downloading reverse dependencies ... downloading cleanr_1.4.0.tar.gz ... ok downloading DataPackageR_0.16.1.tar.gz ... ok downloading detectseparation_0.3.tar.gz ... ok downloading devtools_2.4.5.tar.gz ... ok downloading doctest_0.3.0.tar.gz ... ok downloading fusen_0.7.2.tar.gz ... ok downloading gwpcormapper_0.1.3.tar.gz ... ok downloading madrat_3.15.6.tar.gz ... ok downloading MainExistingDatasets_1.0.2.tar.gz ... ok downloading NNbenchmark_3.2.0.tar.gz ... ok downloading packager_1.15.3.tar.gz ... ok downloading PhilipsHue_1.0.0.tar.gz ... ok downloading rbmi_1.4.1.tar.gz ... ok downloading riskmetric_0.2.5.tar.gz ... ok downloading roxygen2_7.3.3.tar.gz ... ok downloading srcpkgs_0.1.tar.gz ... ok downloading testthat_3.2.3.tar.gz ... ok downloading testthis_1.1.1.tar.gz ... ok downloading activAnalyzer_2.1.2.tar.gz ... ok downloading arrow_21.0.0.1.tar.gz ... ok downloading autoimport_0.1.1.tar.gz ... ok downloading butcher_0.3.6.tar.gz ... ok downloading cnd_0.1.0.tar.gz ... ok downloading conflicted_1.2.0.tar.gz ... ok downloading cucumber_2.1.1.tar.gz ... ok downloading dataquieR_2.5.1.tar.gz ... ok downloading DBItest_1.8.2.tar.gz ... ok downloading document_4.0.1.tar.gz ... ok downloading downlit_0.4.4.tar.gz ... ok downloading dynwrap_1.2.4.tar.gz ... ok downloading evaluate_1.0.5.tar.gz ... ok downloading fakemake_1.11.1.tar.gz ... ok downloading FastRet_1.1.4.tar.gz ... ok downloading fledge_0.1.2.tar.gz ... ok downloading fritools_4.5.0.tar.gz ... ok downloading fritools2_4.1.0.tar.gz ... ok downloading generics_0.1.4.tar.gz ... ok downloading golem_0.5.1.tar.gz ... ok downloading HandTill2001_1.0.2.tar.gz ... ok downloading httptest_4.2.2.tar.gz ... ok downloading httptest2_1.2.1.tar.gz ... ok downloading inlcolor_1.0.6.tar.gz ... ok downloading inlpubs_1.3.0.tar.gz ... ok downloading leprechaun_1.0.0.tar.gz ... ok downloading LightLogR_0.9.2.tar.gz ... ok downloading maSAE_2.0.3.tar.gz ... ok downloading metabodecon_1.6.2.tar.gz ... ok downloading mockr_0.2.2.tar.gz ... ok downloading mockthat_0.2.8.tar.gz ... ok downloading odin_1.2.7.tar.gz ... ok downloading options_0.3.1.tar.gz ... ok downloading ordinalsimr_0.2.3.tar.gz ... ok downloading pak_0.9.0.tar.gz ... ok downloading pakret_0.2.2.tar.gz ... ok downloading parzer_0.4.4.tar.gz ... ok downloading pkgdown_2.1.3.tar.gz ... ok downloading potions_0.2.0.tar.gz ... ok downloading precommit_0.4.3.tar.gz ... ok downloading prompt_1.0.2.tar.gz ... ok downloading psborrow_0.2.4.tar.gz ... ok downloading quarto_1.5.1.tar.gz ... ok downloading quickr_0.2.0.tar.gz ... ok downloading rasciidoc_4.1.1.tar.gz ... ok downloading rBDAT_1.1.0.tar.gz ... ok downloading readtext_0.92.1.tar.gz ... ok downloading ready4_0.1.18.tar.gz ... ok downloading ReviewR_2.3.10.tar.gz ... ok downloading ricu_0.6.3.tar.gz ... ok downloading rlang_1.1.6.tar.gz ... ok downloading rstantools_2.5.0.tar.gz ... ok downloading Ryacas_1.1.5.tar.gz ... ok downloading Ryacas0_0.4.5.tar.gz ... ok downloading scenes_0.1.0.tar.gz ... ok downloading scrutiny_0.6.0.tar.gz ... ok downloading senseweight_0.0.1.tar.gz ... ok downloading shinyCohortBuilder_0.3.1.tar.gz ... ok downloading shinyquiz_0.0.1.tar.gz ... ok downloading SIAtools_0.1.3.tar.gz ... ok downloading SpaDES.core_2.1.8.tar.gz ... ok downloading Spectran_1.0.6.tar.gz ... ok downloading targets_1.11.4.tar.gz ... ok downloading teal.modules.clinical_0.11.1.tar.gz ... ok downloading teal.modules.general_0.5.0.tar.gz ... ok downloading TestDesign_1.7.0.tar.gz ... ok downloading tfrmtbuilder_0.1.0.tar.gz ... ok downloading tibble_3.3.0.tar.gz ... ok downloading treePlotArea_2.1.0.tar.gz ... ok downloading usethis_3.2.1.tar.gz ... ok downloading verifyr2_1.0.0.tar.gz ... ok downloading viewpoly_0.4.1.tar.gz ... ok downloading webmap_1.1.1.tar.gz ... ok installing dependencies ‘attachment’, ‘autometric’, ‘babelwhale’, ‘bigrquery’, ‘BiocCheck’, ‘brnn’, ‘cinterpolate’, ‘cleanr’, ‘clustermq’, ‘cohortBuilder’, ‘colorSpec’, ‘connectapi’, ‘constructive’, ‘cookies’, ‘corrr’, ‘crew’, ‘cyclocomp’, ‘dataverse’, ‘dbx’, ‘dde’, ‘decor’, ‘diffviewer’, ‘distro’, ‘dockerfiler’, ‘document’, ‘dotty’, ‘dyndimred’, ‘dynparam’, ‘dynutils’, ‘eicu.demo’, ‘exams’, ‘fakemake’, ‘flexsiteboard’, ‘foghorn’, ‘forestinventory’, ‘forestmodel’, ‘future.batchtools’, ‘gghighlight’, ‘ggmosaic’, ‘ggsci’, ‘ggvenn’, ‘gmailr’, ‘googleCloudStorageR’, ‘gurobi’, ‘hidecan’, ‘JBrowseR’, ‘JoSAE’, ‘languageserver’, ‘lightparser’, ‘magclass’, ‘MakefileR’, ‘MassSpecWavelet’, ‘mdrb’, ‘mimic.demo’, ‘mirtCAT’, ‘mockthat’, ‘MultinomialCI’, ‘muttest’, ‘nestcolor’, ‘NLMR’, ‘packer’, ‘PhysicalActivity’, ‘piggyback’, ‘pkgcache’, ‘pkgdepends’, ‘pkgload’, ‘pkgsearch’, ‘prt’, ‘qmrparser’, ‘qs2’, ‘QSARdata’, ‘queryBuilder’, ‘quickPlot’, ‘rankICC’, ‘rcdk’, ‘readJDX’, ‘redcapAPI’, ‘REDCapR’, ‘reproducible’, ‘Require’, ‘rhub’, ‘ring’, ‘rlistings’, ‘ROI.plugin.alabama’, ‘ROI.plugin.ecos’, ‘ROI.plugin.lpsolve’, ‘ROI.plugin.neos’, ‘roxy.shinylive’, ‘rsae’, ‘shinyGizmo’, ‘shinyQueryBuilder’, ‘shinyTree’, ‘shinyvalidate’, ‘SpaDES.tools’, ‘sparkline’, ‘speaq’, ‘spsComps’, ‘suntools’, ‘tarchetypes’, ‘teal’, ‘teal.code’, ‘teal.data’, ‘teal.logger’, ‘teal.reporter’, ‘teal.transform’, ‘teal.widgets’, ‘tern’, ‘tern.gee’, ‘tern.mmrm’, ‘tesseract’, ‘tfrmt’, ‘thematic’, ‘tidyRSS’, ‘toscutil’, ‘unix’, ‘validann’, ‘vistime’, ‘xrf’, ‘zen4R’ Warning: packages ‘mdrb’, ‘mimic.demo’, ‘eicu.demo’, ‘NLMR’, ‘gurobi’ 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 ‘rdflib’, ‘xmlrpc2’, ‘BiocBaseUtils’, ‘biocViews’, ‘treesitter’, ‘treesitter.r’, ‘carrier’, ‘lmds’, ‘rcdklibs’, ‘fingerprint’, ‘atom4R’, ‘labelVector’, ‘shelter’, ‘shinytoastr’, ‘teal.slice’, ‘rtables.officer’, ‘geeasy’, ‘lzstring’, ‘productplots’ begin installing package ‘pkgload’ begin installing package ‘xmlrpc2’ begin installing package ‘BiocBaseUtils’ begin installing package ‘biocViews’ begin installing package ‘treesitter’ begin installing package ‘treesitter.r’ begin installing package ‘carrier’ begin installing package ‘rcdklibs’ begin installing package ‘fingerprint’ begin installing package ‘labelVector’ begin installing package ‘shelter’ begin installing package ‘shinytoastr’ begin installing package ‘geeasy’ begin installing package ‘lzstring’ begin installing package ‘productplots’ begin installing package ‘ROI.plugin.lpsolve’ begin installing package ‘ROI.plugin.ecos’ begin installing package ‘ROI.plugin.alabama’ begin installing package ‘foghorn’ begin installing package ‘gmailr’ begin installing package ‘rhub’ begin installing package ‘lightparser’ begin installing package ‘magclass’ begin installing package ‘brnn’ begin installing package ‘validann’ begin installing package ‘cyclocomp’ begin installing package ‘diffviewer’ begin installing package ‘PhysicalActivity’ * installing *source* package ‘diffviewer’ ... ** this is package ‘diffviewer’ version ‘0.1.2’ ** package ‘diffviewer’ 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 (diffviewer) begin installing package ‘decor’ * installing *source* package ‘labelVector’ ... ** this is package ‘labelVector’ version ‘0.1.2’ ** package ‘labelVector’ 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 (labelVector) begin installing package ‘distro’ * installing *source* package ‘cyclocomp’ ... ** this is package ‘cyclocomp’ version ‘1.1.1’ ** package ‘cyclocomp’ 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 (cyclocomp) begin installing package ‘QSARdata’ * installing *source* package ‘BiocBaseUtils’ ... ** this is package ‘BiocBaseUtils’ version ‘1.10.0’ ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (BiocBaseUtils) begin installing package ‘xrf’ * installing *source* package ‘carrier’ ... ** this is package ‘carrier’ version ‘0.3.0.4’ ** package ‘carrier’ 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 (carrier) begin installing package ‘MultinomialCI’ * installing *source* package ‘shelter’ ... ** this is package ‘shelter’ version ‘0.2.1’ ** package ‘shelter’ 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 (shelter) begin installing package ‘qmrparser’ * installing *source* package ‘ROI.plugin.alabama’ ... ** this is package ‘ROI.plugin.alabama’ version ‘1.0-2’ ** package ‘ROI.plugin.alabama’ 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 (ROI.plugin.alabama) begin installing package ‘flexsiteboard’ * installing *source* package ‘xmlrpc2’ ... ** this is package ‘xmlrpc2’ version ‘1.2’ ** package ‘xmlrpc2’ 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 (xmlrpc2) begin installing package ‘ggvenn’ * installing *source* package ‘ROI.plugin.lpsolve’ ... ** this is package ‘ROI.plugin.lpsolve’ version ‘1.0-2’ ** package ‘ROI.plugin.lpsolve’ 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 (ROI.plugin.lpsolve) begin installing package ‘dbx’ * installing *source* package ‘validann’ ... ** this is package ‘validann’ version ‘1.2.1’ ** package ‘validann’ 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 (validann) begin installing package ‘rankICC’ * installing *source* package ‘rcdklibs’ ... ** this is package ‘rcdklibs’ version ‘2.9’ ** package ‘rcdklibs’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (rcdklibs) begin installing package ‘constructive’ * installing *source* package ‘PhysicalActivity’ ... ** this is package ‘PhysicalActivity’ version ‘0.2-4’ ** package ‘PhysicalActivity’ 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 (PhysicalActivity) begin installing package ‘MassSpecWavelet’ * installing *source* package ‘distro’ ... ** this is package ‘distro’ version ‘0.1.1’ ** package ‘distro’ 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 (distro) begin installing package ‘dynutils’ * installing *source* package ‘treesitter.r’ ... ** this is package ‘treesitter.r’ version ‘1.2.0’ ** package ‘treesitter.r’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C compiler: ‘gcc-15 (Debian 15.2.0-4) 15.