* installing *source* package ‘LABTNSCPSS’ ...
** this is package ‘LABTNSCPSS’ version ‘1.0.2’
** package ‘LABTNSCPSS’ 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
Installing packages into ‘/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e’
(as ‘lib’ is unspecified)
also installing the dependencies ‘fastmap’, ‘httpuv’, ‘later’, ‘mime’, ‘otel’, ‘promises’, ‘sourcetools’, ‘xtable’, ‘base64enc’, ‘jquerylib’, ‘sass’, ‘fansi’, ‘systemfonts’, ‘textshaping’, ‘tinytex’, ‘xfun’, ‘highr’, ‘diffobj’, ‘askpass’, ‘credentials’, ‘openssl’, ‘sys’, ‘gitcreds’, ‘httr2’, ‘ini’, ‘cachem’, ‘shiny’, ‘htmltools’, ‘callr’, ‘processx’, ‘bslib’, ‘downlit’, ‘fontawesome’, ‘ragg’, ‘rmarkdown’, ‘xml2’, ‘htmlwidgets’, ‘digest’, ‘prettyunits’, ‘xopen’, ‘brew’, ‘commonmark’, ‘knitr’, ‘brio’, ‘evaluate’, ‘praise’, ‘ps’, ‘waldo’, ‘clipr’, ‘crayon’, ‘curl’, ‘desc’, ‘fs’, ‘gert’, ‘gh’, ‘jsonlite’, ‘rappdirs’, ‘rprojroot’, ‘rstudioapi’, ‘whisker’, ‘yaml’, ‘ellipsis’, ‘memoise’, ‘miniUI’, ‘pak’, ‘pkgbuild’, ‘pkgdown’, ‘pkgload’, ‘profvis’, ‘rcmdcheck’, ‘roxygen2’, ‘rversions’, ‘sessioninfo’, ‘testthat’, ‘urlchecker’, ‘Rcpp’, ‘zip’
* installing *source* package ‘fastmap’ ...
** this is package ‘fastmap’ version ‘1.2.0’
** package ‘fastmap’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C compiler: ‘clang version 22.1.2 (https://github.com/llvm/llvm-project 1ab49a973e210e97d61e5db6557180dcb92c3e98)’
using C++ compiler: ‘clang version 22.1.2 (https://github.com/llvm/llvm-project 1ab49a973e210e97d61e5db6557180dcb92c3e98)’
make[1]: Entering directory '/tmp/RtmpokSdMQ/working_dir/Rtmp5Budwz/R.INSTALL1699ac3349d5c8/fastmap/src'
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -Ilib/ -isystem /usr/local/clang22/include -I/usr/local/clang/include -DR_NO_REMAP -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c fastmap.cpp -o fastmap.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -Ilib/ -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c init.c -o init.o
clang++-22 -stdlib=libc++ -std=gnu++20 -shared -L/usr/local/clang/lib64 -L/usr/local/clang22/lib -L/usr/local/clang22/lib/x86_64-unknown-linux-gnu -L/usr/local/lib64 -o fastmap.so fastmap.o init.o
make[1]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/Rtmp5Budwz/R.INSTALL1699ac3349d5c8/fastmap/src'
make[1]: Entering directory '/tmp/RtmpokSdMQ/working_dir/Rtmp5Budwz/R.INSTALL1699ac3349d5c8/fastmap/src'
make[1]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/Rtmp5Budwz/R.INSTALL1699ac3349d5c8/fastmap/src'
installing to /tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/00LOCK-fastmap/00new/fastmap/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 (fastmap)
* installing *source* package ‘mime’ ...
** this is package ‘mime’ version ‘0.13’
** package ‘mime’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C compiler: ‘clang version 22.1.2 (https://github.com/llvm/llvm-project 1ab49a973e210e97d61e5db6557180dcb92c3e98)’
make[1]: Entering directory '/tmp/RtmpokSdMQ/working_dir/RtmpV9jbNy/R.INSTALL16a0c6dd5cfef/mime/src'
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c init.c -o init.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c rawmatch.c -o rawmatch.o
clang-22 -std=gnu23 -shared -L/usr/local/clang/lib64 -L/usr/local/clang22/lib -L/usr/local/clang22/lib/x86_64-unknown-linux-gnu -L/usr/local/lib64 -o mime.so init.o rawmatch.o
make[1]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/RtmpV9jbNy/R.INSTALL16a0c6dd5cfef/mime/src'
make[1]: Entering directory '/tmp/RtmpokSdMQ/working_dir/RtmpV9jbNy/R.INSTALL16a0c6dd5cfef/mime/src'
make[1]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/RtmpV9jbNy/R.INSTALL16a0c6dd5cfef/mime/src'
installing to /tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/00LOCK-mime/00new/mime/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 (mime)
* installing *source* package ‘otel’ ...
** this is package ‘otel’ version ‘0.2.0’
** package ‘otel’ 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 (otel)
* installing *source* package ‘sourcetools’ ...
** this is package ‘sourcetools’ version ‘0.1.7-1’
** package ‘sourcetools’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C compiler: ‘clang version 22.1.2 (https://github.com/llvm/llvm-project 1ab49a973e210e97d61e5db6557180dcb92c3e98)’
using C++ compiler: ‘clang version 22.1.2 (https://github.com/llvm/llvm-project 1ab49a973e210e97d61e5db6557180dcb92c3e98)’
make[1]: Entering directory '/tmp/RtmpokSdMQ/working_dir/RtmpWv9L1h/R.INSTALL16a7c342cf1e69/sourcetools/src'
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../inst/include -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c Reader.cpp -o Reader.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../inst/include -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c Tokenizer.cpp -o Tokenizer.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../inst/include -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c sourcetools-init.c -o sourcetools-init.o
clang++-22 -stdlib=libc++ -std=gnu++20 -shared -L/usr/local/clang/lib64 -L/usr/local/clang22/lib -L/usr/local/clang22/lib/x86_64-unknown-linux-gnu -L/usr/local/lib64 -o sourcetools.so Reader.o Tokenizer.o sourcetools-init.o
make[1]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/RtmpWv9L1h/R.INSTALL16a7c342cf1e69/sourcetools/src'
make[1]: Entering directory '/tmp/RtmpokSdMQ/working_dir/RtmpWv9L1h/R.INSTALL16a7c342cf1e69/sourcetools/src'
make[1]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/RtmpWv9L1h/R.INSTALL16a7c342cf1e69/sourcetools/src'
installing to /tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/00LOCK-sourcetools/00new/sourcetools/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 (sourcetools)
* installing *source* package ‘xtable’ ...
** this is package ‘xtable’ version ‘1.8-8’
** package ‘xtable’ successfully unpacked and MD5 sums checked
** using staged installation
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (xtable)
* installing *source* package ‘base64enc’ ...
** this is package ‘base64enc’ version ‘0.1-6’
** package ‘base64enc’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C compiler: ‘clang version 22.1.2 (https://github.com/llvm/llvm-project 1ab49a973e210e97d61e5db6557180dcb92c3e98)’
make[1]: Entering directory '/tmp/RtmpokSdMQ/working_dir/RtmpUEtcfT/R.INSTALL16b15823bede6/base64enc/src'
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c base64.c -o base64.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c dummy.c -o dummy.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c uriencode.c -o uriencode.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c utf8.c -o utf8.o
clang-22 -std=gnu23 -shared -L/usr/local/clang/lib64 -L/usr/local/clang22/lib -L/usr/local/clang22/lib/x86_64-unknown-linux-gnu -L/usr/local/lib64 -o base64enc.so base64.o dummy.o uriencode.o utf8.o
make[1]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/RtmpUEtcfT/R.INSTALL16b15823bede6/base64enc/src'
make[1]: Entering directory '/tmp/RtmpokSdMQ/working_dir/RtmpUEtcfT/R.INSTALL16b15823bede6/base64enc/src'
make[1]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/RtmpUEtcfT/R.INSTALL16b15823bede6/base64enc/src'
installing to /tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/00LOCK-base64enc/00new/base64enc/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 (base64enc)
* installing *source* package ‘fansi’ ...
