downloading reverse dependencies ... downloading Achilles_1.7.2.tar.gz ... ok downloading CohortAlgebra_0.2.0.tar.gz ... ok downloading CommonDataModel_0.2.0.tar.gz ... ok downloading DatabaseConnector_6.3.2.tar.gz ... ok downloading allofus_1.0.0.tar.gz ... ok downloading CDMConnector_1.3.0.tar.gz ... ok downloading DrugExposureDiagnostics_1.0.4.tar.gz ... ok downloading TreatmentPatterns_2.6.5.tar.gz ... ok installing dependencies ‘Andromeda’, ‘bigrquery’, ‘Capr’, ‘CDMConnector’, ‘CirceR’, ‘CohortGenerator’, ‘DatabaseConnector’, ‘Eunomia’, ‘omopgenerics’, ‘ParallelLogger’, ‘PaRe’, ‘SqlRender’, ‘sunburstR’, ‘visR’ Warning: packages ‘Eunomia’, ‘CohortGenerator’, ‘CirceR’, ‘Capr’ 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 ‘tidycmprsk’, ‘pak’, ‘d3r’ begin installing package ‘tidycmprsk’ begin installing package ‘pak’ begin installing package ‘d3r’ begin installing package ‘SqlRender’ begin installing package ‘Andromeda’ begin installing package ‘ParallelLogger’ begin installing package ‘bigrquery’ begin installing package ‘omopgenerics’ * installing *source* package ‘ParallelLogger’ ... ** package ‘ParallelLogger’ 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 (ParallelLogger) * installing *source* package ‘d3r’ ... ** package ‘d3r’ 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 (d3r) begin installing package ‘sunburstR’ * installing *source* package ‘SqlRender’ ... ** 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 (SqlRender) begin installing package ‘DatabaseConnector’ * installing *source* package ‘sunburstR’ ... ** package ‘sunburstR’ 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 (sunburstR) * installing *source* package ‘omopgenerics’ ... ** package ‘omopgenerics’ 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 (omopgenerics) begin installing package ‘CDMConnector’ * installing *source* package ‘Andromeda’ ... ** package ‘Andromeda’ 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 (Andromeda) * installing *source* package ‘tidycmprsk’ ... ** package ‘tidycmprsk’ 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 Note: wrong number of arguments to 'sqrt' Note: wrong number of arguments to 'seq_len' ** 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 (tidycmprsk) begin installing package ‘visR’ * installing *source* package ‘DatabaseConnector’ ... ** package ‘DatabaseConnector’ 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 (DatabaseConnector) * installing *source* package ‘CDMConnector’ ... ** package ‘CDMConnector’ 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 (CDMConnector) * installing *source* package ‘bigrquery’ ... ** package ‘bigrquery’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C compiler: ‘gcc-13 (Debian 13.2.0-13) 13.2.0’ using C++ compiler: ‘g++-13 (Debian 13.2.0-13) 13.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/RtmprP4shD/R.INSTALL3566025afc0047/bigrquery/src' g++-13 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/cli/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/cpp11/include' -I'/home/hornik/lib/R/Library/4.4/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-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/cli/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/cpp11/include' -I'/home/hornik/lib/R/Library/4.4/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++-13 -std=gnu++17 -I"/home/hornik/tmp/R/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/cli/include' -I'/home/hornik/lib/R/Library/4.4/x86_64-linux-gnu/cpp11/include' -I'/home/hornik/lib/R/Library/4.4/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++-13 -std=gnu++17 -shared -L/home/hornik/tmp/R/lib -Wl,-O1 -o bigrquery.so BqField.o base64.o cpp11.o -L/home/hornik/tmp/R/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmprP4shD/R.INSTALL3566025afc0047/bigrquery/src' installing to /home/hornik/tmp/CRAN/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 ‘visR’ ... ** package ‘visR’ 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 (visR) * installing *source* package ‘pak’ ... ** package ‘pak’ successfully unpacked and MD5 sums checked ** using staged installation ** Running ./configure ** libs make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpBfndrS/R.INSTALL3565f256f22c14/pak/src' Current platform: x86_64-pc-linux-gnu Build platform: Target platform: Compiling R6 Compiling cli using C compiler: ‘gcc-13 (Debian 13.2.0-13) 13.2.0’ make[2]: Entering directory '/home/hornik/tmp/scratch/RtmpBfndrS/R.INSTALL3565f256f22c14/pak/src/library/cli/src' gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fvisibility=hidden -I../inst/include -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c ansi.c -o ansi.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fvisibility=hidden -I../inst/include -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c cleancall.c -o cleancall.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fvisibility=hidden -I../inst/include -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c diff.c -o diff.o diff.c: In function ‘clic_diff_chr’: diff.c:104:3: warning: ‘sn’ may be used uninitialized [-Wmaybe-uninitialized] 104 | SET_VECTOR_ELT(result, 0, allocVector(INTSXP, sn)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ diff.c:85:7: note: ‘sn’ was declared here 85 | int sn; | ^~ gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fvisibility=hidden -I../inst/include -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c errors.c -o errors.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fvisibility=hidden -I../inst/include -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c glue.c -o glue.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fvisibility=hidden -I../inst/include -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c init.c -o init.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fvisibility=hidden -I../inst/include -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c inst.c -o inst.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fvisibility=hidden -I../inst/include -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c keypress-unix.c -o keypress-unix.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fvisibility=hidden -I../inst/include -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c keypress-win.c -o keypress-win.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fvisibility=hidden -I../inst/include -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c keypress.c -o keypress.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fvisibility=hidden -I../inst/include -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c md5.c -o md5.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fvisibility=hidden -I../inst/include -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c progress-altrep.c -o progress-altrep.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fvisibility=hidden -I../inst/include -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c progress.c -o progress.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fvisibility=hidden -I../inst/include -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c sha1.c -o sha1.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fvisibility=hidden -I../inst/include -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c sha256.c -o sha256.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fvisibility=hidden -I../inst/include -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c thread.c -o thread.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fvisibility=hidden -I../inst/include -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c tty.c -o tty.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fvisibility=hidden -I../inst/include -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c utf8.c -o utf8.