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/Rtmpo8zv99/R.INSTALL6017f33ff1a87/treesitter.r/src' gcc-15 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c binding.c -o binding.o gcc-15 -I"/home/hornik/tmp/R-d-gcc-15/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-15 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c parser.c -o parser.o gcc-15 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c scanner.c -o scanner.o gcc-15 -shared -L/home/hornik/tmp/R-d-gcc-15/lib -Wl,-O1 -o treesitter.r.so binding.o init.o parser.o scanner.o -L/home/hornik/tmp/R-d-gcc-15/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/Rtmpo8zv99/R.INSTALL6017f33ff1a87/treesitter.r/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-treesitter.r/00new/treesitter.r/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 (treesitter.r) begin installing package ‘MakefileR’ * installing *source* package ‘shinytoastr’ ... ** this is package ‘shinytoastr’ version ‘2.2.0’ ** package ‘shinytoastr’ 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 (shinytoastr) begin installing package ‘toscutil’ * installing *source* package ‘lightparser’ ... ** this is package ‘lightparser’ version ‘0.1.0’ ** package ‘lightparser’ 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 (lightparser) begin installing package ‘dockerfiler’ * installing *source* package ‘QSARdata’ ... ** this is package ‘QSARdata’ version ‘1.3’ ** package ‘QSARdata’ 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 (QSARdata) begin installing package ‘connectapi’ * installing *source* package ‘brnn’ ... ** this is package ‘brnn’ version ‘0.9.4’ ** package ‘brnn’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C compiler: ‘gcc-15 (Debian 15.2.0-4) 15.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpZDaGzi/R.INSTALL601c61b6efd3e/brnn/src' gcc-15 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -I. -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c Lanczos.c -o Lanczos.o Lanczos.c: In function ‘extreme_eigenvalues’: Lanczos.c:191:5: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] 191 | for (xx=0.0,zp=z,p0=zp+*n;zp::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 549 | for (int i = 0; i < keyStrUriSafe.length(); ++i) baseReverseDic[keyStrUriSafe.at(i)] = i; | ~~^~~~~~~~~~~~~~~~~~~~~~~~ lz-string.h: In function ‘lzstring::string lzstring::decompressFromBase64(const string&)’: lz-string.h:574:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::__cxx11::basic_string::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 574 | for (int i = 0; i < keyStrBase64.length(); ++i) baseReverseDic[keyStrBase64.at(i)] = i; | ~~^~~~~~~~~~~~~~~~~~~~~~~ g++-15 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-15/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++-15 -std=gnu++17 -shared -L/home/hornik/tmp/R-d-gcc-15/lib -Wl,-O1 -o lzstring.so code.o cpp11.o -L/home/hornik/tmp/R-d-gcc-15/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpNOe1yg/R.INSTALL601aa322b8c01/lzstring/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-lzstring/00new/lzstring/libs ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (lzstring) begin installing package ‘REDCapR’ * installing *source* package ‘suntools’ ... ** this is package ‘suntools’ version ‘1.0.1’ ** package ‘suntools’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** byte-compile and prepare package for lazy loading in method for ‘crepuscule’ with signature ‘crds="SpatialPoints",dateTime="POSIXct"’: no definition for class “SpatialPoints” in method for ‘solarnoon’ with signature ‘crds="SpatialPoints",dateTime="POSIXct"’: no definition for class “SpatialPoints” in method for ‘solarpos’ with signature ‘crds="SpatialPoints",dateTime="POSIXct"’: no definition for class “SpatialPoints” in method for ‘sunriset’ with signature ‘crds="SpatialPoints",dateTime="POSIXct"’: no definition for class “SpatialPoints” ** 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 (suntools) begin installing package ‘prt’ * installing *source* package ‘dotty’ ... ** this is package ‘dotty’ version ‘0.1.0’ ** package ‘dotty’ 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 (dotty) begin installing package ‘mockthat’ * installing *source* package ‘dockerfiler’ ... ** this is package ‘dockerfiler’ version ‘0.2.5’ ** package ‘dockerfiler’ 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 (dockerfiler) begin installing package ‘forestmodel’ * installing *source* package ‘ggvenn’ ... ** this is package ‘ggvenn’ version ‘0.1.10’ ** package ‘ggvenn’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (ggvenn) begin installing package ‘exams’ * installing *source* package ‘readJDX’ ... ** this is package ‘readJDX’ version ‘0.6.4’ ** package ‘readJDX’ 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 (readJDX) begin installing package ‘unix’ * installing *source* package ‘rsae’ ... ** this is package ‘rsae’ version ‘0.3’ ** package ‘rsae’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C compiler: ‘gcc-15 (Debian 15.2.0-4) 15.2.0’ using Fortran compiler: ‘GNU Fortran (Debian 15.2.0-4) 15.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/RtmplBkBn3/R.INSTALL60b134635e9ef/rsae/src' gcc-15 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c init.c -o init.o gfortran-15 -fpic -g -O2 -Wall -pedantic -mtune=native -c rsae.f90 -o rsae.o gfortran-15 -fpic -g -O2 -Wall -pedantic -mtune=native -c zero_rc.f90 -o zero_rc.o gcc-15 -shared -L/home/hornik/tmp/R-d-gcc-15/lib -Wl,-O1 -o rsae.so init.o rsae.o zero_rc.o -llapack -L/home/hornik/tmp/R-d-gcc-15/lib -lRblas -lgfortran -lm -lquadmath -lgfortran -lm -lquadmath -L/home/hornik/tmp/R-d-gcc-15/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmplBkBn3/R.INSTALL60b134635e9ef/rsae/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-rsae/00new/rsae/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 (rsae) begin installing package ‘cookies’ * installing *source* package ‘piggyback’ ... ** this is package ‘piggyback’ version ‘0.1.5’ ** package ‘piggyback’ 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 (piggyback) begin installing package ‘corrr’ * installing *source* package ‘pkgsearch’ ... ** this is package ‘pkgsearch’ version ‘3.1.5’ ** package ‘pkgsearch’ 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 (pkgsearch) begin installing package ‘cohortBuilder’ * installing *source* package ‘magclass’ ... ** this is package ‘magclass’ version ‘6.13.2’ ** package ‘magclass’ 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 in method for ‘as.array’ with signature ‘x="magpie"’: no definition for class “magpie” in method for ‘as.data.frame’ with signature ‘x="magpie"’: no definition for class “magpie” in method for ‘as.magpie’ with signature ‘x="magpie"’: no definition for class “magpie” in method for ‘as.magpie’ with signature ‘x="lpj"’: no definition for class “lpj” in method for ‘as.magpie’ with signature ‘x="LPJmLData"’: no definition for class “LPJmLData” in method for ‘as.magpie’ with signature ‘x="quitte"’: no definition for class “quitte” in method for ‘as.magpie’ with signature ‘x="tbl_df"’: no definition for class “tbl_df” in method for ‘as.magpie’ with signature ‘x="RasterBrick"’: no definition for class “RasterBrick” in method for ‘as.magpie’ with signature ‘x="RasterStack"’: no definition for class “RasterStack” in method for ‘as.magpie’ with signature ‘x="RasterLayer"’: no definition for class “RasterLayer” in method for ‘as.magpie’ with signature ‘x="SpatRaster"’: no definition for class “SpatRaster” in method for ‘as.magpie’ with signature ‘x="SpatVector"’: no definition for class “SpatVector” Creating a generic function for ‘colMeans’ from package ‘base’ in package ‘magclass’ in method for ‘colMeans’ with signature ‘x="magpie"’: no definition for class “magpie” Creating a generic function for ‘colSums’ from package ‘base’ in package ‘magclass’ in method for ‘colSums’ with signature ‘x="magpie"’: no definition for class “magpie” Creating a generic function for ‘ifelse’ from package ‘base’ in package ‘magclass’ in method for ‘ifelse’ with signature ‘test="magpie"’: no definition for class “magpie” in method for ‘is.na’ with signature ‘x="magpie"’: no definition for class “magpie” in method for ‘is.nan’ with signature ‘x="magpie"’: no definition for class “magpie” in method for ‘is.infinite’ with signature ‘x="magpie"’: no definition for class “magpie” in method for ‘is.finite’ with signature ‘x="magpie"’: no definition for class “magpie” in method for ‘log’ with signature ‘x="magpie"’: no definition for class “magpie” Creating a generic function for ‘logb’ from package ‘base’ in package ‘magclass’ in method for ‘logb’ with signature ‘x="magpie"’: no definition for class “magpie” Creating a generic function for ‘rowMeans’ from package ‘base’ in package ‘magclass’ Creating a generic function for ‘rowSums’ from package ‘base’ in package ‘magclass’ Creating a generic function for ‘setNames’ from package ‘stats’ in package ‘magclass’ ** 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 (magclass) begin installing package ‘shinyGizmo’ * installing *source* package ‘thematic’ ... ** this is package ‘thematic’ version ‘0.1.7’ ** package ‘thematic’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (thematic) begin installing package ‘queryBuilder’ * installing *source* package ‘mockthat’ ... ** this is package ‘mockthat’ version ‘0.2.8’ ** package ‘mockthat’ 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 (mockthat) begin installing package ‘quickPlot’ * installing *source* package ‘ring’ ... ** this is package ‘ring’ version ‘1.0.6’ ** package ‘ring’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C compiler: ‘gcc-15 (Debian 15.2.0-4) 15.