** this is package ‘fansi’ version ‘1.0.7’
** package ‘fansi’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C compiler: ‘clang version 22.1.2 (https://github.com/llvm/llvm-project 1ab49a973e210e97d61e5db6557180dcb92c3e98)’
make[1]: Entering directory '/tmp/RtmpokSdMQ/working_dir/Rtmp6zk55e/R.INSTALL16b5b4514c09ef/fansi/src'
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c assumptions.c -o assumptions.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c carry.c -o carry.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c has.c -o has.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c init.c -o init.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c nchar.c -o nchar.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c normalize.c -o normalize.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c read.c -o read.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c state.c -o state.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c strip.c -o strip.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c substr.c -o substr.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c tabs.c -o tabs.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c tohtml.c -o tohtml.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c trimws.c -o trimws.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c unhandled.c -o unhandled.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c utf8.c -o utf8.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c utils.c -o utils.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c width.c -o width.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c wrap.c -o wrap.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c write.c -o write.o
clang-22 -std=gnu23 -shared -L/usr/local/clang/lib64 -L/usr/local/clang22/lib -L/usr/local/clang22/lib/x86_64-unknown-linux-gnu -L/usr/local/lib64 -o fansi.so assumptions.o carry.o has.o init.o nchar.o normalize.o read.o state.o strip.o substr.o tabs.o tohtml.o trimws.o unhandled.o utf8.o utils.o width.o wrap.o write.o
make[1]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/Rtmp6zk55e/R.INSTALL16b5b4514c09ef/fansi/src'
make[1]: Entering directory '/tmp/RtmpokSdMQ/working_dir/Rtmp6zk55e/R.INSTALL16b5b4514c09ef/fansi/src'
make[1]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/Rtmp6zk55e/R.INSTALL16b5b4514c09ef/fansi/src'
installing to /tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/00LOCK-fansi/00new/fansi/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 (fansi)
* installing *source* package ‘xfun’ ...
** this is package ‘xfun’ version ‘0.57’
** package ‘xfun’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C compiler: ‘clang version 22.1.2 (https://github.com/llvm/llvm-project 1ab49a973e210e97d61e5db6557180dcb92c3e98)’
make[1]: Entering directory '/tmp/RtmpokSdMQ/working_dir/Rtmpin96BW/R.INSTALL16be31263c7fc5/xfun/src'
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c base64.c -o base64.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c init.c -o init.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c rand_lcg.c -o rand_lcg.o
clang-22 -std=gnu23 -shared -L/usr/local/clang/lib64 -L/usr/local/clang22/lib -L/usr/local/clang22/lib/x86_64-unknown-linux-gnu -L/usr/local/lib64 -o xfun.so base64.o init.o rand_lcg.o
make[1]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/Rtmpin96BW/R.INSTALL16be31263c7fc5/xfun/src'
make[1]: Entering directory '/tmp/RtmpokSdMQ/working_dir/Rtmpin96BW/R.INSTALL16be31263c7fc5/xfun/src'
make[1]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/Rtmpin96BW/R.INSTALL16be31263c7fc5/xfun/src'
installing to /tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/00LOCK-xfun/00new/xfun/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 (xfun)
* installing *source* package ‘sys’ ...
** this is package ‘sys’ version ‘3.4.3’
** package ‘sys’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C compiler: ‘clang version 22.1.2 (https://github.com/llvm/llvm-project 1ab49a973e210e97d61e5db6557180dcb92c3e98)’
make[1]: Entering directory '/tmp/RtmpokSdMQ/working_dir/RtmpW0y0Zd/R.INSTALL16d56c75c484df/sys/src'
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c exec.c -o exec.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c init.c -o init.o
clang-22 -std=gnu23 -shared -L/usr/local/clang/lib64 -L/usr/local/clang22/lib -L/usr/local/clang22/lib/x86_64-unknown-linux-gnu -L/usr/local/lib64 -o sys.so exec.o init.o
make[1]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/RtmpW0y0Zd/R.INSTALL16d56c75c484df/sys/src'
make[1]: Entering directory '/tmp/RtmpokSdMQ/working_dir/RtmpW0y0Zd/R.INSTALL16d56c75c484df/sys/src'
make[1]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/RtmpW0y0Zd/R.INSTALL16d56c75c484df/sys/src'
installing to /tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/00LOCK-sys/00new/sys/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 (sys)
* installing *source* package ‘gitcreds’ ...
** this is package ‘gitcreds’ version ‘0.1.2’
** package ‘gitcreds’ 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 (gitcreds)
* installing *source* package ‘ini’ ...
** this is package ‘ini’ version ‘0.3.1’
** package ‘ini’ 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 (ini)
* installing *source* package ‘xml2’ ...
** this is package ‘xml2’ version ‘1.5.2’
** package ‘xml2’ successfully unpacked and MD5 sums checked
** using staged installation
Found pkg-config cflags and libs!
Using PKG_CFLAGS=-I/usr/include/libxml2
Using PKG_LIBS=-lxml2 -lz -llzma -lm
** libs
using C compiler: ‘clang version 22.1.2 (https://github.com/llvm/llvm-project 1ab49a973e210e97d61e5db6557180dcb92c3e98)’
using C++ compiler: ‘clang version 22.1.2 (https://github.com/llvm/llvm-project 1ab49a973e210e97d61e5db6557180dcb92c3e98)’
make[1]: Entering directory '/tmp/RtmpokSdMQ/working_dir/RtmpjAnXZ7/R.INSTALL16ec365cf613f9/xml2/src'
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../inst/include -I/usr/include/libxml2 -DUCHAR_TYPE=wchar_t -DU_SHOW_CPLUSPLUS_API=0 -DSTRICT_R_HEADERS -DR_NO_REMAP -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c connection.cpp -o connection.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../inst/include -I/usr/include/libxml2 -DUCHAR_TYPE=wchar_t -DU_SHOW_CPLUSPLUS_API=0 -DSTRICT_R_HEADERS -DR_NO_REMAP -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c init.c -o init.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../inst/include -I/usr/include/libxml2 -DUCHAR_TYPE=wchar_t -DU_SHOW_CPLUSPLUS_API=0 -DSTRICT_R_HEADERS -DR_NO_REMAP -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c xml2_doc.cpp -o xml2_doc.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../inst/include -I/usr/include/libxml2 -DUCHAR_TYPE=wchar_t -DU_SHOW_CPLUSPLUS_API=0 -DSTRICT_R_HEADERS -DR_NO_REMAP -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c xml2_init.c -o xml2_init.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../inst/include -I/usr/include/libxml2 -DUCHAR_TYPE=wchar_t -DU_SHOW_CPLUSPLUS_API=0 -DSTRICT_R_HEADERS -DR_NO_REMAP -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c xml2_namespace.cpp -o xml2_namespace.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../inst/include -I/usr/include/libxml2 -DUCHAR_TYPE=wchar_t -DU_SHOW_CPLUSPLUS_API=0 -DSTRICT_R_HEADERS -DR_NO_REMAP -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c xml2_node.cpp -o xml2_node.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../inst/include -I/usr/include/libxml2 -DUCHAR_TYPE=wchar_t -DU_SHOW_CPLUSPLUS_API=0 -DSTRICT_R_HEADERS -DR_NO_REMAP -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c xml2_output.cpp -o xml2_output.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../inst/include -I/usr/include/libxml2 -DUCHAR_TYPE=wchar_t -DU_SHOW_CPLUSPLUS_API=0 -DSTRICT_R_HEADERS -DR_NO_REMAP -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c xml2_schema.cpp -o xml2_schema.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../inst/include -I/usr/include/libxml2 -DUCHAR_TYPE=wchar_t -DU_SHOW_CPLUSPLUS_API=0 -DSTRICT_R_HEADERS -DR_NO_REMAP -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c xml2_url.cpp -o xml2_url.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../inst/include -I/usr/include/libxml2 -DUCHAR_TYPE=wchar_t -DU_SHOW_CPLUSPLUS_API=0 -DSTRICT_R_HEADERS -DR_NO_REMAP -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c xml2_xpath.cpp -o xml2_xpath.o
clang++-22 -stdlib=libc++ -std=gnu++20 -shared -L/usr/local/clang/lib64 -L/usr/local/clang22/lib -L/usr/local/clang22/lib/x86_64-unknown-linux-gnu -L/usr/local/lib64 -o xml2.so connection.o init.o xml2_doc.o xml2_init.o xml2_namespace.o xml2_node.o xml2_output.o xml2_schema.o xml2_url.o xml2_xpath.o -lxml2 -lz -llzma -lm
make[1]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/RtmpjAnXZ7/R.INSTALL16ec365cf613f9/xml2/src'
make[1]: Entering directory '/tmp/RtmpokSdMQ/working_dir/RtmpjAnXZ7/R.INSTALL16ec365cf613f9/xml2/src'
make[1]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/RtmpjAnXZ7/R.INSTALL16ec365cf613f9/xml2/src'
installing to /tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/00LOCK-xml2/00new/xml2/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 (xml2)
* installing *source* package ‘digest’ ...