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fvisibility=hidden -I../inst/include -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c utils.c -o utils.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fvisibility=hidden -I../inst/include -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c vt.c -o vt.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fvisibility=hidden -I../inst/include -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c vtparse.c -o vtparse.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fvisibility=hidden -I../inst/include -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c vtparse_table.c -o vtparse_table.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fvisibility=hidden -I../inst/include -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c win-utf8.c -o win-utf8.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fvisibility=hidden -I../inst/include -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c winfiles.c -o winfiles.o gcc-13 -shared -L/home/hornik/tmp/R/lib -Wl,-O1 -o cli.so ansi.o cleancall.o diff.o errors.o glue.o init.o inst.o keypress-unix.o keypress-win.o keypress.o md5.o progress-altrep.o progress.o sha1.o sha256.o thread.o tty.o utf8.o utils.o vt.o vtparse.o vtparse_table.o win-utf8.o winfiles.o -L/home/hornik/tmp/R/lib -lR make[2]: Leaving directory '/home/hornik/tmp/scratch/RtmpBfndrS/R.INSTALL3565f256f22c14/pak/src/library/cli/src' installing to /home/hornik/tmp/CRAN/Library/00LOCK-pak/00new/pak/library/cli/libs Compiling curl Found pkg-config cflags and libs! Using PKG_CFLAGS=-I/usr/include/x86_64-linux-gnu Using PKG_LIBS=-lcurl using C compiler: ‘gcc-13 (Debian 13.2.0-13) 13.2.0’ make[2]: Entering directory '/home/hornik/tmp/scratch/RtmpBfndrS/R.INSTALL3565f256f22c14/pak/src/library/curl/src' rm -f curl.so callbacks.o curl.o download.o escape.o fetch.o findport.o form.o getdate.o handle.o ieproxy.o init.o interrupt.o multi.o nslookup.o options.o reflist.o split.o ssl.o typechecking.o utils.o version.o winidn.o writer.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/include/x86_64-linux-gnu -DSTRICT_R_HEADERS -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fvisibility=hidden -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c callbacks.c -o callbacks.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/include/x86_64-linux-gnu -DSTRICT_R_HEADERS -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fvisibility=hidden -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c curl.c -o curl.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/include/x86_64-linux-gnu -DSTRICT_R_HEADERS -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fvisibility=hidden -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c download.c -o download.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/include/x86_64-linux-gnu -DSTRICT_R_HEADERS -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fvisibility=hidden -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c escape.c -o escape.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/include/x86_64-linux-gnu -DSTRICT_R_HEADERS -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fvisibility=hidden -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c fetch.c -o fetch.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/include/x86_64-linux-gnu -DSTRICT_R_HEADERS -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fvisibility=hidden -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c findport.c -o findport.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/include/x86_64-linux-gnu -DSTRICT_R_HEADERS -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fvisibility=hidden -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c form.c -o form.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/include/x86_64-linux-gnu -DSTRICT_R_HEADERS -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fvisibility=hidden -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c getdate.c -o getdate.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/include/x86_64-linux-gnu -DSTRICT_R_HEADERS -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fvisibility=hidden -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c handle.c -o handle.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/include/x86_64-linux-gnu -DSTRICT_R_HEADERS -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fvisibility=hidden -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c ieproxy.c -o ieproxy.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/include/x86_64-linux-gnu -DSTRICT_R_HEADERS -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fvisibility=hidden -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c init.c -o init.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/include/x86_64-linux-gnu -DSTRICT_R_HEADERS -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fvisibility=hidden -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c interrupt.c -o interrupt.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/include/x86_64-linux-gnu -DSTRICT_R_HEADERS -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fvisibility=hidden -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c multi.c -o multi.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/include/x86_64-linux-gnu -DSTRICT_R_HEADERS -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fvisibility=hidden -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c nslookup.c -o nslookup.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/include/x86_64-linux-gnu -DSTRICT_R_HEADERS -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fvisibility=hidden -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c options.c -o options.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/include/x86_64-linux-gnu -DSTRICT_R_HEADERS -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fvisibility=hidden -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c reflist.c -o reflist.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/include/x86_64-linux-gnu -DSTRICT_R_HEADERS -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fvisibility=hidden -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c split.c -o split.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/include/x86_64-linux-gnu -DSTRICT_R_HEADERS -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fvisibility=hidden -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c ssl.c -o ssl.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/include/x86_64-linux-gnu -DSTRICT_R_HEADERS -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fvisibility=hidden -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c typechecking.c -o typechecking.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/include/x86_64-linux-gnu -DSTRICT_R_HEADERS -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fvisibility=hidden -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c utils.c -o utils.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/include/x86_64-linux-gnu -DSTRICT_R_HEADERS -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fvisibility=hidden -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c version.c -o version.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/include/x86_64-linux-gnu -DSTRICT_R_HEADERS -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fvisibility=hidden -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c winidn.c -o winidn.