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/Rtmp1aMJuc/R.INSTALL60b66364811b2/ring/src' gcc-15 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -I../inst/include -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c convert.c -o convert.o gcc-15 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -I../inst/include -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c registration.c -o registration.o gcc-15 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -I../inst/include -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c ring.c -o ring.o gcc-15 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -I../inst/include -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c ring_r.c -o ring_r.o gcc-15 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -I../inst/include -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c test.c -o test.o gcc-15 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -I../inst/include -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c util.c -o util.o gcc-15 -shared -L/home/hornik/tmp/R-d-gcc-15/lib -Wl,-O1 -o ring.so convert.o registration.o ring.o ring_r.o test.o util.o -L/home/hornik/tmp/R-d-gcc-15/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/Rtmp1aMJuc/R.INSTALL60b66364811b2/ring/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-ring/00new/ring/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 (ring) begin installing package ‘reproducible’ * installing *source* package ‘rhub’ ... ** this is package ‘rhub’ version ‘2.0.1’ ** package ‘rhub’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (rhub) begin installing package ‘Require’ * installing *source* package ‘biocViews’ ... ** this is package ‘biocViews’ version ‘1.76.0’ ** using staged installation ** R ** data ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (biocViews) begin installing package ‘colorSpec’ * installing *source* package ‘gghighlight’ ... ** this is package ‘gghighlight’ version ‘0.5.0’ ** package ‘gghighlight’ 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 (gghighlight) begin installing package ‘autometric’ * installing *source* package ‘dataverse’ ... ** this is package ‘dataverse’ version ‘0.3.15’ ** package ‘dataverse’ 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 (dataverse) begin installing package ‘clustermq’ * installing *source* package ‘xrf’ ... ** this is package ‘xrf’ version ‘0.2.2’ ** package ‘xrf’ 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 (xrf) begin installing package ‘crew’ * installing *source* package ‘cookies’ ... ** this is package ‘cookies’ version ‘0.2.3’ ** package ‘cookies’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (cookies) begin installing package ‘future.batchtools’ * installing *source* package ‘unix’ ... ** this is package ‘unix’ version ‘1.5.9’ ** package ‘unix’ successfully unpacked and MD5 sums checked ** using staged installation Checking for AppArmor... (Linux) Found pkg-config cflags/libs! Using PKG_CFLAGS= Using PKG_LIBS=-lapparmor ** libs using C compiler: ‘gcc-15 (Debian 15.2.0-4) 15.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpvVHqyp/R.INSTALL60f5756b5b403/unix/src' rm -f unix.so chroot.o fork.o process.o register.o rlimit.o userinfo.o util.o gcc-15 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -DHAVE_APPARMOR -DSYS_BUILD_SAFE -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fvisibility=hidden -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c chroot.c -o chroot.o gcc-15 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -DHAVE_APPARMOR -DSYS_BUILD_SAFE -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fvisibility=hidden -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c fork.c -o fork.o gcc-15 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -DHAVE_APPARMOR -DSYS_BUILD_SAFE -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fvisibility=hidden -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c process.c -o process.o gcc-15 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -DHAVE_APPARMOR -DSYS_BUILD_SAFE -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fvisibility=hidden -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c register.c -o register.o gcc-15 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -DHAVE_APPARMOR -DSYS_BUILD_SAFE -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fvisibility=hidden -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c rlimit.c -o rlimit.o gcc-15 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -DHAVE_APPARMOR -DSYS_BUILD_SAFE -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fvisibility=hidden -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c userinfo.c -o userinfo.o gcc-15 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -DHAVE_APPARMOR -DSYS_BUILD_SAFE -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fvisibility=hidden -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c util.c -o util.o gcc-15 -shared -L/home/hornik/tmp/R-d-gcc-15/lib -Wl,-O1 -o unix.so chroot.o fork.o process.o register.o rlimit.o userinfo.o util.o -lapparmor -L/home/hornik/tmp/R-d-gcc-15/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpvVHqyp/R.INSTALL60f5756b5b403/unix/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-unix/00new/unix/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 (unix) begin installing package ‘googleCloudStorageR’ * installing *source* package ‘prt’ ... ** this is package ‘prt’ version ‘0.2.1’ ** package ‘prt’ 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 (prt) begin installing package ‘qs2’ * installing *source* package ‘shinyGizmo’ ... ** this is package ‘shinyGizmo’ version ‘0.4.2’ ** package ‘shinyGizmo’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (shinyGizmo) begin installing package ‘tarchetypes’ * installing *source* package ‘tidyRSS’ ... ** this is package ‘tidyRSS’ version ‘2.0.7’ ** package ‘tidyRSS’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (tidyRSS) begin installing package ‘rlistings’ * installing *source* package ‘colorSpec’ ... ** this is package ‘colorSpec’ version ‘1.8-0’ ** package ‘colorSpec’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** data *** moving datasets to lazyload DB ** inst ** preparing 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 (colorSpec) begin installing package ‘shinyvalidate’ * installing *source* package ‘autometric’ ... ** this is package ‘autometric’ version ‘0.1.2’ ** package ‘autometric’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C compiler: ‘gcc-15 (Debian 15.2.0-4) 15.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpvNKXhw/R.INSTALL6125c6c5ab755/autometric/src' gcc-15 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c autometric.c -o autometric.o gcc-15 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c export.c -o export.o gcc-15 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c metrics.c -o metrics.o gcc-15 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c metrics_linux.c -o metrics_linux.o gcc-15 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c metrics_mac.c -o metrics_mac.o gcc-15 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c metrics_windows.c -o metrics_windows.o gcc-15 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c thread.c -o thread.o gcc-15 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c timers.c -o timers.o gcc-15 -shared -L/home/hornik/tmp/R-d-gcc-15/lib -Wl,-O1 -o autometric.so autometric.o export.o metrics.o metrics_linux.o metrics_mac.o metrics_windows.o thread.o timers.o -lpthread -L/home/hornik/tmp/R-d-gcc-15/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpvNKXhw/R.INSTALL6125c6c5ab755/autometric/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-autometric/00new/autometric/libs ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (autometric) begin installing package ‘teal.code’ * installing *source* package ‘REDCapR’ ... ** this is package ‘REDCapR’ version ‘1.5.0’ ** package ‘REDCapR’ 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 (REDCapR) begin installing package ‘teal.logger’ * installing *source* package ‘geeasy’ ... ** this is package ‘geeasy’ version ‘0.1.3’ ** package ‘geeasy’ 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 (geeasy) begin installing package ‘teal.widgets’ * installing *source* package ‘forestmodel’ ... ** this is package ‘forestmodel’ version ‘0.6.2’ ** package ‘forestmodel’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (forestmodel) begin installing package ‘vistime’ * installing *source* package ‘queryBuilder’ ... ** this is package ‘queryBuilder’ version ‘0.1.0’ ** package ‘queryBuilder’ 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 (queryBuilder) begin installing package ‘nestcolor’ * installing *source* package ‘corrr’ ... ** this is package ‘corrr’ version ‘0.4.5’ ** package ‘corrr’ 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 (corrr) begin installing package ‘shinyTree’ * installing *source* package ‘shinyvalidate’ ... ** this is package ‘shinyvalidate’ version ‘0.1.3’ ** package ‘shinyvalidate’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (shinyvalidate) begin installing package ‘sparkline’ * installing *source* package ‘forestinventory’ ... ** this is package ‘forestinventory’ version ‘1.0.0’ ** package ‘forestinventory’ 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 (forestinventory) begin installing package ‘mirtCAT’ * installing *source* package ‘teal.logger’ ... ** this is package ‘teal.logger’ version ‘0.4.0’ ** package ‘teal.logger’ 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 (teal.logger) begin installing package ‘tfrmt’ * installing *source* package ‘googleCloudStorageR’ ... ** this is package ‘googleCloudStorageR’ version ‘0.7.0’ ** package ‘googleCloudStorageR’ 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 (googleCloudStorageR) begin installing package ‘JBrowseR’ * installing *source* package ‘tesseract’ ... ** this is package ‘tesseract’ version ‘5.2.3’ ** package ‘tesseract’ successfully unpacked and MD5 sums checked ** using staged installation Found pkg-config cflags and libs! Using PKG_CFLAGS=-I/usr/include/leptonica Using PKG_LIBS=-ltesseract -larchive -lcurl Using CXX11CPP: g++-15 -E -std=gnu++11 ** libs using C++ compiler: ‘g++-15 (Debian 15.2.0-4) 15.