** this is package ‘digest’ version ‘0.6.39’
** package ‘digest’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C compiler: ‘clang version 22.1.2 (https://github.com/llvm/llvm-project 1ab49a973e210e97d61e5db6557180dcb92c3e98)’
using C++ compiler: ‘clang version 22.1.2 (https://github.com/llvm/llvm-project 1ab49a973e210e97d61e5db6557180dcb92c3e98)’
make[1]: Entering directory '/tmp/RtmpokSdMQ/working_dir/RtmpFCOf6v/R.INSTALL170695671bf412/digest/src'
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I. -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c SpookyV2.cpp -o SpookyV2.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I. -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c aes.c -o aes.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I. -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c blake3.c -o blake3.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I. -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c blake3_dispatch.c -o blake3_dispatch.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I. -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c blake3_portable.c -o blake3_portable.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I. -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c crc32.c -o crc32.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I. -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c crc32c.cpp -o crc32c.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I. -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c crc32c_portable.cpp -o crc32c_portable.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I. -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c digest.c -o digest.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I. -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c digest2int.c -o digest2int.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I. -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c init.c -o init.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I. -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c md5.c -o md5.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I. -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c pmurhash.c -o pmurhash.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I. -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c raes.c -o raes.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I. -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c sha1.c -o sha1.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I. -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c sha2.c -o sha2.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I. -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c sha256.c -o sha256.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I. -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c spooky_serialize.cpp -o spooky_serialize.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I. -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c xxhash.c -o xxhash.o
clang++-22 -stdlib=libc++ -std=gnu++20 -shared -L/usr/local/clang/lib64 -L/usr/local/clang22/lib -L/usr/local/clang22/lib/x86_64-unknown-linux-gnu -L/usr/local/lib64 -o digest.so SpookyV2.o aes.o blake3.o blake3_dispatch.o blake3_portable.o crc32.o crc32c.o crc32c_portable.o digest.o digest2int.o init.o md5.o pmurhash.o raes.o sha1.o sha2.o sha256.o spooky_serialize.o xxhash.o
make[1]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/RtmpFCOf6v/R.INSTALL170695671bf412/digest/src'
make[1]: Entering directory '/tmp/RtmpokSdMQ/working_dir/RtmpFCOf6v/R.INSTALL170695671bf412/digest/src'
make[1]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/RtmpFCOf6v/R.INSTALL170695671bf412/digest/src'
installing to /tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/00LOCK-digest/00new/digest/libs
** R
** demo
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** checking absolute paths in shared objects and dynamic libraries
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (digest)
* installing *source* package ‘prettyunits’ ...
** this is package ‘prettyunits’ version ‘1.2.0’
** package ‘prettyunits’ 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 (prettyunits)
* installing *source* package ‘brew’ ...
** this is package ‘brew’ version ‘1.0-10’
** package ‘brew’ 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 (brew)
* installing *source* package ‘commonmark’ ...
** this is package ‘commonmark’ version ‘2.0.0’
** package ‘commonmark’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C compiler: ‘clang version 22.1.2 (https://github.com/llvm/llvm-project 1ab49a973e210e97d61e5db6557180dcb92c3e98)’
make[1]: Entering directory '/tmp/RtmpokSdMQ/working_dir/RtmpsFHWT0/R.INSTALL1717633f8c76bf/commonmark/src'
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -Icmark -I. -DCMARK_GFM_STATIC_DEFINE -DCMARK_GFM_EXTENSIONS_STATIC_DEFINE -DR_NO_REMAP -DSTRICT_R_HEADERS -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c extensions.c -o extensions.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -Icmark -I. -DCMARK_GFM_STATIC_DEFINE -DCMARK_GFM_EXTENSIONS_STATIC_DEFINE -DR_NO_REMAP -DSTRICT_R_HEADERS -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c init.c -o init.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -Icmark -I. -DCMARK_GFM_STATIC_DEFINE -DCMARK_GFM_EXTENSIONS_STATIC_DEFINE -DR_NO_REMAP -DSTRICT_R_HEADERS -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c wrapper.c -o wrapper.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -Icmark -I. -DCMARK_GFM_STATIC_DEFINE -DCMARK_GFM_EXTENSIONS_STATIC_DEFINE -DR_NO_REMAP -DSTRICT_R_HEADERS -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c cmark/cmark.c -o cmark/cmark.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -Icmark -I. -DCMARK_GFM_STATIC_DEFINE -DCMARK_GFM_EXTENSIONS_STATIC_DEFINE -DR_NO_REMAP -DSTRICT_R_HEADERS -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c cmark/node.c -o cmark/node.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -Icmark -I. -DCMARK_GFM_STATIC_DEFINE -DCMARK_GFM_EXTENSIONS_STATIC_DEFINE -DR_NO_REMAP -DSTRICT_R_HEADERS -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c cmark/iterator.c -o cmark/iterator.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -Icmark -I. -DCMARK_GFM_STATIC_DEFINE -DCMARK_GFM_EXTENSIONS_STATIC_DEFINE -DR_NO_REMAP -DSTRICT_R_HEADERS -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c cmark/blocks.c -o cmark/blocks.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -Icmark -I. -DCMARK_GFM_STATIC_DEFINE -DCMARK_GFM_EXTENSIONS_STATIC_DEFINE -DR_NO_REMAP -DSTRICT_R_HEADERS -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c cmark/inlines.c -o cmark/inlines.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -Icmark -I. -DCMARK_GFM_STATIC_DEFINE -DCMARK_GFM_EXTENSIONS_STATIC_DEFINE -DR_NO_REMAP -DSTRICT_R_HEADERS -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c cmark/scanners.c -o cmark/scanners.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -Icmark -I. -DCMARK_GFM_STATIC_DEFINE -DCMARK_GFM_EXTENSIONS_STATIC_DEFINE -DR_NO_REMAP -DSTRICT_R_HEADERS -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c cmark/utf8.c -o cmark/utf8.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -Icmark -I. -DCMARK_GFM_STATIC_DEFINE -DCMARK_GFM_EXTENSIONS_STATIC_DEFINE -DR_NO_REMAP -DSTRICT_R_HEADERS -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c cmark/buffer.c -o cmark/buffer.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -Icmark -I. -DCMARK_GFM_STATIC_DEFINE -DCMARK_GFM_EXTENSIONS_STATIC_DEFINE -DR_NO_REMAP -DSTRICT_R_HEADERS -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c cmark/references.c -o cmark/references.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -Icmark -I. -DCMARK_GFM_STATIC_DEFINE -DCMARK_GFM_EXTENSIONS_STATIC_DEFINE -DR_NO_REMAP -DSTRICT_R_HEADERS -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c cmark/render.c -o cmark/render.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -Icmark -I. -DCMARK_GFM_STATIC_DEFINE -DCMARK_GFM_EXTENSIONS_STATIC_DEFINE -DR_NO_REMAP -DSTRICT_R_HEADERS -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c cmark/man.c -o cmark/man.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -Icmark -I. -DCMARK_GFM_STATIC_DEFINE -DCMARK_GFM_EXTENSIONS_STATIC_DEFINE -DR_NO_REMAP -DSTRICT_R_HEADERS -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c cmark/xml.c -o cmark/xml.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -Icmark -I. -DCMARK_GFM_STATIC_DEFINE -DCMARK_GFM_EXTENSIONS_STATIC_DEFINE -DR_NO_REMAP -DSTRICT_R_HEADERS -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c cmark/html.c -o cmark/html.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -Icmark -I. -DCMARK_GFM_STATIC_DEFINE -DCMARK_GFM_EXTENSIONS_STATIC_DEFINE -DR_NO_REMAP -DSTRICT_R_HEADERS -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c cmark/commonmark.c -o cmark/commonmark.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -Icmark -I. -DCMARK_GFM_STATIC_DEFINE -DCMARK_GFM_EXTENSIONS_STATIC_DEFINE -DR_NO_REMAP -DSTRICT_R_HEADERS -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c cmark/latex.c -o cmark/latex.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -Icmark -I. -DCMARK_GFM_STATIC_DEFINE -DCMARK_GFM_EXTENSIONS_STATIC_DEFINE -DR_NO_REMAP -DSTRICT_R_HEADERS -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c cmark/houdini_href_e.c -o cmark/houdini_href_e.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -Icmark -I. -DCMARK_GFM_STATIC_DEFINE -DCMARK_GFM_EXTENSIONS_STATIC_DEFINE -DR_NO_REMAP -DSTRICT_R_HEADERS -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c cmark/houdini_html_e.c -o cmark/houdini_html_e.