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/include/x86_64-linux-gnu -DSTRICT_R_HEADERS -DR_NO_REMAP -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fvisibility=hidden -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c writer.c -o writer.o gcc-13 -shared -L/home/hornik/tmp/R/lib -Wl,-O1 -o curl.so callbacks.o curl.o download.o escape.o fetch.o findport.o form.o getdate.o handle.o ieproxy.o init.o interrupt.o multi.o nslookup.o options.o reflist.o split.o ssl.o typechecking.o utils.o version.o winidn.o writer.o -lcurl -L/home/hornik/tmp/R/lib -lR make[2]: Leaving directory '/home/hornik/tmp/scratch/RtmpBfndrS/R.INSTALL3565f256f22c14/pak/src/library/curl/src' installing to /home/hornik/tmp/CRAN/Library/00LOCK-pak/00new/pak/library/curl/libs Compiling filelock using C compiler: ‘gcc-13 (Debian 13.2.0-13) 13.2.0’ make[2]: Entering directory '/home/hornik/tmp/scratch/RtmpBfndrS/R.INSTALL3565f256f22c14/pak/src/library/filelock/src' rm -f filelock.so init.o filelock-unix.o locklist.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c init.c -o init.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c filelock-unix.c -o filelock-unix.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c locklist.c -o locklist.o gcc-13 -shared -L/home/hornik/tmp/R/lib -Wl,-O1 -o filelock.so init.o filelock-unix.o locklist.o -L/home/hornik/tmp/R/lib -lR make[2]: Leaving directory '/home/hornik/tmp/scratch/RtmpBfndrS/R.INSTALL3565f256f22c14/pak/src/library/filelock/src' installing to /home/hornik/tmp/CRAN/Library/00LOCK-pak/00new/pak/library/filelock/libs Compiling jsonlite using C compiler: ‘gcc-13 (Debian 13.2.0-13) 13.2.0’ make[2]: Entering directory '/home/hornik/tmp/scratch/RtmpBfndrS/R.INSTALL3565f256f22c14/pak/src/library/jsonlite/src' gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -Iyajl/api -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fvisibility=hidden -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c base64.c -o base64.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -Iyajl/api -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fvisibility=hidden -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c collapse_array.c -o collapse_array.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -Iyajl/api -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fvisibility=hidden -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c collapse_object.c -o collapse_object.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -Iyajl/api -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fvisibility=hidden -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c collapse_pretty.c -o collapse_pretty.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -Iyajl/api -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fvisibility=hidden -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c escape_chars.c -o escape_chars.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -Iyajl/api -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fvisibility=hidden -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c integer64_to_na.c -o integer64_to_na.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -Iyajl/api -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fvisibility=hidden -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c is_datelist.c -o is_datelist.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -Iyajl/api -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fvisibility=hidden -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c is_recordlist.c -o is_recordlist.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -Iyajl/api -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fvisibility=hidden -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c is_scalarlist.c -o is_scalarlist.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -Iyajl/api -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fvisibility=hidden -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c modp_numtoa.c -o modp_numtoa.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -Iyajl/api -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fvisibility=hidden -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c null_to_na.c -o null_to_na.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -Iyajl/api -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fvisibility=hidden -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c num_to_char.c -o num_to_char.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -Iyajl/api -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fvisibility=hidden -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c parse.c -o parse.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -Iyajl/api -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fvisibility=hidden -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c prettify.c -o prettify.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -Iyajl/api -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fvisibility=hidden -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c push_parser.c -o push_parser.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -Iyajl/api -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fvisibility=hidden -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c r-base64.c -o r-base64.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -Iyajl/api -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-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -Iyajl/api -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fvisibility=hidden -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c row_collapse.c -o row_collapse.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -Iyajl/api -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fvisibility=hidden -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c transpose_list.c -o transpose_list.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -Iyajl/api -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fvisibility=hidden -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c validate.c -o validate.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -Iyajl/api -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fvisibility=hidden -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c yajl/yajl.c -o yajl/yajl.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -Iyajl/api -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fvisibility=hidden -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c yajl/yajl_alloc.c -o yajl/yajl_alloc.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -Iyajl/api -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fvisibility=hidden -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c yajl/yajl_buf.c -o yajl/yajl_buf.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -Iyajl/api -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fvisibility=hidden -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c yajl/yajl_encode.c -o yajl/yajl_encode.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -Iyajl/api -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fvisibility=hidden -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c yajl/yajl_gen.c -o yajl/yajl_gen.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -Iyajl/api -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fvisibility=hidden -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c yajl/yajl_lex.c -o yajl/yajl_lex.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -Iyajl/api -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fvisibility=hidden -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c yajl/yajl_parser.c -o yajl/yajl_parser.