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpY8BNqT/R.INSTALL608c12509bd77/tesseract/src' g++-15 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -I/usr/include/leptonica -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 -fvisibility=hidden -fpic -g -O2 -Wall -pedantic -mtune=native -c RcppExports.cpp -o RcppExports.o g++-15 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -I/usr/include/leptonica -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 -fvisibility=hidden -fpic -g -O2 -Wall -pedantic -mtune=native -c tesseract.cpp -o tesseract.o g++-15 -std=gnu++17 -shared -L/home/hornik/tmp/R-d-gcc-15/lib -Wl,-O1 -o tesseract.so RcppExports.o tesseract.o -ltesseract -larchive -lcurl -L/home/hornik/tmp/R-d-gcc-15/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpY8BNqT/R.INSTALL608c12509bd77/tesseract/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-tesseract/00new/tesseract/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 (tesseract) begin installing package ‘hidecan’ * installing *source* package ‘nestcolor’ ... ** this is package ‘nestcolor’ version ‘0.1.3’ ** package ‘nestcolor’ 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 (nestcolor) begin installing package ‘ggsci’ * installing *source* package ‘cohortBuilder’ ... ** this is package ‘cohortBuilder’ version ‘0.3.0’ ** package ‘cohortBuilder’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** data *** moving datasets to lazyload DB ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (cohortBuilder) begin installing package ‘ROI.plugin.neos’ * installing *source* package ‘teal.code’ ... ** this is package ‘teal.code’ version ‘0.7.0’ ** package ‘teal.code’ 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 (teal.code) begin installing package ‘BiocCheck’ * installing *source* package ‘constructive’ ... ** this is package ‘constructive’ version ‘1.3.0’ ** package ‘constructive’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C++ compiler: ‘g++-15 (Debian 15.2.0-4) 15.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpKXYqgc/R.INSTALL607574b570f14/constructive/src' g++-15 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c constructive.cpp -o constructive.o g++-15 -std=gnu++17 -shared -L/home/hornik/tmp/R-d-gcc-15/lib -Wl,-O1 -o constructive.so constructive.o -L/home/hornik/tmp/R-d-gcc-15/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpKXYqgc/R.INSTALL607574b570f14/constructive/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-constructive/00new/constructive/libs ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (constructive) begin installing package ‘fakemake’ * installing *source* package ‘connectapi’ ... ** this is package ‘connectapi’ version ‘0.8.0’ ** package ‘connectapi’ 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 (connectapi) begin installing package ‘cleanr’ * installing *source* package ‘sparkline’ ... ** this is package ‘sparkline’ version ‘2.0’ ** package ‘sparkline’ 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 (sparkline) begin installing package ‘rcdk’ * installing *source* package ‘future.batchtools’ ... ** this is package ‘future.batchtools’ version ‘0.21.0’ ** package ‘future.batchtools’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** demo ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (future.batchtools) begin installing package ‘speaq’ * installing *source* package ‘ROI.plugin.ecos’ ... ** this is package ‘ROI.plugin.ecos’ version ‘1.0-2’ ** package ‘ROI.plugin.ecos’ 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 (ROI.plugin.ecos) begin installing package ‘dde’ * installing *source* package ‘teal.widgets’ ... ** this is package ‘teal.widgets’ version ‘0.5.0’ ** package ‘teal.widgets’ 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 (teal.widgets) begin installing package ‘redcapAPI’ * installing *source* package ‘treesitter’ ... ** this is package ‘treesitter’ version ‘0.3.0’ ** package ‘treesitter’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C compiler: ‘gcc-15 (Debian 15.2.0-4) 15.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpYb3bEX/R.INSTALL601787e20173d/treesitter/src' gcc-15 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -I./tree-sitter/lib/include -I./tree-sitter/lib/src -I./rlang -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c tree-sitter/lib/src/lib.c -o tree-sitter/lib/src/lib.o gcc-15 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -I./tree-sitter/lib/include -I./tree-sitter/lib/src -I./rlang -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c alloc.c -o alloc.o gcc-15 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -I./tree-sitter/lib/include -I./tree-sitter/lib/src -I./rlang -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c dyn.c -o dyn.o gcc-15 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -I./tree-sitter/lib/include -I./tree-sitter/lib/src -I./rlang -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c external-pointer.c -o external-pointer.o gcc-15 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -I./tree-sitter/lib/include -I./tree-sitter/lib/src -I./rlang -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c init.c -o init.o gcc-15 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -I./tree-sitter/lib/include -I./tree-sitter/lib/src -I./rlang -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c language.c -o language.o gcc-15 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -I./tree-sitter/lib/include -I./tree-sitter/lib/src -I./rlang -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c node.c -o node.o gcc-15 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -I./tree-sitter/lib/include -I./tree-sitter/lib/src -I./rlang -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c parser.c -o parser.o gcc-15 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -I./tree-sitter/lib/include -I./tree-sitter/lib/src -I./rlang -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c query-matches.c -o query-matches.o gcc-15 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -I./tree-sitter/lib/include -I./tree-sitter/lib/src -I./rlang -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c query.c -o query.o gcc-15 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -I./tree-sitter/lib/include -I./tree-sitter/lib/src -I./rlang -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c rlang.c -o rlang.o gcc-15 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -I./tree-sitter/lib/include -I./tree-sitter/lib/src -I./rlang -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c tree-cursor.c -o tree-cursor.o gcc-15 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -I./tree-sitter/lib/include -I./tree-sitter/lib/src -I./rlang -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c tree.c -o tree.o gcc-15 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -I./tree-sitter/lib/include -I./tree-sitter/lib/src -I./rlang -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c utils.c -o utils.o gcc-15 -shared -L/home/hornik/tmp/R-d-gcc-15/lib -Wl,-O1 -o treesitter.so tree-sitter/lib/src/lib.o alloc.o dyn.o external-pointer.o init.o language.o node.o parser.o query-matches.o query.o rlang.o tree-cursor.o tree.o utils.o -L/home/hornik/tmp/R-d-gcc-15/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpYb3bEX/R.INSTALL601787e20173d/treesitter/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-treesitter/00new/treesitter/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 (treesitter) begin installing package ‘shinyQueryBuilder’ * installing *source* package ‘shinyTree’ ... ** this is package ‘shinyTree’ version ‘0.3.1’ ** package ‘shinyTree’ 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 (shinyTree) begin installing package ‘spsComps’ * installing *source* package ‘rlistings’ ... ** this is package ‘rlistings’ version ‘0.2.12’ ** package ‘rlistings’ 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 (rlistings) begin installing package ‘tern’ * installing *source* package ‘fakemake’ ... ** this is package ‘fakemake’ version ‘1.11.1’ ** package ‘fakemake’ 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 (fakemake) begin installing package ‘teal.data’ * installing *source* package ‘JBrowseR’ ... ** this is package ‘JBrowseR’ version ‘0.10.2’ ** package ‘JBrowseR’ 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 (JBrowseR) begin installing package ‘roxy.shinylive’ * installing *source* package ‘hidecan’ ... ** this is package ‘hidecan’ version ‘1.1.0’ ** package ‘hidecan’ 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 (hidecan) begin installing package ‘ggmosaic’ * installing *source* package ‘cleanr’ ... ** this is package ‘cleanr’ version ‘1.4.0’ ** package ‘cleanr’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** demo ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (cleanr) begin installing package ‘rdflib’ * installing *source* package ‘pkgcache’ ... ** this is package ‘pkgcache’ version ‘2.2.4’ ** package ‘pkgcache’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C compiler: ‘gcc-15 (Debian 15.2.0-4) 15.