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -Icmark -I. -DCMARK_GFM_STATIC_DEFINE -DCMARK_GFM_EXTENSIONS_STATIC_DEFINE -DR_NO_REMAP -DSTRICT_R_HEADERS -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c cmark/houdini_html_u.c -o cmark/houdini_html_u.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -Icmark -I. -DCMARK_GFM_STATIC_DEFINE -DCMARK_GFM_EXTENSIONS_STATIC_DEFINE -DR_NO_REMAP -DSTRICT_R_HEADERS -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c cmark/cmark_ctype.c -o cmark/cmark_ctype.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -Icmark -I. -DCMARK_GFM_STATIC_DEFINE -DCMARK_GFM_EXTENSIONS_STATIC_DEFINE -DR_NO_REMAP -DSTRICT_R_HEADERS -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c cmark/arena.c -o cmark/arena.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -Icmark -I. -DCMARK_GFM_STATIC_DEFINE -DCMARK_GFM_EXTENSIONS_STATIC_DEFINE -DR_NO_REMAP -DSTRICT_R_HEADERS -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c cmark/linked_list.c -o cmark/linked_list.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -Icmark -I. -DCMARK_GFM_STATIC_DEFINE -DCMARK_GFM_EXTENSIONS_STATIC_DEFINE -DR_NO_REMAP -DSTRICT_R_HEADERS -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c cmark/plugin.c -o cmark/plugin.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -Icmark -I. -DCMARK_GFM_STATIC_DEFINE -DCMARK_GFM_EXTENSIONS_STATIC_DEFINE -DR_NO_REMAP -DSTRICT_R_HEADERS -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c cmark/registry.c -o cmark/registry.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -Icmark -I. -DCMARK_GFM_STATIC_DEFINE -DCMARK_GFM_EXTENSIONS_STATIC_DEFINE -DR_NO_REMAP -DSTRICT_R_HEADERS -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c cmark/syntax_extension.c -o cmark/syntax_extension.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -Icmark -I. -DCMARK_GFM_STATIC_DEFINE -DCMARK_GFM_EXTENSIONS_STATIC_DEFINE -DR_NO_REMAP -DSTRICT_R_HEADERS -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c cmark/plaintext.c -o cmark/plaintext.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -Icmark -I. -DCMARK_GFM_STATIC_DEFINE -DCMARK_GFM_EXTENSIONS_STATIC_DEFINE -DR_NO_REMAP -DSTRICT_R_HEADERS -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c cmark/footnotes.c -o cmark/footnotes.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -Icmark -I. -DCMARK_GFM_STATIC_DEFINE -DCMARK_GFM_EXTENSIONS_STATIC_DEFINE -DR_NO_REMAP -DSTRICT_R_HEADERS -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c cmark/map.c -o cmark/map.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -Icmark -I. -DCMARK_GFM_STATIC_DEFINE -DCMARK_GFM_EXTENSIONS_STATIC_DEFINE -DR_NO_REMAP -DSTRICT_R_HEADERS -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c extensions/autolink.c -o extensions/autolink.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -Icmark -I. -DCMARK_GFM_STATIC_DEFINE -DCMARK_GFM_EXTENSIONS_STATIC_DEFINE -DR_NO_REMAP -DSTRICT_R_HEADERS -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c extensions/core-extensions.c -o extensions/core-extensions.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -Icmark -I. -DCMARK_GFM_STATIC_DEFINE -DCMARK_GFM_EXTENSIONS_STATIC_DEFINE -DR_NO_REMAP -DSTRICT_R_HEADERS -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c extensions/ext_scanners.c -o extensions/ext_scanners.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -Icmark -I. -DCMARK_GFM_STATIC_DEFINE -DCMARK_GFM_EXTENSIONS_STATIC_DEFINE -DR_NO_REMAP -DSTRICT_R_HEADERS -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c extensions/strikethrough.c -o extensions/strikethrough.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -Icmark -I. -DCMARK_GFM_STATIC_DEFINE -DCMARK_GFM_EXTENSIONS_STATIC_DEFINE -DR_NO_REMAP -DSTRICT_R_HEADERS -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c extensions/table.c -o extensions/table.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -Icmark -I. -DCMARK_GFM_STATIC_DEFINE -DCMARK_GFM_EXTENSIONS_STATIC_DEFINE -DR_NO_REMAP -DSTRICT_R_HEADERS -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c extensions/tagfilter.c -o extensions/tagfilter.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -Icmark -I. -DCMARK_GFM_STATIC_DEFINE -DCMARK_GFM_EXTENSIONS_STATIC_DEFINE -DR_NO_REMAP -DSTRICT_R_HEADERS -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c extensions/tasklist.c -o extensions/tasklist.o
clang-22 -std=gnu23 -shared -L/usr/local/clang/lib64 -L/usr/local/clang22/lib -L/usr/local/clang22/lib/x86_64-unknown-linux-gnu -L/usr/local/lib64 -o commonmark.so extensions.o init.o wrapper.o -Lcmark -lstatcmark
make[1]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/RtmpsFHWT0/R.INSTALL1717633f8c76bf/commonmark/src'
make[1]: Entering directory '/tmp/RtmpokSdMQ/working_dir/RtmpsFHWT0/R.INSTALL1717633f8c76bf/commonmark/src'
make[1]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/RtmpsFHWT0/R.INSTALL1717633f8c76bf/commonmark/src'
installing to /tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/00LOCK-commonmark/00new/commonmark/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 (commonmark)
* installing *source* package ‘brio’ ...
** this is package ‘brio’ version ‘1.1.5’
** package ‘brio’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C compiler: ‘clang version 22.1.2 (https://github.com/llvm/llvm-project 1ab49a973e210e97d61e5db6557180dcb92c3e98)’
make[1]: Entering directory '/tmp/RtmpokSdMQ/working_dir/RtmpRra8g8/R.INSTALL1726c21d447fa2/brio/src'
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c brio.c -o brio.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c file_line_endings.c -o file_line_endings.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c init.c -o init.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c read_file.c -o read_file.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c read_file_raw.c -o read_file_raw.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c read_lines.c -o read_lines.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c write_file.c -o write_file.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c write_file_raw.c -o write_file_raw.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c write_lines.c -o write_lines.o
clang-22 -std=gnu23 -shared -L/usr/local/clang/lib64 -L/usr/local/clang22/lib -L/usr/local/clang22/lib/x86_64-unknown-linux-gnu -L/usr/local/lib64 -o brio.so brio.o file_line_endings.o init.o read_file.o read_file_raw.o read_lines.o write_file.o write_file_raw.o write_lines.o
make[1]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/RtmpRra8g8/R.INSTALL1726c21d447fa2/brio/src'
make[1]: Entering directory '/tmp/RtmpokSdMQ/working_dir/RtmpRra8g8/R.INSTALL1726c21d447fa2/brio/src'
make[1]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/RtmpRra8g8/R.INSTALL1726c21d447fa2/brio/src'
installing to /tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/00LOCK-brio/00new/brio/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 (brio)
* installing *source* package ‘evaluate’ ...
** this is package ‘evaluate’ version ‘1.0.5’
** package ‘evaluate’ 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 (evaluate)
* installing *source* package ‘praise’ ...
** this is package ‘praise’ version ‘1.0.0’
** package ‘praise’ 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 (praise)
* installing *source* package ‘ps’ ...
** this is package ‘ps’ version ‘1.9.1’
** package ‘ps’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C compiler: ‘clang version 22.1.2 (https://github.com/llvm/llvm-project 1ab49a973e210e97d61e5db6557180dcb92c3e98)’
make[1]: Entering directory '/tmp/RtmpokSdMQ/working_dir/RtmpiXYNlT/R.INSTALL1732972d2b1005/ps/src'
clang-22 -std=gnu23 -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -L/usr/local/clang/lib64 -L/usr/local/clang22/lib -L/usr/local/clang22/lib/x86_64-unknown-linux-gnu -L/usr/local/lib64 -Wall px.c -o px
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c init.c -o init.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c api-common.c -o api-common.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c common.c -o common.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c extra.c -o extra.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c dummy.c -o dummy.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c error-codes.c -o error-codes.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c cleancall.c -o cleancall.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c posix.c -o posix.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c api-posix.c -o api-posix.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c linux.c -o linux.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c api-linux.c -o api-linux.o
clang-22 -std=gnu23 -shared -L/usr/local/clang/lib64 -L/usr/local/clang22/lib -L/usr/local/clang22/lib/x86_64-unknown-linux-gnu -L/usr/local/lib64 -o ps.so init.o api-common.o common.o extra.o dummy.o error-codes.o cleancall.o posix.o api-posix.o linux.o api-linux.o
make[1]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/RtmpiXYNlT/R.INSTALL1732972d2b1005/ps/src'
make[1]: Entering directory '/tmp/RtmpokSdMQ/working_dir/RtmpiXYNlT/R.INSTALL1732972d2b1005/ps/src'
make[1]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/RtmpiXYNlT/R.INSTALL1732972d2b1005/ps/src'
installing via 'install.libs.R' to /tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/00LOCK-ps/00new/ps
** 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 (ps)
* installing *source* package ‘clipr’ ...