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -Iyajl/api -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fvisibility=hidden -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c yajl/yajl_tree.c -o yajl/yajl_tree.o ar rcs yajl/libstatyajl.a yajl/yajl.o yajl/yajl_alloc.o yajl/yajl_buf.o yajl/yajl_encode.o yajl/yajl_gen.o yajl/yajl_lex.o yajl/yajl_parser.o yajl/yajl_tree.o gcc-13 -shared -L/home/hornik/tmp/R/lib -Wl,-O1 -o jsonlite.so base64.o collapse_array.o collapse_object.o collapse_pretty.o escape_chars.o integer64_to_na.o is_datelist.o is_recordlist.o is_scalarlist.o modp_numtoa.o null_to_na.o num_to_char.o parse.o prettify.o push_parser.o r-base64.o register.o row_collapse.o transpose_list.o validate.o -Lyajl -lstatyajl -L/home/hornik/tmp/R/lib -lR make[2]: Leaving directory '/home/hornik/tmp/scratch/RtmpBfndrS/R.INSTALL3565f256f22c14/pak/src/library/jsonlite/src' installing to /home/hornik/tmp/CRAN/Library/00LOCK-pak/00new/pak/library/jsonlite/libs in method for ‘asJSON’ with signature ‘"AsIs"’: no definition for class “AsIs” in method for ‘asJSON’ with signature ‘"ITime"’: no definition for class “ITime” in method for ‘asJSON’ with signature ‘"hms"’: no definition for class “hms” in method for ‘asJSON’ with signature ‘"json"’: no definition for class “json” in method for ‘asJSON’ with signature ‘"integer64"’: no definition for class “integer64” in method for ‘asJSON’ with signature ‘"pairlist"’: no definition for class “pairlist” in method for ‘asJSON’ with signature ‘"blob"’: no definition for class “blob” in method for ‘asJSON’ with signature ‘"scalar"’: no definition for class “scalar” in method for ‘asJSON’ with signature ‘"sf"’: no definition for class “sf” in method for ‘asJSON’ with signature ‘"sfc"’: no definition for class “sfc” in method for ‘asJSON’ with signature ‘"vctrs_vctr"’: no definition for class “vctrs_vctr” Compiling lpSolve using C compiler: ‘gcc-13 (Debian 13.2.0-13) 13.2.0’ make[2]: Entering directory '/home/hornik/tmp/scratch/RtmpBfndrS/R.INSTALL3565f256f22c14/pak/src/library/lpSolve/src' gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I . -DINTEGERTIME -DPARSER_LP -DBUILDING_FOR_R -DYY_NEVER_INTERACTIVE -DUSRDLL -DCLOCKTIME -DRoleIsExternalInvEngine -DINVERSE_ACTIVE=INVERSE_LUSOL -DINLINE=static -DParanoia -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c colamd.c -o colamd.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I . -DINTEGERTIME -DPARSER_LP -DBUILDING_FOR_R -DYY_NEVER_INTERACTIVE -DUSRDLL -DCLOCKTIME -DRoleIsExternalInvEngine -DINVERSE_ACTIVE=INVERSE_LUSOL -DINLINE=static -DParanoia -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c commonlib.c -o commonlib.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I . -DINTEGERTIME -DPARSER_LP -DBUILDING_FOR_R -DYY_NEVER_INTERACTIVE -DUSRDLL -DCLOCKTIME -DRoleIsExternalInvEngine -DINVERSE_ACTIVE=INVERSE_LUSOL -DINLINE=static -DParanoia -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c hbio.c -o hbio.o In file included from /usr/include/stdio.h:906, from hbio.h:4, from hbio.c:215: In function ‘fprintf’, inlined from ‘writeHB_mat_double’ at hbio.c:832:5: /usr/include/x86_64-linux-gnu/bits/stdio2.h:79:10: warning: ‘out_file’ may be used uninitialized [-Wmaybe-uninitialized] 79 | return __fprintf_chk (__stream, __USE_FORTIFY_LEVEL - 1, __fmt, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 80 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ hbio.c: In function ‘writeHB_mat_double’: hbio.c:762:11: note: ‘out_file’ was declared here 762 | FILE *out_file; | ^~~~~~~~ In function ‘fprintf’, inlined from ‘writeHB_mat_char’ at hbio.c:1422:5: /usr/include/x86_64-linux-gnu/bits/stdio2.h:79:10: warning: ‘out_file’ may be used uninitialized [-Wmaybe-uninitialized] 79 | return __fprintf_chk (__stream, __USE_FORTIFY_LEVEL - 1, __fmt, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 80 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ hbio.c: In function ‘writeHB_mat_char’: hbio.c:1357:11: note: ‘out_file’ was declared here 1357 | FILE *out_file; | ^~~~~~~~ gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I . -DINTEGERTIME -DPARSER_LP -DBUILDING_FOR_R -DYY_NEVER_INTERACTIVE -DUSRDLL -DCLOCKTIME -DRoleIsExternalInvEngine -DINVERSE_ACTIVE=INVERSE_LUSOL -DINLINE=static -DParanoia -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c ini.c -o ini.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I . -DINTEGERTIME -DPARSER_LP -DBUILDING_FOR_R -DYY_NEVER_INTERACTIVE -DUSRDLL -DCLOCKTIME -DRoleIsExternalInvEngine -DINVERSE_ACTIVE=INVERSE_LUSOL -DINLINE=static -DParanoia -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-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I . -DINTEGERTIME -DPARSER_LP -DBUILDING_FOR_R -DYY_NEVER_INTERACTIVE -DUSRDLL -DCLOCKTIME -DRoleIsExternalInvEngine -DINVERSE_ACTIVE=INVERSE_LUSOL -DINLINE=static -DParanoia -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c isfixedvar.c -o isfixedvar.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I . -DINTEGERTIME -DPARSER_LP -DBUILDING_FOR_R -DYY_NEVER_INTERACTIVE -DUSRDLL -DCLOCKTIME -DRoleIsExternalInvEngine -DINVERSE_ACTIVE=INVERSE_LUSOL -DINLINE=static -DParanoia -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c lp_Hash.c -o lp_Hash.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I . -DINTEGERTIME -DPARSER_LP -DBUILDING_FOR_R -DYY_NEVER_INTERACTIVE -DUSRDLL -DCLOCKTIME -DRoleIsExternalInvEngine -DINVERSE_ACTIVE=INVERSE_LUSOL -DINLINE=static -DParanoia -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c lp_LUSOL.c -o lp_LUSOL.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I . -DINTEGERTIME -DPARSER_LP -DBUILDING_FOR_R -DYY_NEVER_INTERACTIVE -DUSRDLL -DCLOCKTIME -DRoleIsExternalInvEngine -DINVERSE_ACTIVE=INVERSE_LUSOL -DINLINE=static -DParanoia -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c lp_MDO.c -o lp_MDO.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I . -DINTEGERTIME -DPARSER_LP -DBUILDING_FOR_R -DYY_NEVER_INTERACTIVE -DUSRDLL -DCLOCKTIME -DRoleIsExternalInvEngine -DINVERSE_ACTIVE=INVERSE_LUSOL -DINLINE=static -DParanoia -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c lp_MPS.c -o lp_MPS.o lp_MPS.c: In function ‘MPS_getnameidx.constprop’: lp_MPS.c:1532:9: warning: ‘in’ may be used uninitialized [-Wmaybe-uninitialized] 1532 | return( in ); | ^ lp_MPS.c:1502:7: note: ‘in’ declared here 1502 | int in; | ^~ In file included from /usr/include/stdio.h:906, from commonlib.h:5, from lp_MPS.c:5: In function ‘fprintf’, inlined from ‘MPS_writeBAS’ at lp_MPS.c:1687:3: /usr/include/x86_64-linux-gnu/bits/stdio2.h:79:10: warning: ‘output’ may be used uninitialized [-Wmaybe-uninitialized] 79 | return __fprintf_chk (__stream, __USE_FORTIFY_LEVEL - 1, __fmt, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 80 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ lp_MPS.c: In function ‘MPS_writeBAS’: lp_MPS.c:1664:11: note: ‘output’ was declared here 1664 | FILE *output; /* = stdout; */ | ^~~~~~ gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I . -DINTEGERTIME -DPARSER_LP -DBUILDING_FOR_R -DYY_NEVER_INTERACTIVE -DUSRDLL -DCLOCKTIME -DRoleIsExternalInvEngine -DINVERSE_ACTIVE=INVERSE_LUSOL -DINLINE=static -DParanoia -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c lp_SOS.c -o lp_SOS.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I . -DINTEGERTIME -DPARSER_LP -DBUILDING_FOR_R -DYY_NEVER_INTERACTIVE -DUSRDLL -DCLOCKTIME -DRoleIsExternalInvEngine -DINVERSE_ACTIVE=INVERSE_LUSOL -DINLINE=static -DParanoia -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c lp_crash.c -o lp_crash.