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/RtmponJ4p8/R.INSTALL60b84289d078a/pkgcache/src' gcc-15 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c errors.c -o errors.o gcc-15 -I"/home/hornik/tmp/R-d-gcc-15/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-15 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c lib.c -o lib.o gcc-15 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c winfiles.c -o winfiles.o gcc-15 -shared -L/home/hornik/tmp/R-d-gcc-15/lib -Wl,-O1 -o pkgcache.so errors.o init.o lib.o winfiles.o -L/home/hornik/tmp/R-d-gcc-15/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmponJ4p8/R.INSTALL60b84289d078a/pkgcache/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-pkgcache/00new/pkgcache/libs ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (pkgcache) begin installing package ‘attachment’ * installing *source* package ‘vistime’ ... ** this is package ‘vistime’ version ‘1.2.4’ ** package ‘vistime’ 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 (vistime) begin installing package ‘document’ * installing *source* package ‘ROI.plugin.neos’ ... ** this is package ‘ROI.plugin.neos’ version ‘1.0-2’ ** package ‘ROI.plugin.neos’ 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 (ROI.plugin.neos) begin installing package ‘languageserver’ * installing *source* package ‘crew’ ... ** this is package ‘crew’ version ‘1.3.0’ ** package ‘crew’ 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 (crew) begin installing package ‘packer’ * installing *source* package ‘tarchetypes’ ... ** this is package ‘tarchetypes’ version ‘0.13.2’ ** package ‘tarchetypes’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (tarchetypes) begin installing package ‘rtables.officer’ make: *** [Makefile:649: ggmosaic.ts] Error 1 begin installing package ‘muttest’ * installing *source* package ‘dde’ ... ** this is package ‘dde’ version ‘1.0.7’ ** package ‘dde’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C compiler: ‘gcc-15 (Debian 15.2.0-4) 15.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpABTg7u/R.INSTALL61bfe78c6efc5/dde/src' gcc-15 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -I'/home/hornik/tmp/CRAN_recheck/Library/ring/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -I../inst/include -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c difeq.c -o difeq.o gcc-15 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -I'/home/hornik/tmp/CRAN_recheck/Library/ring/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -I../inst/include -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c dopri.c -o dopri.o gcc-15 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -I'/home/hornik/tmp/CRAN_recheck/Library/ring/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -I../inst/include -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c dopri_5.c -o dopri_5.o gcc-15 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -I'/home/hornik/tmp/CRAN_recheck/Library/ring/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -I../inst/include -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c dopri_853.c -o dopri_853.o gcc-15 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -I'/home/hornik/tmp/CRAN_recheck/Library/ring/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -I../inst/include -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c r_difeq.c -o r_difeq.o gcc-15 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -I'/home/hornik/tmp/CRAN_recheck/Library/ring/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -I../inst/include -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c r_dopri.c -o r_dopri.o gcc-15 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -I'/home/hornik/tmp/CRAN_recheck/Library/ring/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -I../inst/include -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c ring.c -o ring.o gcc-15 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -I'/home/hornik/tmp/CRAN_recheck/Library/ring/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -I../inst/include -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c util.c -o util.o gcc-15 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -I'/home/hornik/tmp/CRAN_recheck/Library/ring/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -I../inst/include -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c zzz.c -o zzz.o gcc-15 -shared -L/home/hornik/tmp/R-d-gcc-15/lib -Wl,-O1 -o dde.so difeq.o dopri.o dopri_5.o dopri_853.o r_difeq.o r_dopri.o ring.o util.o zzz.o -L/home/hornik/tmp/R-d-gcc-15/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpABTg7u/R.INSTALL61bfe78c6efc5/dde/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-dde/00new/dde/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 (dde) begin installing package ‘pkgdepends’ * installing *source* package ‘roxy.shinylive’ ... ** this is package ‘roxy.shinylive’ version ‘1.0.0’ ** package ‘roxy.shinylive’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (roxy.shinylive) * installing *source* package ‘shinyQueryBuilder’ ... ** this is package ‘shinyQueryBuilder’ version ‘0.1.0’ ** package ‘shinyQueryBuilder’ 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 (shinyQueryBuilder) * installing *source* package ‘Require’ ... ** this is package ‘Require’ version ‘1.0.1’ ** package ‘Require’ 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 Warning in file(con, "r") : cannot open file '/home/hornik/tmp/CRAN_recheck/Library/Require/DESCRIPTION': No such file or directory Error in file(con, "r") : cannot open the connection ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (Require) * installing *source* package ‘ggsci’ ... ** this is package ‘ggsci’ version ‘4.0.0’ ** package ‘ggsci’ 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 (ggsci) * installing *source* package ‘bigrquery’ ... ** this is package ‘bigrquery’ version ‘1.6.1’ ** package ‘bigrquery’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C compiler: ‘gcc-15 (Debian 15.2.0-4) 15.2.0’ using C++ compiler: ‘g++-15 (Debian 15.2.0-4) 15.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/Rtmpw4WeX8/R.INSTALL60e06250ac340/bigrquery/src' g++-15 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/cli/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/cpp11/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/rapidjsonr/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c BqField.cpp -o BqField.o gcc-15 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/cli/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/cpp11/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/rapidjsonr/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c base64.c -o base64.o g++-15 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/cli/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/cpp11/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/rapidjsonr/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++-15 -std=gnu++17 -shared -L/home/hornik/tmp/R-d-gcc-15/lib -Wl,-O1 -o bigrquery.so BqField.o base64.o cpp11.o -L/home/hornik/tmp/R-d-gcc-15/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/Rtmpw4WeX8/R.INSTALL60e06250ac340/bigrquery/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-bigrquery/00new/bigrquery/libs ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (bigrquery) * installing *source* package ‘document’ ... ** this is package ‘document’ version ‘4.0.1’ ** package ‘document’ 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 (document) * installing *source* package ‘rcdk’ ... ** this is package ‘rcdk’ version ‘3.8.1’ ** package ‘rcdk’ 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 (rcdk) * installing *source* package ‘dynutils’ ... ** this is package ‘dynutils’ version ‘1.0.12’ ** package ‘dynutils’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C++ compiler: ‘g++-15 (Debian 15.2.0-4) 15.