** this is package ‘clipr’ version ‘0.8.0’
** package ‘clipr’ 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 (clipr)
* installing *source* package ‘crayon’ ...
** this is package ‘crayon’ version ‘1.5.3’
** package ‘crayon’ 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 (crayon)
* installing *source* package ‘curl’ ...
** this is package ‘curl’ version ‘7.0.0’
** package ‘curl’ successfully unpacked and MD5 sums checked
** using staged installation
Found pkg-config cflags and libs!
Using PKG_CFLAGS=-DWITH_GZFILEOP
Using PKG_LIBS=-lcurl
** libs
using C compiler: ‘clang version 22.1.2 (https://github.com/llvm/llvm-project 1ab49a973e210e97d61e5db6557180dcb92c3e98)’
make[1]: Entering directory '/tmp/RtmpokSdMQ/working_dir/RtmpTa3Byk/R.INSTALL1749b9354bbcdb/curl/src'
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DWITH_GZFILEOP -DSTRICT_R_HEADERS -DR_NO_REMAP -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c callbacks.c -o callbacks.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DWITH_GZFILEOP -DSTRICT_R_HEADERS -DR_NO_REMAP -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c curl.c -o curl.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DWITH_GZFILEOP -DSTRICT_R_HEADERS -DR_NO_REMAP -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c download.c -o download.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DWITH_GZFILEOP -DSTRICT_R_HEADERS -DR_NO_REMAP -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c dryrun.c -o dryrun.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DWITH_GZFILEOP -DSTRICT_R_HEADERS -DR_NO_REMAP -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c escape.c -o escape.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DWITH_GZFILEOP -DSTRICT_R_HEADERS -DR_NO_REMAP -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c fetch.c -o fetch.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DWITH_GZFILEOP -DSTRICT_R_HEADERS -DR_NO_REMAP -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c findport.c -o findport.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DWITH_GZFILEOP -DSTRICT_R_HEADERS -DR_NO_REMAP -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c form.c -o form.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DWITH_GZFILEOP -DSTRICT_R_HEADERS -DR_NO_REMAP -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c getdate.c -o getdate.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DWITH_GZFILEOP -DSTRICT_R_HEADERS -DR_NO_REMAP -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c handle.c -o handle.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DWITH_GZFILEOP -DSTRICT_R_HEADERS -DR_NO_REMAP -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c ieproxy.c -o ieproxy.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DWITH_GZFILEOP -DSTRICT_R_HEADERS -DR_NO_REMAP -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c init.c -o init.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DWITH_GZFILEOP -DSTRICT_R_HEADERS -DR_NO_REMAP -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c interrupt.c -o interrupt.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DWITH_GZFILEOP -DSTRICT_R_HEADERS -DR_NO_REMAP -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c multi.c -o multi.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DWITH_GZFILEOP -DSTRICT_R_HEADERS -DR_NO_REMAP -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c nslookup.c -o nslookup.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DWITH_GZFILEOP -DSTRICT_R_HEADERS -DR_NO_REMAP -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c options.c -o options.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DWITH_GZFILEOP -DSTRICT_R_HEADERS -DR_NO_REMAP -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c reflist.c -o reflist.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DWITH_GZFILEOP -DSTRICT_R_HEADERS -DR_NO_REMAP -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c split.c -o split.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DWITH_GZFILEOP -DSTRICT_R_HEADERS -DR_NO_REMAP -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c ssl.c -o ssl.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DWITH_GZFILEOP -DSTRICT_R_HEADERS -DR_NO_REMAP -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c typechecking.c -o typechecking.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DWITH_GZFILEOP -DSTRICT_R_HEADERS -DR_NO_REMAP -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c urlparser.c -o urlparser.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DWITH_GZFILEOP -DSTRICT_R_HEADERS -DR_NO_REMAP -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c utils.c -o utils.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DWITH_GZFILEOP -DSTRICT_R_HEADERS -DR_NO_REMAP -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c version.c -o version.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DWITH_GZFILEOP -DSTRICT_R_HEADERS -DR_NO_REMAP -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c winidn.c -o winidn.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DWITH_GZFILEOP -DSTRICT_R_HEADERS -DR_NO_REMAP -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c writer.c -o writer.o
clang-22 -std=gnu23 -shared -L/usr/local/clang/lib64 -L/usr/local/clang22/lib -L/usr/local/clang22/lib/x86_64-unknown-linux-gnu -L/usr/local/lib64 -o curl.so callbacks.o curl.o download.o dryrun.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 urlparser.o utils.o version.o winidn.o writer.o -lcurl
make[1]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/RtmpTa3Byk/R.INSTALL1749b9354bbcdb/curl/src'
make[1]: Entering directory '/tmp/RtmpokSdMQ/working_dir/RtmpTa3Byk/R.INSTALL1749b9354bbcdb/curl/src'
make[1]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/RtmpTa3Byk/R.INSTALL1749b9354bbcdb/curl/src'
installing to /tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/00LOCK-curl/00new/curl/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 (curl)
* installing *source* package ‘desc’ ...
** this is package ‘desc’ version ‘1.4.3’
** package ‘desc’ 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 (desc)
* installing *source* package ‘fs’ ...
** this is package ‘fs’ version ‘2.0.1’
** package ‘fs’ successfully unpacked and MD5 sums checked
** using staged installation
Found pkg-config cflags and libs!
Using PKG_CFLAGS=
Using PKG_LIBS=-luv -lpthread -ldl -lrt -lm
** libs
using C++ compiler: ‘clang version 22.1.2 (https://github.com/llvm/llvm-project 1ab49a973e210e97d61e5db6557180dcb92c3e98)’
make[1]: Entering directory '/tmp/RtmpokSdMQ/working_dir/RtmpppOhlN/R.INSTALL1759e97bcd488e/fs/src'
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I. -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c dir.cc -o dir.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I. -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c error.cc -o error.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I. -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c file.cc -o file.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I. -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c fs.cc -o fs.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I. -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c getmode.cc -o getmode.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I. -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c id.cc -o id.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I. -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c init.cc -o init.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I. -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c link.cc -o link.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I. -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c path.cc -o path.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I. -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c utils.cc -o utils.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I. -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c unix/getmode.cc -o unix/getmode.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I. -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c bsd/setmode.c -o bsd/setmode.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I. -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c bsd/strmode.c -o bsd/strmode.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I. -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c bsd/reallocarray.c -o bsd/reallocarray.o
clang++-22 -stdlib=libc++ -std=gnu++20 -shared -L/usr/local/clang/lib64 -L/usr/local/clang22/lib -L/usr/local/clang22/lib/x86_64-unknown-linux-gnu -L/usr/local/lib64 -o fs.so dir.o error.o file.o fs.o getmode.o id.o init.o link.o path.o utils.o unix/getmode.o bsd/setmode.o bsd/strmode.o bsd/reallocarray.o -luv -lpthread -ldl -lrt -lm
make[1]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/RtmpppOhlN/R.INSTALL1759e97bcd488e/fs/src'
make[1]: Entering directory '/tmp/RtmpokSdMQ/working_dir/RtmpppOhlN/R.INSTALL1759e97bcd488e/fs/src'
make[1]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/RtmpppOhlN/R.INSTALL1759e97bcd488e/fs/src'
installing to /tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/00LOCK-fs/00new/fs/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 (fs)
* installing *source* package ‘jsonlite’ ...