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I . -DINTEGERTIME -DPARSER_LP -DBUILDING_FOR_R -DYY_NEVER_INTERACTIVE -DUSRDLL -DCLOCKTIME -DRoleIsExternalInvEngine -DINVERSE_ACTIVE=INVERSE_LUSOL -DINLINE=static -DParanoia -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c lp_lib.c -o lp_lib.o lp_lib.c: In function ‘set_BFP’: lp_lib.c:5185:38: warning: ISO C forbids conversion of object pointer to function pointer type [-Wpedantic] 5185 | lp->bfp_compatible = (BFPbool_lpintintint *) | ^ lp_lib.c:5191:38: warning: ISO C forbids conversion of object pointer to function pointer type [-Wpedantic] 5191 | lp->bfp_name = (BFPchar *) | ^ lp_lib.c:5193:38: warning: ISO C forbids conversion of object pointer to function pointer type [-Wpedantic] 5193 | lp->bfp_free = (BFP_lp *) | ^ lp_lib.c:5195:38: warning: ISO C forbids conversion of object pointer to function pointer type [-Wpedantic] 5195 | lp->bfp_resize = (BFPbool_lpint *) | ^ lp_lib.c:5197:38: warning: ISO C forbids conversion of object pointer to function pointer type [-Wpedantic] 5197 | lp->bfp_nonzeros = (BFPint_lpbool *) | ^ lp_lib.c:5199:38: warning: ISO C forbids conversion of object pointer to function pointer type [-Wpedantic] 5199 | lp->bfp_memallocated = (BFPint_lp *) | ^ lp_lib.c:5201:38: warning: ISO C forbids conversion of object pointer to function pointer type [-Wpedantic] 5201 | lp->bfp_restart = (BFPbool_lp *) | ^ lp_lib.c:5203:38: warning: ISO C forbids conversion of object pointer to function pointer type [-Wpedantic] 5203 | lp->bfp_mustrefactorize = (BFPbool_lp *) | ^ lp_lib.c:5205:38: warning: ISO C forbids conversion of object pointer to function pointer type [-Wpedantic] 5205 | lp->bfp_preparefactorization = (BFPint_lp *) | ^ lp_lib.c:5207:38: warning: ISO C forbids conversion of object pointer to function pointer type [-Wpedantic] 5207 | lp->bfp_factorize = (BFPint_lpintintboolbool *) | ^ lp_lib.c:5209:38: warning: ISO C forbids conversion of object pointer to function pointer type [-Wpedantic] 5209 | lp->bfp_finishupdate = (BFPbool_lpbool *) | ^ lp_lib.c:5211:38: warning: ISO C forbids conversion of object pointer to function pointer type [-Wpedantic] 5211 | lp->bfp_ftran_normal = (BFP_lprealint *) | ^ lp_lib.c:5213:38: warning: ISO C forbids conversion of object pointer to function pointer type [-Wpedantic] 5213 | lp->bfp_ftran_prepare = (BFP_lprealint *) | ^ lp_lib.c:5215:38: warning: ISO C forbids conversion of object pointer to function pointer type [-Wpedantic] 5215 | lp->bfp_btran_normal = (BFP_lprealint *) | ^ lp_lib.c:5217:38: warning: ISO C forbids conversion of object pointer to function pointer type [-Wpedantic] 5217 | lp->bfp_status = (BFPint_lp *) | ^ lp_lib.c:5219:38: warning: ISO C forbids conversion of object pointer to function pointer type [-Wpedantic] 5219 | lp->bfp_implicitslack = (BFPbool_lp *) | ^ lp_lib.c:5221:38: warning: ISO C forbids conversion of object pointer to function pointer type [-Wpedantic] 5221 | lp->bfp_indexbase = (BFPint_lp *) | ^ lp_lib.c:5223:38: warning: ISO C forbids conversion of object pointer to function pointer type [-Wpedantic] 5223 | lp->bfp_rowoffset = (BFPint_lp *) | ^ lp_lib.c:5225:38: warning: ISO C forbids conversion of object pointer to function pointer type [-Wpedantic] 5225 | lp->bfp_pivotmax = (BFPint_lp *) | ^ lp_lib.c:5227:38: warning: ISO C forbids conversion of object pointer to function pointer type [-Wpedantic] 5227 | lp->bfp_init = (BFPbool_lpintintchar *) | ^ lp_lib.c:5229:38: warning: ISO C forbids conversion of object pointer to function pointer type [-Wpedantic] 5229 | lp->bfp_pivotalloc = (BFPbool_lpint *) | ^ lp_lib.c:5231:38: warning: ISO C forbids conversion of object pointer to function pointer type [-Wpedantic] 5231 | lp->bfp_colcount = (BFPint_lp *) | ^ lp_lib.c:5233:38: warning: ISO C forbids conversion of object pointer to function pointer type [-Wpedantic] 5233 | lp->bfp_canresetbasis = (BFPbool_lp *) | ^ lp_lib.c:5235:38: warning: ISO C forbids conversion of object pointer to function pointer type [-Wpedantic] 5235 | lp->bfp_finishfactorization = (BFP_lp *) | ^ lp_lib.c:5237:38: warning: ISO C forbids conversion of object pointer to function pointer type [-Wpedantic] 5237 | lp->bfp_updaterefactstats = (BFP_lp *) | ^ lp_lib.c:5239:38: warning: ISO C forbids conversion of object pointer to function pointer type [-Wpedantic] 5239 | lp->bfp_prepareupdate = (BFPlreal_lpintintreal *) | ^ lp_lib.c:5241:38: warning: ISO C forbids conversion of object pointer to function pointer type [-Wpedantic] 5241 | lp->bfp_pivotRHS = (BFPreal_lplrealreal *) | ^ lp_lib.c:5243:38: warning: ISO C forbids conversion of object pointer to function pointer type [-Wpedantic] 5243 | lp->bfp_btran_double = (BFP_lprealintrealint *) | ^ lp_lib.c:5245:38: warning: ISO C forbids conversion of object pointer to function pointer type [-Wpedantic] 5245 | lp->bfp_efficiency = (BFPreal_lp *) | ^ lp_lib.c:5247:38: warning: ISO C forbids conversion of object pointer to function pointer type [-Wpedantic] 5247 | lp->bfp_pivotvector = (BFPrealp_lp *) | ^ lp_lib.c:5249:38: warning: ISO C forbids conversion of object pointer to function pointer type [-Wpedantic] 5249 | lp->bfp_pivotcount = (BFPint_lp *) | ^ lp_lib.c:5251:38: warning: ISO C forbids conversion of object pointer to function pointer type [-Wpedantic] 5251 | lp->bfp_refactcount = (BFPint_lpint *) | ^ lp_lib.c:5253:38: warning: ISO C forbids conversion of object pointer to function pointer type [-Wpedantic] 5253 | lp->bfp_isSetI = (BFPbool_lp *) | ^ lp_lib.c:5255:38: warning: ISO C forbids conversion of object pointer to function pointer type [-Wpedantic] 5255 | lp->bfp_findredundant = (BFPint_lpintrealcbintint *) | ^ lp_lib.c: In function ‘set_XLI’: lp_lib.c:5447:38: warning: ISO C forbids conversion of object pointer to function pointer type [-Wpedantic] 5447 | lp->xli_compatible = (XLIbool_lpintintint *) | ^ lp_lib.c:5453:40: warning: ISO C forbids conversion of object pointer to function pointer type [-Wpedantic] 5453 | lp->xli_name = (XLIchar *) | ^ lp_lib.c:5455:40: warning: ISO C forbids conversion of object pointer to function pointer type [-Wpedantic] 5455 | lp->xli_readmodel = (XLIbool_lpcharcharcharint *) | ^ lp_lib.c:5457:40: warning: ISO C forbids conversion of object pointer to function pointer type [-Wpedantic] 5457 | lp->xli_writemodel = (XLIbool_lpcharcharbool *) | ^ lp_lib.c: In function ‘set_outputfile’: lp_lib.c:201:5: warning: ‘output’ may be used uninitialized [-Wmaybe-uninitialized] 201 | set_outputstream(lp, output); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ lp_lib.c:197:11: note: ‘output’ was declared here 197 | FILE *output; /* = stdout; */ | ^~~~~~ gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I . -DINTEGERTIME -DPARSER_LP -DBUILDING_FOR_R -DYY_NEVER_INTERACTIVE -DUSRDLL -DCLOCKTIME -DRoleIsExternalInvEngine -DINVERSE_ACTIVE=INVERSE_LUSOL -DINLINE=static -DParanoia -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c lp_matrix.c -o lp_matrix.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I . -DINTEGERTIME -DPARSER_LP -DBUILDING_FOR_R -DYY_NEVER_INTERACTIVE -DUSRDLL -DCLOCKTIME -DRoleIsExternalInvEngine -DINVERSE_ACTIVE=INVERSE_LUSOL -DINLINE=static -DParanoia -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c lp_mipbb.c -o lp_mipbb.