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpbVfGAF/R.INSTALL607a8428e0559/dynutils/src' g++-15 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-15/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++-15 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-15/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 project_to_segments.cpp -o project_to_segments.o g++-15 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-15/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 spearman_rank_sparse.cpp -o spearman_rank_sparse.o g++-15 -std=gnu++17 -shared -L/home/hornik/tmp/R-d-gcc-15/lib -Wl,-O1 -o dynutils.so RcppExports.o project_to_segments.o spearman_rank_sparse.o -L/home/hornik/tmp/R-d-gcc-15/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpbVfGAF/R.INSTALL607a8428e0559/dynutils/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-dynutils/00new/dynutils/libs ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (dynutils) begin installing package ‘lmds’ begin installing package ‘babelwhale’ begin installing package ‘dynparam’ * installing *source* package ‘reproducible’ ... ** this is package ‘reproducible’ version ‘2.1.2’ ** package ‘reproducible’ 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 (reproducible) begin installing package ‘SpaDES.tools’ * installing *source* package ‘spsComps’ ... ** this is package ‘spsComps’ version ‘0.3.4.0’ ** package ‘spsComps’ 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 (spsComps) * installing *source* package ‘rdflib’ ... ** this is package ‘rdflib’ version ‘0.2.9’ ** package ‘rdflib’ 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 (rdflib) begin installing package ‘atom4R’ * installing *source* package ‘teal.data’ ... ** this is package ‘teal.data’ version ‘0.8.0’ ** package ‘teal.data’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** data *** moving datasets to lazyload DB ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (teal.data) begin installing package ‘teal.slice’ begin installing package ‘teal.transform’ * installing *source* package ‘attachment’ ... ** this is package ‘attachment’ version ‘0.4.5’ ** package ‘attachment’ 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 (attachment) * installing *source* package ‘packer’ ... ** this is package ‘packer’ version ‘0.1.3’ ** package ‘packer’ 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 (packer) * installing *source* package ‘exams’ ... ** this is package ‘exams’ version ‘2.4-2’ ** package ‘exams’ 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 (exams) * installing *source* package ‘speaq’ ... ** this is package ‘speaq’ version ‘2.7.0’ ** package ‘speaq’ 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 (speaq) * installing *source* package ‘tfrmt’ ... ** this is package ‘tfrmt’ version ‘0.2.0’ ** package ‘tfrmt’ 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 (tfrmt) * installing *source* package ‘redcapAPI’ ... ** this is package ‘redcapAPI’ version ‘2.11.3’ ** package ‘redcapAPI’ 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 (redcapAPI) * installing *source* package ‘BiocCheck’ ... ** this is package ‘BiocCheck’ version ‘1.44.2’ ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (BiocCheck) * installing *source* package ‘muttest’ ... ** this is package ‘muttest’ version ‘0.1.0’ ** package ‘muttest’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (muttest) * installing *source* package ‘rtables.officer’ ... ** this is package ‘rtables.officer’ version ‘0.1.1’ ** package ‘rtables.officer’ 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 (rtables.officer) begin installing package ‘teal.reporter’ * installing *source* package ‘dynparam’ ... ** this is package ‘dynparam’ version ‘1.0.2’ ** package ‘dynparam’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (dynparam) * installing *source* package ‘lmds’ ... ** this is package ‘lmds’ version ‘0.1.0’ ** package ‘lmds’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (lmds) begin installing package ‘dyndimred’ * installing *source* package ‘babelwhale’ ... ** this is package ‘babelwhale’ version ‘1.2.0’ ** package ‘babelwhale’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (babelwhale) * installing *source* package ‘teal.transform’ ... ** this is package ‘teal.transform’ version ‘0.7.0’ ** package ‘teal.transform’ 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 (teal.transform) * installing *source* package ‘languageserver’ ... ** this is package ‘languageserver’ version ‘0.3.16’ ** package ‘languageserver’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C compiler: ‘gcc-15 (Debian 15.2.0-4) 15.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpMqhL44/R.INSTALL61f53432f762e/languageserver/src' gcc-15 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c fsm.c -o fsm.o gcc-15 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c languageserver.c -o languageserver.o gcc-15 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c reader.c -o reader.o gcc-15 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c search.c -o search.o gcc-15 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c stack.c -o stack.o gcc-15 -shared -L/home/hornik/tmp/R-d-gcc-15/lib -Wl,-O1 -o languageserver.so fsm.o languageserver.o reader.o search.o stack.o -L/home/hornik/tmp/R-d-gcc-15/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpMqhL44/R.INSTALL61f53432f762e/languageserver/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-languageserver/00new/languageserver/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 (languageserver) * installing *source* package ‘quickPlot’ ... ** this is package ‘quickPlot’ version ‘1.0.4’ ** package ‘quickPlot’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading in method for ‘extent’ with signature ‘"sf"’: no definition for class “sf” in method for ‘extent’ with signature ‘"Spatial"’: no definition for class “Spatial” in method for ‘extent’ with signature ‘"Raster"’: no definition for class “Raster” ** 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 (quickPlot) * installing *source* package ‘dyndimred’ ... ** this is package ‘dyndimred’ version ‘1.0.4’ ** package ‘dyndimred’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (dyndimred) * installing *source* package ‘teal.reporter’ ... ** this is package ‘teal.reporter’ version ‘0.5.0’ ** package ‘teal.reporter’ 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 (teal.reporter) * installing *source* package ‘teal.slice’ ... ** this is package ‘teal.slice’ version ‘0.7.0’ ** package ‘teal.slice’ 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 (teal.slice) begin installing package ‘teal’ * installing *source* package ‘tern’ ... ** this is package ‘tern’ version ‘0.9.9’ ** package ‘tern’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** data *** moving datasets to lazyload DB ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (tern) begin installing package ‘tern.gee’ begin installing package ‘tern.mmrm’ * installing *source* package ‘qs2’ ... ** this is package ‘qs2’ version ‘0.1.5’ ** package ‘qs2’ successfully unpacked and MD5 sums checked ** using staged installation checking for pkg-config... /usr/bin/pkg-config checking whether the C++ compiler works... yes checking for C++ compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... no checking for suffix of object files... o checking whether we are using the GNU C++ compiler... yes checking whether g++-15 -std=gnu++17 accepts -g... yes C++ compiler: g++-15 -std=gnu++17 zstd 1.5.7 library detected -- skipping zstd compilation Fixed blocksize Not using TBB configure: creating ./config.status config.status: creating src/Makevars ** libs using C++ compiler: ‘g++-15 (Debian 15.2.0-4) 15.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpxByqpU/R.INSTALL6152056d0a1e4/qs2/src' g++-15 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -DRCPP_USE_UNWIND_PROTECT -DRCPP_NO_RTTI -DRCPP_NO_SUGAR -I../inst/include -I. -DIS_UTF8_LOCALE=1 -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/stringfish/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -DRCPP_PARALLEL_USE_TBB=0 -fpic -g -O2 -Wall -pedantic -mtune=native -c RcppExports.cpp -o RcppExports.o g++-15 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -DRCPP_USE_UNWIND_PROTECT -DRCPP_NO_RTTI -DRCPP_NO_SUGAR -I../inst/include -I. -DIS_UTF8_LOCALE=1 -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/stringfish/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppParallel/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -DRCPP_PARALLEL_USE_TBB=0 -fpic -g -O2 -Wall -pedantic -mtune=native -c qx_functions.cpp -o qx_functions.o g++-15 -std=gnu++17 -shared -L/home/hornik/tmp/R-d-gcc-15/lib -Wl,-O1 -o qs2.so RcppExports.o qx_functions.o -L. -lzstd -L/home/hornik/tmp/R-d-gcc-15/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpxByqpU/R.INSTALL6152056d0a1e4/qs2/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-qs2/00new/qs2/libs ** R ** data *** moving datasets to lazyload DB ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (qs2) * installing *source* package ‘mirtCAT’ ... ** this is package ‘mirtCAT’ version ‘1.14’ ** package ‘mirtCAT’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C++ compiler: ‘g++-15 (Debian 15.2.0-4) 15.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpGOqltT/R.INSTALL6199714a994fe/mirtCAT/src' g++-15 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c CAT_functions.cpp -o CAT_functions.o g++-15 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.6/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c item_functions.cpp -o item_functions.o g++-15 -std=gnu++17 -shared -L/home/hornik/tmp/R-d-gcc-15/lib -Wl,-O1 -o mirtCAT.so CAT_functions.o item_functions.o -llapack -L/home/hornik/tmp/R-d-gcc-15/lib -lRblas -lgfortran -lm -lquadmath -L/home/hornik/tmp/R-d-gcc-15/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpGOqltT/R.INSTALL6199714a994fe/mirtCAT/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-mirtCAT/00new/mirtCAT/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 (mirtCAT) * installing *source* package ‘teal’ ... ** this is package ‘teal’ version ‘1.0.0’ ** package ‘teal’ 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 (teal) * installing *source* package ‘tern.gee’ ... ** this is package ‘tern.gee’ version ‘0.1.5’ ** package ‘tern.gee’ 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 (tern.gee) * installing *source* package ‘SpaDES.tools’ ... ** this is package ‘SpaDES.tools’ version ‘2.0.7’ ** package ‘SpaDES.tools’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C++ compiler: ‘g++-15 (Debian 15.2.0-4) 15.