** this is package ‘jsonlite’ version ‘2.0.0’
** package ‘jsonlite’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C compiler: ‘clang version 22.1.2 (https://github.com/llvm/llvm-project 1ab49a973e210e97d61e5db6557180dcb92c3e98)’
make[1]: Entering directory '/tmp/RtmpokSdMQ/working_dir/RtmpFELSh7/R.INSTALL176f593da0ae5e/jsonlite/src'
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -Iyajl/api -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c base64.c -o base64.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -Iyajl/api -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c collapse_array.c -o collapse_array.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -Iyajl/api -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c collapse_object.c -o collapse_object.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -Iyajl/api -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c collapse_pretty.c -o collapse_pretty.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -Iyajl/api -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c escape_chars.c -o escape_chars.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -Iyajl/api -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c integer64_to_na.c -o integer64_to_na.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -Iyajl/api -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c is_datelist.c -o is_datelist.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -Iyajl/api -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c is_recordlist.c -o is_recordlist.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -Iyajl/api -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c is_scalarlist.c -o is_scalarlist.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -Iyajl/api -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c modp_numtoa.c -o modp_numtoa.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -Iyajl/api -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c null_to_na.c -o null_to_na.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -Iyajl/api -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c num_to_char.c -o num_to_char.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -Iyajl/api -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c parse.c -o parse.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -Iyajl/api -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c prettify.c -o prettify.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -Iyajl/api -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c push_parser.c -o push_parser.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -Iyajl/api -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c r-base64.c -o r-base64.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -Iyajl/api -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c register.c -o register.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -Iyajl/api -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c row_collapse.c -o row_collapse.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -Iyajl/api -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c transpose_list.c -o transpose_list.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -Iyajl/api -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c validate.c -o validate.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -Iyajl/api -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c yajl/yajl.c -o yajl/yajl.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -Iyajl/api -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c yajl/yajl_alloc.c -o yajl/yajl_alloc.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -Iyajl/api -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c yajl/yajl_buf.c -o yajl/yajl_buf.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -Iyajl/api -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c yajl/yajl_encode.c -o yajl/yajl_encode.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -Iyajl/api -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c yajl/yajl_gen.c -o yajl/yajl_gen.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -Iyajl/api -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c yajl/yajl_lex.c -o yajl/yajl_lex.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -Iyajl/api -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c yajl/yajl_parser.c -o yajl/yajl_parser.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -Iyajl/api -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -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
clang-22 -std=gnu23 -shared -L/usr/local/clang/lib64 -L/usr/local/clang22/lib -L/usr/local/clang22/lib/x86_64-unknown-linux-gnu -L/usr/local/lib64 -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
make[1]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/RtmpFELSh7/R.INSTALL176f593da0ae5e/jsonlite/src'
make[1]: Entering directory '/tmp/RtmpokSdMQ/working_dir/RtmpFELSh7/R.INSTALL176f593da0ae5e/jsonlite/src'
make[1]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/RtmpFELSh7/R.INSTALL176f593da0ae5e/jsonlite/src'
installing to /tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/00LOCK-jsonlite/00new/jsonlite/libs
** R
** inst
** byte-compile and prepare package for lazy loading
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”
** 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 (jsonlite)
* installing *source* package ‘rappdirs’ ...
** this is package ‘rappdirs’ version ‘0.3.4’
** package ‘rappdirs’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C compiler: ‘clang version 22.1.2 (https://github.com/llvm/llvm-project 1ab49a973e210e97d61e5db6557180dcb92c3e98)’
make[1]: Entering directory '/tmp/RtmpokSdMQ/working_dir/RtmppwCm4C/R.INSTALL1776572d5f06f2/rappdirs/src'
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c init.c -o init.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c win-path.c -o win-path.o
clang-22 -std=gnu23 -shared -L/usr/local/clang/lib64 -L/usr/local/clang22/lib -L/usr/local/clang22/lib/x86_64-unknown-linux-gnu -L/usr/local/lib64 -o rappdirs.so init.o win-path.o
make[1]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/RtmppwCm4C/R.INSTALL1776572d5f06f2/rappdirs/src'
make[1]: Entering directory '/tmp/RtmpokSdMQ/working_dir/RtmppwCm4C/R.INSTALL1776572d5f06f2/rappdirs/src'
make[1]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/RtmppwCm4C/R.INSTALL1776572d5f06f2/rappdirs/src'
installing to /tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/00LOCK-rappdirs/00new/rappdirs/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 (rappdirs)
* installing *source* package ‘rprojroot’ ...
** this is package ‘rprojroot’ version ‘2.1.1’
** package ‘rprojroot’ 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 (rprojroot)
* installing *source* package ‘rstudioapi’ ...
** this is package ‘rstudioapi’ version ‘0.18.0’
** package ‘rstudioapi’ 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 (rstudioapi)
* installing *source* package ‘whisker’ ...
** this is package ‘whisker’ version ‘0.4.1’
** package ‘whisker’ 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 (whisker)
* installing *source* package ‘yaml’ ...
** this is package ‘yaml’ version ‘2.3.12’
** package ‘yaml’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C compiler: ‘clang version 22.1.2 (https://github.com/llvm/llvm-project 1ab49a973e210e97d61e5db6557180dcb92c3e98)’
make[1]: Entering directory '/tmp/RtmpokSdMQ/working_dir/RtmpbA5vLh/R.INSTALL177e7d79d9af3a/yaml/src'
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I. -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c api.c -o api.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I. -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c dumper.c -o dumper.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I. -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c emitter.c -o emitter.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I. -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c implicit.c -o implicit.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I. -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c loader.c -o loader.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I. -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c parser.c -o parser.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I. -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c r_emit.c -o r_emit.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I. -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c r_ext.c -o r_ext.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I. -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c r_parse.c -o r_parse.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I. -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c reader.c -o reader.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I. -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c scanner.c -o scanner.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I. -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c writer.c -o writer.o
clang-22 -std=gnu23 -shared -L/usr/local/clang/lib64 -L/usr/local/clang22/lib -L/usr/local/clang22/lib/x86_64-unknown-linux-gnu -L/usr/local/lib64 -o yaml.so api.o dumper.o emitter.o implicit.o loader.o parser.o r_emit.o r_ext.o r_parse.o reader.o scanner.o writer.o
make[1]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/RtmpbA5vLh/R.INSTALL177e7d79d9af3a/yaml/src'
make[1]: Entering directory '/tmp/RtmpokSdMQ/working_dir/RtmpbA5vLh/R.INSTALL177e7d79d9af3a/yaml/src'
make[1]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/RtmpbA5vLh/R.INSTALL177e7d79d9af3a/yaml/src'
installing to /tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/00LOCK-yaml/00new/yaml/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 (yaml)
* installing *source* package ‘ellipsis’ ...
** this is package ‘ellipsis’ version ‘0.3.2’
** package ‘ellipsis’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C compiler: ‘clang version 22.1.2 (https://github.com/llvm/llvm-project 1ab49a973e210e97d61e5db6557180dcb92c3e98)’
make[1]: Entering directory '/tmp/RtmpokSdMQ/working_dir/RtmpIJGjwt/R.INSTALL17831b6645aff9/ellipsis/src'
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c dots.c -o dots.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c init.c -o init.o
clang-22 -std=gnu23 -shared -L/usr/local/clang/lib64 -L/usr/local/clang22/lib -L/usr/local/clang22/lib/x86_64-unknown-linux-gnu -L/usr/local/lib64 -o ellipsis.so dots.o init.o
make[1]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/RtmpIJGjwt/R.INSTALL17831b6645aff9/ellipsis/src'
make[1]: Entering directory '/tmp/RtmpokSdMQ/working_dir/RtmpIJGjwt/R.INSTALL17831b6645aff9/ellipsis/src'
make[1]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/RtmpIJGjwt/R.INSTALL17831b6645aff9/ellipsis/src'
installing to /tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/00LOCK-ellipsis/00new/ellipsis/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 (ellipsis)
* installing *source* package ‘pak’ ...
** this is package ‘pak’ version ‘0.9.2’
** package ‘pak’ successfully unpacked and MD5 sums checked
** using staged installation
** Running ./configure
** libs
make[1]: Entering directory '/tmp/RtmpokSdMQ/working_dir/Rtmp2a3zS2/R.INSTALL178603375c510b/pak/src'
Current platform: x86_64-pc-linux-gnu
Build platform:
Target platform:
Compiling R6
Compiling cli
using C compiler: ‘clang version 22.1.2 (https://github.com/llvm/llvm-project 1ab49a973e210e97d61e5db6557180dcb92c3e98)’
make[2]: Entering directory '/tmp/RtmpokSdMQ/working_dir/Rtmp2a3zS2/R.INSTALL178603375c510b/pak/src/library/cli/src'
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../inst/include -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c ansi.c -o ansi.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../inst/include -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c cleancall.c -o cleancall.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../inst/include -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c diff.c -o diff.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../inst/include -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c errors.c -o errors.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../inst/include -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c glue.c -o glue.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../inst/include -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c init.c -o init.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../inst/include -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c inst.c -o inst.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../inst/include -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c keypress-unix.c -o keypress-unix.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../inst/include -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c keypress-win.c -o keypress-win.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../inst/include -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c keypress.c -o keypress.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../inst/include -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c md5.c -o md5.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../inst/include -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c progress-altrep.c -o progress-altrep.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../inst/include -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c progress.c -o progress.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../inst/include -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c sha1.c -o sha1.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../inst/include -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c sha256.c -o sha256.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../inst/include -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c thread.c -o thread.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../inst/include -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c tty.c -o tty.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../inst/include -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c utf8.c -o utf8.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../inst/include -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c utils.c -o utils.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../inst/include -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c vt.c -o vt.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../inst/include -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c vtparse.c -o vtparse.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../inst/include -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c vtparse_table.c -o vtparse_table.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../inst/include -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c win-utf8.c -o win-utf8.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../inst/include -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c winfiles.c -o winfiles.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../inst/include -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c xxhash.c -o xxhash.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../inst/include -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c xxhash2.c -o xxhash2.o
clang-22 -std=gnu23 -shared -L/usr/local/clang/lib64 -L/usr/local/clang22/lib -L/usr/local/clang22/lib/x86_64-unknown-linux-gnu -L/usr/local/lib64 -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 xxhash.o xxhash2.o -lpthread
make[2]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/Rtmp2a3zS2/R.INSTALL178603375c510b/pak/src/library/cli/src'
make[2]: Entering directory '/tmp/RtmpokSdMQ/working_dir/Rtmp2a3zS2/R.INSTALL178603375c510b/pak/src/library/cli/src'
make[2]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/Rtmp2a3zS2/R.INSTALL178603375c510b/pak/src/library/cli/src'
installing to /tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/00LOCK-pak/00new/pak/library/cli/libs
Compiling curl
Found pkg-config cflags and libs!