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I . -DINTEGERTIME -DPARSER_LP -DBUILDING_FOR_R -DYY_NEVER_INTERACTIVE -DUSRDLL -DCLOCKTIME -DRoleIsExternalInvEngine -DINVERSE_ACTIVE=INVERSE_LUSOL -DINLINE=static -DParanoia -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c lp_params.c -o lp_params.o lp_params.c:266:1: warning: missing braces around initializer [-Wmissing-braces] 266 | { | ^ lp_params.c:266:1: warning: missing braces around initializer [-Wmissing-braces] lp_params.c:266:1: warning: missing braces around initializer [-Wmissing-braces] lp_params.c:266:1: warning: missing braces around initializer [-Wmissing-braces] lp_params.c:266:1: warning: missing braces around initializer [-Wmissing-braces] lp_params.c:266:1: warning: missing braces around initializer [-Wmissing-braces] lp_params.c:266:1: warning: missing braces around initializer [-Wmissing-braces] lp_params.c:266:1: warning: missing braces around initializer [-Wmissing-braces] lp_params.c:266:1: warning: missing braces around initializer [-Wmissing-braces] lp_params.c:266:1: warning: missing braces around initializer [-Wmissing-braces] lp_params.c:266:1: warning: missing braces around initializer [-Wmissing-braces] lp_params.c:266:1: warning: missing braces around initializer [-Wmissing-braces] lp_params.c:266:1: warning: missing braces around initializer [-Wmissing-braces] lp_params.c:266:1: warning: missing braces around initializer [-Wmissing-braces] lp_params.c:266:1: warning: missing braces around initializer [-Wmissing-braces] lp_params.c:266:1: warning: missing braces around initializer [-Wmissing-braces] lp_params.c:266:1: warning: missing braces around initializer [-Wmissing-braces] lp_params.c:266:1: warning: missing braces around initializer [-Wmissing-braces] lp_params.c:266:1: warning: missing braces around initializer [-Wmissing-braces] lp_params.c:266:1: warning: missing braces around initializer [-Wmissing-braces] lp_params.c:266:1: warning: missing braces around initializer [-Wmissing-braces] lp_params.c:266:1: warning: missing braces around initializer [-Wmissing-braces] lp_params.c:266:1: warning: missing braces around initializer [-Wmissing-braces] lp_params.c:266:1: warning: missing braces around initializer [-Wmissing-braces] lp_params.c:266:1: warning: missing braces around initializer [-Wmissing-braces] lp_params.c:266:1: warning: missing braces around initializer [-Wmissing-braces] lp_params.c:266:1: warning: missing braces around initializer [-Wmissing-braces] lp_params.c:266:1: warning: missing braces around initializer [-Wmissing-braces] lp_params.c:266:1: warning: missing braces around initializer [-Wmissing-braces] lp_params.c:266:1: warning: missing braces around initializer [-Wmissing-braces] lp_params.c:266:1: warning: missing braces around initializer [-Wmissing-braces] lp_params.c:266:1: warning: missing braces around initializer [-Wmissing-braces] lp_params.c:266:1: warning: missing braces around initializer [-Wmissing-braces] gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I . -DINTEGERTIME -DPARSER_LP -DBUILDING_FOR_R -DYY_NEVER_INTERACTIVE -DUSRDLL -DCLOCKTIME -DRoleIsExternalInvEngine -DINVERSE_ACTIVE=INVERSE_LUSOL -DINLINE=static -DParanoia -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c lp_presolve.c -o lp_presolve.o lp_presolve.c: In function ‘presolve_debugmap’: lp_presolve.c:486:51: warning: variable ‘n’ set but not used [-Wunused-but-set-variable] 486 | int colnr, ix, ie, nx, jx, je, *cols, *rows, n; | ^ lp_presolve.c: In function ‘presolve_colfixdual’: lp_presolve.c:2016:18: warning: variable ‘isMI’ set but not used [-Wunused-but-set-variable] 2016 | MYBOOL hasOF, isMI, isDualFREE = TRUE; | ^~~~ lp_presolve.c: In function ‘presolve_coldominance01’: lp_presolve.c:3849:34: warning: variable ‘je’ set but not used [-Wunused-but-set-variable] 3849 | int i, ii, ib, ie, n, jb, je, jx, jj, item, item2, | ^~ lp_presolve.c: In function ‘presolve_columns’: lp_presolve.c:4622:46: warning: variable ‘item’ set but not used [-Wunused-but-set-variable] 4622 | status = RUNNING, ix, j, countNZ, item; | ^~~~ lp_presolve.c:4615:31: warning: variable ‘unbounded’ set but not used [-Wunused-but-set-variable] 4615 | MYBOOL candelete, isOFNZ, unbounded, | ^~~~~~~~~ lp_presolve.c: In function ‘presolve_rows’: lp_presolve.c:5060:13: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 5060 | if(!presolve_fixSOS1(psdata, j, Value1, &iConRemove, &iVarFixed)) | ^~ lp_presolve.c:5062:15: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 5062 | psdata->forceupdate = TRUE; | ^~~~~~ In file included from /usr/include/stdio.h:906, from commonlib.h:5, from lp_presolve.c:36: In function ‘fprintf’, inlined from ‘presolve_debugdump’ at lp_presolve.c:3585:3: /usr/include/x86_64-linux-gnu/bits/stdio2.h:79:10: warning: ‘output’ may be used uninitialized [-Wmaybe-uninitialized] 79 | return __fprintf_chk (__stream, __USE_FORTIFY_LEVEL - 1, __fmt, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 80 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ lp_presolve.c: In function ‘presolve_debugdump’: lp_presolve.c:3558:11: note: ‘output’ was declared here 3558 | FILE *output; /* = stdout; */ | ^~~~~~ gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I . -DINTEGERTIME -DPARSER_LP -DBUILDING_FOR_R -DYY_NEVER_INTERACTIVE -DUSRDLL -DCLOCKTIME -DRoleIsExternalInvEngine -DINVERSE_ACTIVE=INVERSE_LUSOL -DINLINE=static -DParanoia -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c lp_price.c -o lp_price.o lp_price.c: In function ‘compareImprovementVar’: lp_price.c:49:7: warning: variable ‘candidatecolno’ set but not used [-Wunused-but-set-variable] 49 | candidatecolno, candidatevarno = candidate->varno; | ^~~~~~~~~~~~~~ lp_price.c:48:7: warning: variable ‘currentcolno’ set but not used [-Wunused-but-set-variable] 48 | int currentcolno, currentvarno = current->varno, | ^~~~~~~~~~~~ lp_price.c: In function ‘compareSubstitutionVar’: lp_price.c:162:10: warning: variable ‘candidatecolno’ set but not used [-Wunused-but-set-variable] 162 | candidatecolno, candidatevarno = candidate->varno; | ^~~~~~~~~~~~~~ lp_price.c:161:10: warning: variable ‘currentcolno’ set but not used [-Wunused-but-set-variable] 161 | int currentcolno, currentvarno = current->varno, | ^~~~~~~~~~~~ lp_price.c: In function ‘partial_findBlocks’: lp_price.c:1560:15: warning: variable ‘blockdata’ set but not used [-Wunused-but-set-variable] 1560 | partialrec *blockdata; | ^~~~~~~~~ gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I . -DINTEGERTIME -DPARSER_LP -DBUILDING_FOR_R -DYY_NEVER_INTERACTIVE -DUSRDLL -DCLOCKTIME -DRoleIsExternalInvEngine -DINVERSE_ACTIVE=INVERSE_LUSOL -DINLINE=static -DParanoia -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c lp_pricePSE.c -o lp_pricePSE.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I . -DINTEGERTIME -DPARSER_LP -DBUILDING_FOR_R -DYY_NEVER_INTERACTIVE -DUSRDLL -DCLOCKTIME -DRoleIsExternalInvEngine -DINVERSE_ACTIVE=INVERSE_LUSOL -DINLINE=static -DParanoia -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c lp_report.c -o lp_report.o In file included from /usr/include/stdio.h:906, from lp_report.c:19: In function ‘fprintf’, inlined from ‘REPORT_debugdump’ at lp_report.c:308:3: /usr/include/x86_64-linux-gnu/bits/stdio2.h:79:10: warning: ‘output’ may be used uninitialized [-Wmaybe-uninitialized] 79 | return __fprintf_chk (__stream, __USE_FORTIFY_LEVEL - 1, __fmt, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 80 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ lp_report.c: In function ‘REPORT_debugdump’: lp_report.c:299:11: note: ‘output’ was declared here 299 | FILE *output; | ^~~~~~ lp_report.c: In function ‘REPORT_mat_mmsave’: lp_report.c:758:3: warning: ‘output’ may be used uninitialized [-Wmaybe-uninitialized] 758 | mm_write_mtx_crd_size(output, n+kk, m, nz+(colndx == lp->var_basic ? 