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpXSHTfy/R.INSTALL622728a796b0/SpaDES.tools/src' g++-15 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-15/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++-15 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-15/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 duplicated.cpp -o duplicated.o g++-15 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-15/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 runif.cpp -o runif.o g++-15 -std=gnu++17 -shared -L/home/hornik/tmp/R-d-gcc-15/lib -Wl,-O1 -o SpaDES.tools.so RcppExports.o duplicated.o runif.o -L/home/hornik/tmp/R-d-gcc-15/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpXSHTfy/R.INSTALL622728a796b0/SpaDES.tools/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-SpaDES.tools/00new/SpaDES.tools/libs ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (SpaDES.tools) * installing *source* package ‘clustermq’ ... ** this is package ‘clustermq’ version ‘0.9.9’ ** package ‘clustermq’ successfully unpacked and MD5 sums checked ** using staged installation * system has libzmq -> linking system library * libzmq without DRAFT API found -> disabling crash monitor feature ** libs using C++ compiler: ‘g++-15 (Debian 15.2.0-4) 15.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/Rtmpz69q4D/R.INSTALL612ad585c4090/clustermq/src' g++-15 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -isystem /usr/include/mit-krb5 -I/usr/include/pgm-5.3 -I/usr/include/libxml2 -I/usr/include/x86_64-linux-gnu -fPIC -Icppzmq -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 CMQMaster.cpp -o CMQMaster.o In file included from CMQMaster.cpp:2: CMQMaster.h: In member function ‘bool CMQMaster::close(int)’: CMQMaster.h:65:26: warning: variable ‘n’ set but not used [-Wunused-but-set-variable] 65 | auto n = recv_multipart(sock, std::back_inserter(msgs)); | ^ CMQMaster.h:62:21: warning: unused variable ‘rc’ [-Wunused-variable] 62 | int rc = zmq::poll(pitems, time_left); | ^~ CMQMaster.h: In member function ‘SEXPREC* CMQMaster::recv(int)’: CMQMaster.h:107:18: warning: variable ‘n’ set but not used [-Wunused-but-set-variable] 107 | auto n = recv_multipart(sock, std::back_inserter(msgs)); | ^ CMQMaster.h:109:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 109 | } while(data_offset >= msgs.size()); | ~~~~~~~~~~~~^~~~~~~~~~~~~~ CMQMaster.h: In member function ‘void CMQMaster::proxy_submit_cmd(SEXP, int)’: CMQMaster.h:152:14: warning: variable ‘n’ set but not used [-Wunused-but-set-variable] 152 | auto n = recv_multipart(sock, std::back_inserter(msgs)); | ^ CMQMaster.h: In member function ‘int CMQMaster::register_peer(std::vector&)’: CMQMaster.h:341:25: warning: comparison of integer expressions of different signedness: ‘std::vector::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 341 | if (msgs.size() > ++cur_i) { | ~~~~~~~~~~~~^~~~~~~~~ CMQMaster.h:356:26: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, CMQMaster::worker_t>::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 356 | if (peers.size() > prev_size && w.status == wlife_t::active) { | ~~~~~~~~~~~~~^~~~~~~~~~~ CMQMaster.h:361:25: warning: comparison of integer expressions of different signedness: ‘std::vector::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 361 | if (msgs.size() > cur_i+2) { | ~~~~~~~~~~~~^~~~~~~~~ g++-15 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -isystem /usr/include/mit-krb5 -I/usr/include/pgm-5.3 -I/usr/include/libxml2 -I/usr/include/x86_64-linux-gnu -fPIC -Icppzmq -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 CMQProxy.cpp -o CMQProxy.o In file included from CMQProxy.h:3, from CMQProxy.cpp:2: CMQMaster.h: In member function ‘bool CMQMaster::close(int)’: CMQMaster.h:65:26: warning: variable ‘n’ set but not used [-Wunused-but-set-variable] 65 | auto n = recv_multipart(sock, std::back_inserter(msgs)); | ^ CMQMaster.h:62:21: warning: unused variable ‘rc’ [-Wunused-variable] 62 | int rc = zmq::poll(pitems, time_left); | ^~ CMQMaster.h: In member function ‘SEXPREC* CMQMaster::recv(int)’: CMQMaster.h:107:18: warning: variable ‘n’ set but not used [-Wunused-but-set-variable] 107 | auto n = recv_multipart(sock, std::back_inserter(msgs)); | ^ CMQMaster.h:109:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 109 | } while(data_offset >= msgs.size()); | ~~~~~~~~~~~~^~~~~~~~~~~~~~ CMQMaster.h: In member function ‘void CMQMaster::proxy_submit_cmd(SEXP, int)’: CMQMaster.h:152:14: warning: variable ‘n’ set but not used [-Wunused-but-set-variable] 152 | auto n = recv_multipart(sock, std::back_inserter(msgs)); | ^ CMQMaster.h: In member function ‘int CMQMaster::register_peer(std::vector&)’: CMQMaster.h:341:25: warning: comparison of integer expressions of different signedness: ‘std::vector::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 341 | if (msgs.size() > ++cur_i) { | ~~~~~~~~~~~~^~~~~~~~~ CMQMaster.h:356:26: warning: comparison of integer expressions of different signedness: ‘std::unordered_map, CMQMaster::worker_t>::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 356 | if (peers.size() > prev_size && w.status == wlife_t::active) { | ~~~~~~~~~~~~~^~~~~~~~~~~ CMQMaster.h:361:25: warning: comparison of integer expressions of different signedness: ‘std::vector::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 361 | if (msgs.size() > cur_i+2) { | ~~~~~~~~~~~~^~~~~~~~~ CMQProxy.h: In member function ‘SEXPREC* CMQProxy::proxy_receive_cmd()’: CMQProxy.h:54:14: warning: variable ‘n’ set but not used [-Wunused-but-set-variable] 54 | auto n = recv_multipart(to_master, std::back_inserter(msgs)); | ^ CMQProxy.h:55:14: warning: unused variable ‘status’ [-Wunused-variable] 55 | auto status = msg2wlife_t(msgs[1]); | ^~~~~~ CMQProxy.h: In member function ‘bool CMQProxy::process_one()’: CMQProxy.h:116:28: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 116 | for (int i=0; i::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 139 | for (int i=0; icontents[--(self)->size]) | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ tree-sitter/yaml/scanner.c:256:5: note: in expansion of macro ‘array_pop’ 256 | array_pop(&scanner->ind_len_stk); | ^~~~~~~~~ tree-sitter/yaml/tree_sitter/array.h:106:42: warning: value computed is not used [-Wunused-value] 106 | #define array_pop(self) ((self)->contents[--(self)->size]) | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ tree-sitter/yaml/scanner.c:257:5: note: in expansion of macro ‘array_pop’ 257 | array_pop(&scanner->ind_typ_stk); | ^~~~~~~~~ gcc-15 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -I./tree-sitter/lib/include -I./tree-sitter/lib/src -I./yaml -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c yaml/api.c -o yaml/api.o gcc-15 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -I./tree-sitter/lib/include -I./tree-sitter/lib/src -I./yaml -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c yaml/dumper.c -o yaml/dumper.o gcc-15 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -I./tree-sitter/lib/include -I./tree-sitter/lib/src -I./yaml -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c yaml/emitter.c -o yaml/emitter.o yaml/emitter.c: In function ‘yaml_emitter_write_plain_scalar’: yaml/emitter.c:28:6: warning: value computed is not used [-Wunused-value] 28 | && ((emitter->line_break == YAML_CR_BREAK ? \ | ^~ yaml/emitter.c:56:11: note: in expansion of macro ‘PUT_BREAK’ 56 | (PUT_BREAK(emitter), \ | ^~~~~~~~~ yaml/emitter.c:1962:18: note: in expansion of macro ‘WRITE_BREAK’ 1962 | if (!WRITE_BREAK(emitter, string)) return 0; | ^~~~~~~~~~~ yaml/emitter.c: In function ‘yaml_emitter_write_single_quoted_scalar’: yaml/emitter.c:28:6: warning: value computed is not used [-Wunused-value] 28 | && ((emitter->line_break == YAML_CR_BREAK ? \ | ^~ yaml/emitter.c:56:11: note: in expansion of macro ‘PUT_BREAK’ 56 | (PUT_BREAK(emitter), \ | ^~~~~~~~~ yaml/emitter.c:2019:18: note: in expansion of macro ‘WRITE_BREAK’ 2019 | if (!WRITE_BREAK(emitter, string)) return 0; | ^~~~~~~~~~~ yaml/emitter.c: In function ‘yaml_emitter_write_literal_scalar’: yaml/emitter.c:28:6: warning: value computed is not used [-Wunused-value] 28 | && ((emitter->line_break == YAML_CR_BREAK ? \ | ^~ yaml/emitter.c:56:11: note: in expansion of macro ‘PUT_BREAK’ 56 | (PUT_BREAK(emitter), \ | ^~~~~~~~~ yaml/emitter.c:2285:18: note: in expansion of macro ‘WRITE_BREAK’ 2285 | if (!WRITE_BREAK(emitter, string)) return 0; | ^~~~~~~~~~~ yaml/emitter.c: In function ‘yaml_emitter_write_folded_scalar’: yaml/emitter.c:28:6: warning: value computed is not used [-Wunused-value] 28 | && ((emitter->line_break == YAML_CR_BREAK ? \ | ^~ yaml/emitter.c:56:11: note: in expansion of macro ‘PUT_BREAK’ 56 | (PUT_BREAK(emitter), \ | ^~~~~~~~~ yaml/emitter.c:2334:18: note: in expansion of macro ‘WRITE_BREAK’ 2334 | if (!WRITE_BREAK(emitter, string)) return 0; | ^~~~~~~~~~~ gcc-15 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -I./tree-sitter/lib/include -I./tree-sitter/lib/src -I./yaml -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c yaml/loader.c -o yaml/loader.o gcc-15 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -I./tree-sitter/lib/include -I./tree-sitter/lib/src -I./yaml -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c yaml/parser.c -o yaml/parser.o gcc-15 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -I./tree-sitter/lib/include -I./tree-sitter/lib/src -I./yaml -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c yaml/reader.c -o yaml/reader.o gcc-15 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -I./tree-sitter/lib/include -I./tree-sitter/lib/src -I./yaml -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c yaml/scanner.c -o