Using PKG_CFLAGS=-DWITH_GZFILEOP
Using PKG_LIBS=-lcurl
using C compiler: ‘clang version 22.1.2 (https://github.com/llvm/llvm-project 1ab49a973e210e97d61e5db6557180dcb92c3e98)’
make[2]: Entering directory '/tmp/RtmpokSdMQ/working_dir/Rtmp2a3zS2/R.INSTALL178603375c510b/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
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DWITH_GZFILEOP -DSTRICT_R_HEADERS -DR_NO_REMAP -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c callbacks.c -o callbacks.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DWITH_GZFILEOP -DSTRICT_R_HEADERS -DR_NO_REMAP -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c curl.c -o curl.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DWITH_GZFILEOP -DSTRICT_R_HEADERS -DR_NO_REMAP -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c download.c -o download.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DWITH_GZFILEOP -DSTRICT_R_HEADERS -DR_NO_REMAP -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c escape.c -o escape.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DWITH_GZFILEOP -DSTRICT_R_HEADERS -DR_NO_REMAP -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c fetch.c -o fetch.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DWITH_GZFILEOP -DSTRICT_R_HEADERS -DR_NO_REMAP -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c findport.c -o findport.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DWITH_GZFILEOP -DSTRICT_R_HEADERS -DR_NO_REMAP -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c form.c -o form.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DWITH_GZFILEOP -DSTRICT_R_HEADERS -DR_NO_REMAP -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c getdate.c -o getdate.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DWITH_GZFILEOP -DSTRICT_R_HEADERS -DR_NO_REMAP -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c handle.c -o handle.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DWITH_GZFILEOP -DSTRICT_R_HEADERS -DR_NO_REMAP -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c ieproxy.c -o ieproxy.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DWITH_GZFILEOP -DSTRICT_R_HEADERS -DR_NO_REMAP -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c init.c -o init.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DWITH_GZFILEOP -DSTRICT_R_HEADERS -DR_NO_REMAP -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c interrupt.c -o interrupt.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DWITH_GZFILEOP -DSTRICT_R_HEADERS -DR_NO_REMAP -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c multi.c -o multi.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DWITH_GZFILEOP -DSTRICT_R_HEADERS -DR_NO_REMAP -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c nslookup.c -o nslookup.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DWITH_GZFILEOP -DSTRICT_R_HEADERS -DR_NO_REMAP -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c options.c -o options.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DWITH_GZFILEOP -DSTRICT_R_HEADERS -DR_NO_REMAP -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c reflist.c -o reflist.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DWITH_GZFILEOP -DSTRICT_R_HEADERS -DR_NO_REMAP -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c split.c -o split.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DWITH_GZFILEOP -DSTRICT_R_HEADERS -DR_NO_REMAP -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c ssl.c -o ssl.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DWITH_GZFILEOP -DSTRICT_R_HEADERS -DR_NO_REMAP -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c typechecking.c -o typechecking.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DWITH_GZFILEOP -DSTRICT_R_HEADERS -DR_NO_REMAP -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c utils.c -o utils.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DWITH_GZFILEOP -DSTRICT_R_HEADERS -DR_NO_REMAP -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c version.c -o version.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DWITH_GZFILEOP -DSTRICT_R_HEADERS -DR_NO_REMAP -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c winidn.c -o winidn.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DWITH_GZFILEOP -DSTRICT_R_HEADERS -DR_NO_REMAP -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c writer.c -o writer.o
clang-22 -std=gnu23 -shared -L/usr/local/clang/lib64 -L/usr/local/clang22/lib -L/usr/local/clang22/lib/x86_64-unknown-linux-gnu -L/usr/local/lib64 -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
make[2]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/Rtmp2a3zS2/R.INSTALL178603375c510b/pak/src/library/curl/src'
make[2]: Entering directory '/tmp/RtmpokSdMQ/working_dir/Rtmp2a3zS2/R.INSTALL178603375c510b/pak/src/library/curl/src'
make[2]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/Rtmp2a3zS2/R.INSTALL178603375c510b/pak/src/library/curl/src'
installing to /tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/00LOCK-pak/00new/pak/library/curl/libs
Compiling filelock
using C compiler: ‘clang version 22.1.2 (https://github.com/llvm/llvm-project 1ab49a973e210e97d61e5db6557180dcb92c3e98)’
make[2]: Entering directory '/tmp/RtmpokSdMQ/working_dir/Rtmp2a3zS2/R.INSTALL178603375c510b/pak/src/library/filelock/src'
rm -f filelock.so init.o filelock-unix.o locklist.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c init.c -o init.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c filelock-unix.c -o filelock-unix.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c locklist.c -o locklist.o
clang-22 -std=gnu23 -shared -L/usr/local/clang/lib64 -L/usr/local/clang22/lib -L/usr/local/clang22/lib/x86_64-unknown-linux-gnu -L/usr/local/lib64 -o filelock.so init.o filelock-unix.o locklist.o
make[2]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/Rtmp2a3zS2/R.INSTALL178603375c510b/pak/src/library/filelock/src'
make[2]: Entering directory '/tmp/RtmpokSdMQ/working_dir/Rtmp2a3zS2/R.INSTALL178603375c510b/pak/src/library/filelock/src'
make[2]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/Rtmp2a3zS2/R.INSTALL178603375c510b/pak/src/library/filelock/src'
installing to /tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/00LOCK-pak/00new/pak/library/filelock/libs
Compiling jsonlite
using C compiler: ‘clang version 22.1.2 (https://github.com/llvm/llvm-project 1ab49a973e210e97d61e5db6557180dcb92c3e98)’
make[2]: Entering directory '/tmp/RtmpokSdMQ/working_dir/Rtmp2a3zS2/R.INSTALL178603375c510b/pak/src/library/jsonlite/src'
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -Iyajl/api -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c base64.c -o base64.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -Iyajl/api -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c collapse_array.c -o collapse_array.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -Iyajl/api -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c collapse_object.c -o collapse_object.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -Iyajl/api -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c collapse_pretty.c -o collapse_pretty.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -Iyajl/api -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c escape_chars.c -o escape_chars.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -Iyajl/api -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c integer64_to_na.c -o integer64_to_na.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -Iyajl/api -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c is_datelist.c -o is_datelist.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -Iyajl/api -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c is_recordlist.c -o is_recordlist.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -Iyajl/api -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c is_scalarlist.c -o is_scalarlist.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -Iyajl/api -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c modp_numtoa.c -o modp_numtoa.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -Iyajl/api -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c null_to_na.c -o null_to_na.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -Iyajl/api -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c num_to_char.c -o num_to_char.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -Iyajl/api -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c parse.c -o parse.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -Iyajl/api -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c prettify.c -o prettify.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -Iyajl/api -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c push_parser.c -o push_parser.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -Iyajl/api -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c r-base64.c -o r-base64.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -Iyajl/api -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c register.c -o register.