1 : 0)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ lp_report.c:709:16: note: ‘output’ was declared here 709 | FILE *output; /* = stdout; */ | ^~~~~~ gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I . -DINTEGERTIME -DPARSER_LP -DBUILDING_FOR_R -DYY_NEVER_INTERACTIVE -DUSRDLL -DCLOCKTIME -DRoleIsExternalInvEngine -DINVERSE_ACTIVE=INVERSE_LUSOL -DINLINE=static -DParanoia -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c lp_rlp.c -o lp_rlp.o In file included from lp_rlp.c:97: lp_rlp.h:1871:14: warning: ‘lp_yy_flex_realloc’ defined but not used [-Wunused-function] 1871 | static void *lp_yy_flex_realloc( void *ptr, lp_yy_size_t size ) | ^~~~~~~~~~~~~~~~~~ lp_rlp.h:1845:12: warning: ‘lp_yy_flex_strlen’ defined but not used [-Wunused-function] 1845 | static int lp_yy_flex_strlen( lp_yyconst char *s ) | ^~~~~~~~~~~~~~~~~ lp_rlp.h:1797:13: warning: ‘lp_yy_fatal_error’ defined but not used [-Wunused-function] 1797 | static void lp_yy_fatal_error( lp_yyconst char msg[] ) | ^~~~~~~~~~~~~~~~~ lp_rlp.h:1353:13: warning: ‘lp_yyunput’ defined but not used [-Wunused-function] 1353 | static void lp_yyunput( int c, register char *lp_yy_bp ) | ^~~~~~~~~~ gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I . -DINTEGERTIME -DPARSER_LP -DBUILDING_FOR_R -DYY_NEVER_INTERACTIVE -DUSRDLL -DCLOCKTIME -DRoleIsExternalInvEngine -DINVERSE_ACTIVE=INVERSE_LUSOL -DINLINE=static -DParanoia -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c lp_scale.c -o lp_scale.o lp_scale.c: In function ‘CurtisReidScales’: lp_scale.c:150:24: warning: variable ‘ekm2’ set but not used [-Wunused-but-set-variable] 150 | qkm2, qkqkm1, ekm2, ekekm1, | ^~~~ lp_scale.c:150:10: warning: variable ‘qkm2’ set but not used [-Wunused-but-set-variable] 150 | qkm2, qkqkm1, ekm2, ekekm1, | ^~~~ lp_scale.c: In function ‘scale_columns’: lp_scale.c:632:16: warning: variable ‘colMax’ set but not used [-Wunused-but-set-variable] 632 | int i,j, colMax, nz; | ^~~~~~ gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I . -DINTEGERTIME -DPARSER_LP -DBUILDING_FOR_R -DYY_NEVER_INTERACTIVE -DUSRDLL -DCLOCKTIME -DRoleIsExternalInvEngine -DINVERSE_ACTIVE=INVERSE_LUSOL -DINLINE=static -DParanoia -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c lp_simplex.c -o lp_simplex.o lp_simplex.c: In function ‘dualloop’: lp_simplex.c:983:10: warning: variable ‘epsvalue’ set but not used [-Wunused-but-set-variable] 983 | REAL epsvalue, xviolated, cviolated, | ^~~~~~~~ gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I . -DINTEGERTIME -DPARSER_LP -DBUILDING_FOR_R -DYY_NEVER_INTERACTIVE -DUSRDLL -DCLOCKTIME -DRoleIsExternalInvEngine -DINVERSE_ACTIVE=INVERSE_LUSOL -DINLINE=static -DParanoia -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c lp_utils.c -o lp_utils.o lp_utils.c: In function ‘searchFor’: lp_utils.c:547:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 547 | if(absolute) | ^~ lp_utils.c:549:7: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 549 | while((beginPos < endPos) && (match != target)) { | ^~~~~ lp_utils.c: In function ‘compareLink’: lp_utils.c:948:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 948 | if(test == 0) | ^~ lp_utils.c:950:5: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 950 | if(test == 0) | ^~ gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I . -DINTEGERTIME -DPARSER_LP -DBUILDING_FOR_R -DYY_NEVER_INTERACTIVE -DUSRDLL -DCLOCKTIME -DRoleIsExternalInvEngine -DINVERSE_ACTIVE=INVERSE_LUSOL -DINLINE=static -DParanoia -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c lp_wlp.c -o lp_wlp.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I . -DINTEGERTIME -DPARSER_LP -DBUILDING_FOR_R -DYY_NEVER_INTERACTIVE -DUSRDLL -DCLOCKTIME -DRoleIsExternalInvEngine -DINVERSE_ACTIVE=INVERSE_LUSOL -DINLINE=static -DParanoia -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c lpslink56.c -o lpslink56.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I . -DINTEGERTIME -DPARSER_LP -DBUILDING_FOR_R -DYY_NEVER_INTERACTIVE -DUSRDLL -DCLOCKTIME -DRoleIsExternalInvEngine -DINVERSE_ACTIVE=INVERSE_LUSOL -DINLINE=static -DParanoia -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c lusol.c -o lusol.o In file included from lusol.c:748: lusol1.h: In function ‘LU1FAC’: lusol1.h:3359:34: warning: variable ‘TSP’ set but not used [-Wunused-but-set-variable] 3359 | MYBOOL KEEPLU, TCP, TPP, TRP, TSP; | ^~~ lusol1.h:3359:29: warning: variable ‘TRP’ set but not used [-Wunused-but-set-variable] 3359 | MYBOOL KEEPLU, TCP, TPP, TRP, TSP; | ^~~ lusol1.h:3359:19: warning: variable ‘TCP’ set but not used [-Wunused-but-set-variable] 3359 | MYBOOL KEEPLU, TCP, TPP, TRP, TSP; | ^~~ gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I . -DINTEGERTIME -DPARSER_LP -DBUILDING_FOR_R -DYY_NEVER_INTERACTIVE -DUSRDLL -DCLOCKTIME -DRoleIsExternalInvEngine -DINVERSE_ACTIVE=INVERSE_LUSOL -DINLINE=static -DParanoia -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c lusolio.c -o lusolio.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I . -DINTEGERTIME -DPARSER_LP -DBUILDING_FOR_R -DYY_NEVER_INTERACTIVE -DUSRDLL -DCLOCKTIME -DRoleIsExternalInvEngine -DINVERSE_ACTIVE=INVERSE_LUSOL -DINLINE=static -DParanoia -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c mmio.c -o mmio.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I . -DINTEGERTIME -DPARSER_LP -DBUILDING_FOR_R -DYY_NEVER_INTERACTIVE -DUSRDLL -DCLOCKTIME -DRoleIsExternalInvEngine -DINVERSE_ACTIVE=INVERSE_LUSOL -DINLINE=static -DParanoia -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c myblas.c -o myblas.o myblas.c: In function ‘load_BLAS’: myblas.c:100:21: warning: ISO C forbids conversion of object pointer to function pointer type [-Wpedantic] 100 | BLAS_dscal = (BLAS_dscal_func *) my_GetProcAddress(hBLAS, BLAS_prec "scal"); | ^ myblas.c:101:21: warning: ISO C forbids conversion of object pointer to function pointer type [-Wpedantic] 101 | BLAS_dcopy = (BLAS_dcopy_func *) my_GetProcAddress(hBLAS, BLAS_prec "copy"); | ^ myblas.c:102:21: warning: ISO C forbids conversion of object pointer to function pointer type [-Wpedantic] 102 | BLAS_daxpy = (BLAS_daxpy_func *) my_GetProcAddress(hBLAS, BLAS_prec "axpy"); | ^ myblas.c:103:21: warning: ISO C forbids conversion of object pointer to function pointer type [-Wpedantic] 103 | BLAS_dswap = (BLAS_dswap_func *) my_GetProcAddress(hBLAS, BLAS_prec "swap"); | ^ myblas.c:104:21: warning: ISO C forbids conversion of object pointer to function pointer type [-Wpedantic] 104 | BLAS_ddot = (BLAS_ddot_func *) my_GetProcAddress(hBLAS, BLAS_prec "dot"); | ^ myblas.c:105:21: warning: ISO C forbids conversion of object pointer to function pointer type [-Wpedantic] 105 | BLAS_idamax = (BLAS_idamax_func *) my_GetProcAddress(hBLAS, "i" BLAS_prec "amax"); | ^ myblas.c:106:21: warning: ISO C forbids conversion of object pointer to function pointer type [-Wpedantic] 106 | BLAS_idamin = (BLAS_idamin_func *) my_GetProcAddress(hBLAS, "i" BLAS_prec "amin"); | ^ gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I . -DINTEGERTIME -DPARSER_LP -DBUILDING_FOR_R -DYY_NEVER_INTERACTIVE -DUSRDLL -DCLOCKTIME -DRoleIsExternalInvEngine -DINVERSE_ACTIVE=INVERSE_LUSOL -DINLINE=static -DParanoia -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c sparselib.c -o sparselib.o sparselib.c: In function ‘dswapVector1’: sparselib.c:823:10: warning: variable ‘d’ set but not used [-Wunused-but-set-variable] 823 | int i, d, n; | ^ gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I . -DINTEGERTIME -DPARSER_LP -DBUILDING_FOR_R -DYY_NEVER_INTERACTIVE -DUSRDLL -DCLOCKTIME -DRoleIsExternalInvEngine -DINVERSE_ACTIVE=INVERSE_LUSOL -DINLINE=static -DParanoia -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c yacc_read.c -o yacc_read.o gcc-13 -shared -L/home/hornik/tmp/R/lib -Wl,-O1 -o lpSolve.so colamd.o commonlib.o hbio.o ini.o init.o isfixedvar.o lp_Hash.o lp_LUSOL.o lp_MDO.o lp_MPS.o lp_SOS.o lp_crash.o lp_lib.o lp_matrix.o lp_mipbb.o lp_params.o lp_presolve.o lp_price.o lp_pricePSE.o lp_report.o lp_rlp.o lp_scale.o lp_simplex.o lp_utils.o lp_wlp.o lpslink56.o lusol.o lusolio.o mmio.o myblas.o sparselib.o yacc_read.o -L/home/hornik/tmp/R/lib -lR make[2]: Leaving directory '/home/hornik/tmp/scratch/RtmpBfndrS/R.INSTALL3565f256f22c14/pak/src/library/lpSolve/src' installing to /home/hornik/tmp/CRAN/Library/00LOCK-pak/00new/pak/library/lpSolve/libs Compiling ps using C compiler: ‘gcc-13 (Debian 13.2.0-13) 13.2.0’ make[2]: Entering directory '/home/hornik/tmp/scratch/RtmpBfndrS/R.INSTALL3565f256f22c14/pak/src/library/ps/src' gcc-13 -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -Wl,-O1 -Wall px.c -o px gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c init.c -o init.