yaml/scanner.o gcc-15 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -I./tree-sitter/lib/include -I./tree-sitter/lib/src -I./yaml -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c yaml/writer.c -o yaml/writer.o gcc-15 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -I./tree-sitter/lib/include -I./tree-sitter/lib/src -I./yaml -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-15 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -I./tree-sitter/lib/include -I./tree-sitter/lib/src -I./yaml -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c cleancall.c -o cleancall.o gcc-15 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -I./tree-sitter/lib/include -I./tree-sitter/lib/src -I./yaml -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c tree-sitter.c -o tree-sitter.o gcc-15 -I"/home/hornik/tmp/R-d-gcc-15/include" -DNDEBUG -I./tree-sitter/lib/include -I./tree-sitter/lib/src -I./yaml -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c yaml.c -o yaml.o gcc-15 -shared -L/home/hornik/tmp/R-d-gcc-15/lib -Wl,-O1 -o pkgdepends.so tree-sitter/lib/src/lib.o tree-sitter/r/parser.o tree-sitter/r/scanner.o tree-sitter/markdown/parser.o tree-sitter/markdown/scanner.o tree-sitter/markdown-inline/parser.o tree-sitter/markdown-inline/scanner.o tree-sitter/yaml/parser.o tree-sitter/yaml/scanner.o yaml/api.o yaml/dumper.o yaml/emitter.o yaml/loader.o yaml/parser.o yaml/reader.o yaml/scanner.o yaml/writer.o init.o cleancall.o tree-sitter.o yaml.o -L/home/hornik/tmp/R-d-gcc-15/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpRBLnbA/R.INSTALL620754bd17298/pkgdepends/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-pkgdepends/00new/pkgdepends/libs ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (pkgdepends) * installing *source* package ‘atom4R’ ... ** this is package ‘atom4R’ version ‘0.3-4’ ** package ‘atom4R’ 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 (atom4R) begin installing package ‘zen4R’ * installing *source* package ‘zen4R’ ... ** this is package ‘zen4R’ version ‘0.10.2’ ** package ‘zen4R’ 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 (zen4R) make: Target 'all' not remade because of errors. * installing *source* package ‘ggmosaic’ ... ** this is package ‘ggmosaic’ version ‘0.3.3’ ** package ‘ggmosaic’ 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 Error in get(x, envir = ns, inherits = FALSE) : object 'is.waive' not found Error: unable to load R code in package ‘ggmosaic’ Execution halted ERROR: lazy loading failed for package ‘ggmosaic’ * removing ‘/home/hornik/tmp/CRAN_recheck/Library/ggmosaic’ Warning in (function (pkgs, lib, repos = getOption("repos"), contriburl = contrib.url(repos, : installation of package ‘ggmosaic’ failed Calls: -> do.call -> checking pkgload_1.4.1.tar.gz ... checking cleanr_1.4.0.tar.gz ... checking DataPackageR_0.16.1.tar.gz ... checking detectseparation_0.3.tar.gz ... checking devtools_2.4.5.tar.gz ... checking doctest_0.3.0.tar.gz ... checking fusen_0.7.2.tar.gz ... checking gwpcormapper_0.1.3.tar.gz ... checking madrat_3.15.6.tar.gz ... checking MainExistingDatasets_1.0.2.tar.gz ... checking NNbenchmark_3.2.0.tar.gz ... checking packager_1.15.3.tar.gz ... checking PhilipsHue_1.0.0.tar.gz ... checking rbmi_1.4.1.tar.gz ... checking riskmetric_0.2.5.tar.gz ... checking roxygen2_7.3.3.tar.gz ... checking srcpkgs_0.1.tar.gz ... checking testthat_3.2.3.tar.gz ... checking testthis_1.1.1.tar.gz ... checking activAnalyzer_2.1.2.tar.gz ... checking arrow_21.0.0.1.tar.gz ... checking autoimport_0.1.1.tar.gz ... checking butcher_0.3.6.tar.gz ... checking cnd_0.1.0.tar.gz ... checking conflicted_1.2.0.tar.gz ... checking cucumber_2.1.1.tar.gz ... checking dataquieR_2.5.1.tar.gz ... checking DBItest_1.8.2.tar.gz ... checking options_0.3.1.tar.gz ... checking maSAE_2.0.3.tar.gz ... checking downlit_0.4.4.tar.gz ... checking httptest_4.2.2.tar.gz ... checking ordinalsimr_0.2.3.tar.gz ... checking FastRet_1.1.4.tar.gz ... checking golem_0.5.1.tar.gz ... checking mockthat_0.2.8.tar.gz ... checking SpaDES.core_2.1.8.tar.gz ... checking evaluate_1.0.5.tar.gz ... checking leprechaun_1.0.0.tar.gz ... checking pak_0.9.0.tar.gz ... checking potions_0.2.0.tar.gz ... checking shinyquiz_0.0.1.tar.gz ... checking scrutiny_0.6.0.tar.gz ... checking document_4.0.1.tar.gz ... checking ricu_0.6.3.tar.gz ... checking fritools_4.5.0.tar.gz ... checking prompt_1.0.2.tar.gz ... checking fakemake_1.11.1.tar.gz ... checking odin_1.2.7.tar.gz ... checking parzer_0.4.4.tar.gz ... checking tfrmtbuilder_0.1.0.tar.gz ... checking inlpubs_1.3.0.tar.gz ... checking Ryacas0_0.4.5.tar.gz ... checking treePlotArea_2.1.0.tar.gz ... checking ready4_0.1.18.tar.gz ... checking psborrow_0.2.4.tar.gz ... checking pkgdown_2.1.3.tar.gz ... checking Ryacas_1.1.5.tar.gz ... checking HandTill2001_1.0.2.tar.gz ... checking LightLogR_0.9.2.tar.gz ... checking teal.modules.general_0.5.0.tar.gz ... checking fritools2_4.1.0.tar.gz ... checking rasciidoc_4.1.1.tar.gz ... checking quarto_1.5.1.tar.gz ... checking ReviewR_2.3.10.tar.gz ... checking dynwrap_1.2.4.tar.gz ... checking SIAtools_0.1.3.tar.gz ... checking webmap_1.1.1.tar.gz ... checking Spectran_1.0.6.tar.gz ... checking inlcolor_1.0.6.tar.gz ... checking rBDAT_1.1.0.tar.gz ... checking rstantools_2.5.0.tar.gz ... checking generics_0.1.4.tar.gz ... checking targets_1.11.4.tar.gz ... checking TestDesign_1.7.0.tar.gz ... checking metabodecon_1.6.2.tar.gz ... checking readtext_0.92.1.tar.gz ... checking verifyr2_1.0.0.tar.gz ... checking precommit_0.4.3.tar.gz ... checking fledge_0.1.2.tar.gz ... checking scenes_0.1.0.tar.gz ... checking senseweight_0.0.1.tar.gz ... checking quickr_0.2.0.tar.gz ... checking usethis_3.2.1.tar.gz ... checking pakret_0.2.2.tar.gz ... checking viewpoly_0.4.1.tar.gz ... checking tibble_3.3.0.tar.gz ... checking teal.modules.clinical_0.11.1.tar.gz ... checking httptest2_1.2.1.tar.gz ... checking rlang_1.1.6.tar.gz ... checking mockr_0.2.2.tar.gz ... checking shinyCohortBuilder_0.3.1.tar.gz ... Depends: Package: pkgload Depends: R (>= 3.4.0) Imports: cli (>= 3.3.0), desc, fs, glue, lifecycle, methods, pkgbuild, processx, rlang (>= 1.1.1), rprojroot, utils Timings: user system elapsed pkgload 100.232 8.764 88.145 Results: Check status summary: ERROR NOTE OK Source packages 0 0 1 Reverse depends 1 10 80 Check results summary: pkgload ... OK rdepends_activAnalyzer ... NOTE * checking DESCRIPTION meta-information ... NOTE rdepends_arrow ... OK rdepends_autoimport ... OK rdepends_butcher ... OK rdepends_cleanr ... OK rdepends_cnd ... OK rdepends_conflicted ... OK rdepends_cucumber ... OK rdepends_DataPackageR ... OK rdepends_dataquieR ... OK rdepends_DBItest ... OK rdepends_detectseparation ... OK rdepends_devtools ... NOTE * checking Rd cross-references ... NOTE rdepends_doctest ... OK rdepends_document ... OK rdepends_downlit ... OK rdepends_dynwrap ... OK rdepends_evaluate ... OK rdepends_fakemake ... OK rdepends_FastRet ... OK rdepends_fledge ... NOTE * checking Rd cross-references ... NOTE rdepends_fritools ... OK rdepends_fritools2 ... OK rdepends_fusen ... OK rdepends_generics ... OK rdepends_golem ... OK rdepends_gwpcormapper ... OK rdepends_HandTill2001 ... OK rdepends_httptest ... OK rdepends_httptest2 ... OK rdepends_inlcolor ... OK rdepends_inlpubs ... OK rdepends_leprechaun ... OK rdepends_LightLogR ... OK rdepends_madrat ... OK rdepends_MainExistingDatasets ... OK rdepends_maSAE ... OK rdepends_metabodecon ... OK rdepends_mockr ... OK rdepends_mockthat ... OK rdepends_NNbenchmark ... OK rdepends_odin ... OK rdepends_options ... OK rdepends_ordinalsimr ... OK rdepends_packager ... OK rdepends_pak ... OK rdepends_pakret ... OK rdepends_parzer ... OK rdepends_PhilipsHue ... OK rdepends_pkgdown ... OK rdepends_potions ... OK rdepends_precommit ... OK rdepends_prompt ... OK rdepends_psborrow ... OK rdepends_quarto ... OK rdepends_quickr ... OK rdepends_rasciidoc ... OK rdepends_rBDAT ... OK rdepends_rbmi ... OK rdepends_readtext ... OK rdepends_ready4 ... OK rdepends_ReviewR ... OK rdepends_ricu ... OK rdepends_riskmetric ... OK rdepends_rlang ... NOTE * checking compiled code ... NOTE rdepends_roxygen2 ... OK rdepends_rstantools ... OK rdepends_Ryacas ... NOTE * checking C++ specification ... NOTE rdepends_Ryacas0 ... NOTE * checking C++ specification ... NOTE rdepends_scenes ... OK rdepends_scrutiny ... OK rdepends_senseweight ... OK rdepends_shinyCohortBuilder ... NOTE * checking DESCRIPTION meta-information ... NOTE rdepends_shinyquiz ... OK rdepends_SIAtools ... OK rdepends_SpaDES.core ... OK rdepends_Spectran ... NOTE * checking DESCRIPTION meta-information ... NOTE rdepends_srcpkgs ... OK rdepends_targets ... OK rdepends_teal.modules.clinical ... OK rdepends_teal.modules.general ... ERROR * checking package dependencies ... ERROR rdepends_TestDesign ... OK rdepends_testthat ... NOTE * checking compiled code ... NOTE rdepends_testthis ... OK rdepends_tfrmtbuilder ... OK rdepends_tibble ... OK rdepends_treePlotArea ... OK rdepends_usethis ... OK rdepends_verifyr2 ... OK rdepends_viewpoly ... NOTE * checking DESCRIPTION meta-information ... NOTE rdepends_webmap ... OK Check results changes: Package: dynwrap Check: DESCRIPTION meta-information Old result: NOTE New result: OK Package: gwpcormapper Check: CRAN incoming feasibility Old result: NOTE Package: options Check: CRAN incoming feasibility Old result: NOTE Package: precommit Check: CRAN incoming feasibility Old result: NOTE Package: prompt Check: CRAN incoming feasibility Old result: NOTE Package: Ryacas Check: CRAN incoming feasibility Old result: NOTE