incoming feasibility Old result: NOTE