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c api-common.c -o api-common.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c common.c -o common.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c extra.c -o extra.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c dummy.c -o dummy.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c error-codes.c -o error-codes.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c posix.c -o posix.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c api-posix.c -o api-posix.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c linux.c -o linux.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c api-linux.c -o api-linux.o gcc-13 -shared -L/home/hornik/tmp/R/lib -Wl,-O1 -o ps.so init.o api-common.o common.o extra.o dummy.o error-codes.o posix.o api-posix.o linux.o api-linux.o -L/home/hornik/tmp/R/lib -lR make[2]: Leaving directory '/home/hornik/tmp/scratch/RtmpBfndrS/R.INSTALL3565f256f22c14/pak/src/library/ps/src' installing via 'install.libs.R' to /home/hornik/tmp/CRAN/Library/00LOCK-pak/00new/pak/library/ps Compiling zip using C compiler: ‘gcc-13 (Debian 13.2.0-13) 13.2.0’ make[2]: Entering directory '/home/hornik/tmp/scratch/RtmpBfndrS/R.INSTALL3565f256f22c14/pak/src/library/zip/src' gcc-13 -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native miniz.c zip.c unixutils.c tools/cmdzip.c -o tools/cmdzip gcc-13 -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native miniz.c zip.c unixutils.c tools/cmdunzip.c -o tools/cmdunzip gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fvisibility=hidden -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c init.c -o init.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fvisibility=hidden -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c miniz.c -o miniz.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fvisibility=hidden -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c rzip.c -o rzip.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fvisibility=hidden -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c zip.c -o zip.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fvisibility=hidden -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c unixutils.c -o unixutils.o gcc-13 -shared -L/home/hornik/tmp/R/lib -Wl,-O1 -o zip.so init.o miniz.o rzip.o zip.o unixutils.o -L/home/hornik/tmp/R/lib -lR make[2]: Leaving directory '/home/hornik/tmp/scratch/RtmpBfndrS/R.INSTALL3565f256f22c14/pak/src/library/zip/src' installing via 'install.libs.R' to /home/hornik/tmp/CRAN/Library/00LOCK-pak/00new/pak/library/zip Compiling processx using C compiler: ‘gcc-13 (Debian 13.2.0-13) 13.2.0’ make[2]: Entering directory '/home/hornik/tmp/scratch/RtmpBfndrS/R.INSTALL3565f256f22c14/pak/src/library/processx/src' gcc-13 -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -Wl,-O1 -Wall tools/px.c -o tools/px gcc-13 -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -Wl,-O1 -I../inst/include -Wall tools/sock.c -o tools/sock gcc-13 -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -Wl,-O1 supervisor/supervisor.c \ supervisor/utils.c -o supervisor/supervisor gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c base64.c -o base64.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c client.c -o client.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c errors.c -o errors.o gcc-13 -shared -L"/home/hornik/tmp/R/lib" -Wl,-O1 -o client.so base64.o client.o errors.o \ -L"/home/hornik/tmp/R/lib" -lR if [ -n "" ]; then \ echo Removing libR.so dependency from client.so; \ patchelf --remove-needed libR.so client.so; \ fi gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c init.c -o init.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c poll.c -o poll.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c processx-connection.c -o processx-connection.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c processx-vector.c -o processx-vector.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c create-time.c -o create-time.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c unix/childlist.c -o unix/childlist.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c unix/connection.c -o unix/connection.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c unix/processx.c -o unix/processx.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c unix/sigchld.c -o unix/sigchld.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c unix/utils.c -o unix/utils.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c unix/named_pipe.c -o unix/named_pipe.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c cleancall.c -o cleancall.o gcc-13 -shared -L/home/hornik/tmp/R/lib -Wl,-O1 -o processx.so init.o poll.o errors.o processx-connection.o processx-vector.o create-time.o base64.o unix/childlist.o unix/connection.o unix/processx.o unix/sigchld.o unix/utils.o unix/named_pipe.o cleancall.o -L/home/hornik/tmp/R/lib -lR make[2]: Leaving directory '/home/hornik/tmp/scratch/RtmpBfndrS/R.INSTALL3565f256f22c14/pak/src/library/processx/src' installing via 'install.libs.R' to /home/hornik/tmp/CRAN/Library/00LOCK-pak/00new/pak/library/processx Compiling callr Compiling desc Compiling pkgbuild Compiling pkgcache using C compiler: ‘gcc-13 (Debian 13.2.0-13) 13.2.0’ make[2]: Entering directory '/home/hornik/tmp/scratch/RtmpBfndrS/R.INSTALL3565f256f22c14/pak/src/library/pkgcache/src' gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c errors.c -o errors.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c init.c -o init.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c lib.c -o lib.o gcc-13 -I"/home/hornik/tmp/R/include" -DNDEBUG -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c winfiles.c -o winfiles.o gcc-13 -shared -L/home/hornik/tmp/R/lib -Wl,-O1 -o pkgcache.so errors.o init.o lib.o winfiles.o -L/home/hornik/tmp/R/lib -lR make[2]: Leaving directory '/home/hornik/tmp/scratch/RtmpBfndrS/R.INSTALL3565f256f22c14/pak/src/library/pkgcache/src' installing to /home/hornik/tmp/CRAN/Library/00LOCK-pak/00new/pak/library/pkgcache/libs Compiling pkgsearch Compiling pkgdepends make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpBfndrS/R.INSTALL3565f256f22c14/pak/src' installing via 'install.libs.R' to /home/hornik/tmp/CRAN/Library/00LOCK-pak/00new/pak ** 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 (pak) begin installing package ‘PaRe’ * installing *source* package ‘PaRe’ ... ** package ‘PaRe’ 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 (PaRe) checking SqlRender_1.17.0.tar.gz ... checking Achilles_1.7.2.tar.gz ... checking CohortAlgebra_0.2.0.tar.gz ... checking CommonDataModel_0.2.0.tar.gz ... checking DatabaseConnector_6.3.2.tar.gz ... checking allofus_1.0.0.tar.gz ... checking CDMConnector_1.3.0.tar.gz ... checking DrugExposureDiagnostics_1.0.4.tar.gz ... checking TreatmentPatterns_2.6.5.tar.gz ... Depends: Package: SqlRender Imports: rJava, rlang, checkmate Timings: user system elapsed SqlRender 49.647 5.213 52.782 Results: Check status summary: ERROR NOTE OK Source packages 0 0 1 Reverse depends 1 1 6 Check results summary: SqlRender ... OK rdepends_Achilles ... OK rdepends_allofus ... OK rdepends_CDMConnector ... ERROR * checking tests ... [69s/85s] ERROR * checking re-building of vignette outputs ... [24s/30s] ERROR rdepends_CohortAlgebra ... OK rdepends_CommonDataModel ... OK rdepends_DatabaseConnector ... OK rdepends_DrugExposureDiagnostics ... OK rdepends_TreatmentPatterns ... NOTE * checking package dependencies ... NOTE Check results changes: Package: CDMConnector Check: package dependencies Old result: NOTE New result: OK Package: CDMConnector Check: re-building of vignette outputs New result: ERROR Package: CDMConnector Check: tests New result: ERROR