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -Iyajl/api -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c row_collapse.c -o row_collapse.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -Iyajl/api -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c transpose_list.c -o transpose_list.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -Iyajl/api -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c validate.c -o validate.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -Iyajl/api -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c yajl/yajl.c -o yajl/yajl.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -Iyajl/api -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c yajl/yajl_alloc.c -o yajl/yajl_alloc.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -Iyajl/api -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c yajl/yajl_buf.c -o yajl/yajl_buf.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -Iyajl/api -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c yajl/yajl_encode.c -o yajl/yajl_encode.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -Iyajl/api -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c yajl/yajl_gen.c -o yajl/yajl_gen.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -Iyajl/api -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c yajl/yajl_lex.c -o yajl/yajl_lex.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -Iyajl/api -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c yajl/yajl_parser.c -o yajl/yajl_parser.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -Iyajl/api -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -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
clang-22 -std=gnu23 -shared -L/usr/local/clang/lib64 -L/usr/local/clang22/lib -L/usr/local/clang22/lib/x86_64-unknown-linux-gnu -L/usr/local/lib64 -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
make[2]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/Rtmp2a3zS2/R.INSTALL178603375c510b/pak/src/library/jsonlite/src'
make[2]: Entering directory '/tmp/RtmpokSdMQ/working_dir/Rtmp2a3zS2/R.INSTALL178603375c510b/pak/src/library/jsonlite/src'
make[2]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/Rtmp2a3zS2/R.INSTALL178603375c510b/pak/src/library/jsonlite/src'
installing to /tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/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: ‘clang version 22.1.2 (https://github.com/llvm/llvm-project 1ab49a973e210e97d61e5db6557180dcb92c3e98)’
make[2]: Entering directory '/tmp/RtmpokSdMQ/working_dir/Rtmp2a3zS2/R.INSTALL178603375c510b/pak/src/library/lpSolve/src'
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I . -DINTEGERTIME -DPARSER_LP -DBUILDING_FOR_R -DYY_NEVER_INTERACTIVE -DUSRDLL -DCLOCKTIME -DRoleIsExternalInvEngine -DINVERSE_ACTIVE=INVERSE_LUSOL -DINLINE=static -DParanoia -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c colamd.c -o colamd.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I . -DINTEGERTIME -DPARSER_LP -DBUILDING_FOR_R -DYY_NEVER_INTERACTIVE -DUSRDLL -DCLOCKTIME -DRoleIsExternalInvEngine -DINVERSE_ACTIVE=INVERSE_LUSOL -DINLINE=static -DParanoia -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c commonlib.c -o commonlib.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I . -DINTEGERTIME -DPARSER_LP -DBUILDING_FOR_R -DYY_NEVER_INTERACTIVE -DUSRDLL -DCLOCKTIME -DRoleIsExternalInvEngine -DINVERSE_ACTIVE=INVERSE_LUSOL -DINLINE=static -DParanoia -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c hbio.c -o hbio.o
hbio.c:781:10: warning: variable 'out_file' is used uninitialized whenever 'if' condition is false [-Wsometimes-uninitialized]
781 | if ( filename != NULL ) {
| ^~~~~~~~~~~~~~~~
hbio.c:832:13: note: uninitialized use occurs here
832 | fprintf(out_file,"%-72s%-8s\n%14d%14d%14d%14d%14d\n",Title, Key, totcrd,
| ^~~~~~~~
hbio.c:781:5: note: remove the 'if' if its condition is always true
781 | if ( filename != NULL ) {
| ^~~~~~~~~~~~~~~~~~~~~~~
hbio.c:762:19: note: initialize the variable 'out_file' to silence this warning
762 | FILE *out_file;
| ^
| = NULL
hbio.c:1376:10: warning: variable 'out_file' is used uninitialized whenever 'if' condition is false [-Wsometimes-uninitialized]
1376 | if ( filename != NULL ) {
| ^~~~~~~~~~~~~~~~
hbio.c:1422:13: note: uninitialized use occurs here
1422 | fprintf(out_file,"%-72s%-8s\n%14d%14d%14d%14d%14d\n",Title, Key, totcrd,
| ^~~~~~~~
hbio.c:1376:5: note: remove the 'if' if its condition is always true
1376 | if ( filename != NULL ) {
| ^~~~~~~~~~~~~~~~~~~~~~~
hbio.c:1357:19: note: initialize the variable 'out_file' to silence this warning
1357 | FILE *out_file;
| ^
| = NULL
hbio.c:1391:10: warning: variable 'Valperline' is used uninitialized whenever 'if' condition is false [-Wsometimes-uninitialized]
1391 | if ( Type[0] != 'P' ) { /* Skip if pattern only */
| ^~~~~~~~~~~~~~
hbio.c:1403:26: note: uninitialized use occurs here
1403 | valcrd = nvalentries/Valperline;
| ^~~~~~~~~~
hbio.c:1391:5: note: remove the 'if' if its condition is always true
1391 | if ( Type[0] != 'P' ) { /* Skip if pattern only */
| ^~~~~~~~~~~~~~~~~~~~~
hbio.c:1364:19: note: initialize the variable 'Valperline' to silence this warning
1364 | int Valperline, Valwidth, Valprec;
| ^
| = 0
3 warnings generated.
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I . -DINTEGERTIME -DPARSER_LP -DBUILDING_FOR_R -DYY_NEVER_INTERACTIVE -DUSRDLL -DCLOCKTIME -DRoleIsExternalInvEngine -DINVERSE_ACTIVE=INVERSE_LUSOL -DINLINE=static -DParanoia -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c ini.c -o ini.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I . -DINTEGERTIME -DPARSER_LP -DBUILDING_FOR_R -DYY_NEVER_INTERACTIVE -DUSRDLL -DCLOCKTIME -DRoleIsExternalInvEngine -DINVERSE_ACTIVE=INVERSE_LUSOL -DINLINE=static -DParanoia -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c init.c -o init.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I . -DINTEGERTIME -DPARSER_LP -DBUILDING_FOR_R -DYY_NEVER_INTERACTIVE -DUSRDLL -DCLOCKTIME -DRoleIsExternalInvEngine -DINVERSE_ACTIVE=INVERSE_LUSOL -DINLINE=static -DParanoia -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c isfixedvar.c -o isfixedvar.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I . -DINTEGERTIME -DPARSER_LP -DBUILDING_FOR_R -DYY_NEVER_INTERACTIVE -DUSRDLL -DCLOCKTIME -DRoleIsExternalInvEngine -DINVERSE_ACTIVE=INVERSE_LUSOL -DINLINE=static -DParanoia -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c lp_Hash.c -o lp_Hash.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I . -DINTEGERTIME -DPARSER_LP -DBUILDING_FOR_R -DYY_NEVER_INTERACTIVE -DUSRDLL -DCLOCKTIME -DRoleIsExternalInvEngine -DINVERSE_ACTIVE=INVERSE_LUSOL -DINLINE=static -DParanoia -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c lp_LUSOL.c -o lp_LUSOL.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I . -DINTEGERTIME -DPARSER_LP -DBUILDING_FOR_R -DYY_NEVER_INTERACTIVE -DUSRDLL -DCLOCKTIME -DRoleIsExternalInvEngine -DINVERSE_ACTIVE=INVERSE_LUSOL -DINLINE=static -DParanoia -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c lp_MDO.c -o lp_MDO.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I . -DINTEGERTIME -DPARSER_LP -DBUILDING_FOR_R -DYY_NEVER_INTERACTIVE -DUSRDLL -DCLOCKTIME -DRoleIsExternalInvEngine -DINVERSE_ACTIVE=INVERSE_LUSOL -DINLINE=static -DParanoia -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c lp_MPS.c -o lp_MPS.o
lp_MPS.c:1525:13: warning: variable 'in' is used uninitialized whenever 'if' condition is false [-Wsometimes-uninitialized]
1525 | else if(strncmp(varname, (!tryrowfirst ? ROWNAMEMASK : COLNAMEMASK), 1) == 0) {
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
lp_MPS.c:1532:11: note: uninitialized use occurs here
1532 | return( in );
| ^~
lp_MPS.c:1525:10: note: remove the 'if' if its condition is always true
1525 | else if(strncmp(varname, (!tryrowfirst ? ROWNAMEMASK : COLNAMEMASK), 1) == 0) {
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
lp_MPS.c:1502:9: note: initialize the variable 'in' to silence this warning
1502 | int in;
| ^
| = 0
1 warning generated.
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I . -DINTEGERTIME -DPARSER_LP -DBUILDING_FOR_R -DYY_NEVER_INTERACTIVE -DUSRDLL -DCLOCKTIME -DRoleIsExternalInvEngine -DINVERSE_ACTIVE=INVERSE_LUSOL -DINLINE=static -DParanoia -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c lp_SOS.c -o lp_SOS.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I . -DINTEGERTIME -DPARSER_LP -DBUILDING_FOR_R -DYY_NEVER_INTERACTIVE -DUSRDLL -DCLOCKTIME -DRoleIsExternalInvEngine -DINVERSE_ACTIVE=INVERSE_LUSOL -DINLINE=static -DParanoia -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c lp_crash.c -o lp_crash.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I . -DINTEGERTIME -DPARSER_LP -DBUILDING_FOR_R -DYY_NEVER_INTERACTIVE -DUSRDLL -DCLOCKTIME -DRoleIsExternalInvEngine -DINVERSE_ACTIVE=INVERSE_LUSOL -DINLINE=static -DParanoia -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c lp_lib.c -o lp_lib.o
lp_lib.c:1246:26: warning: equality comparison with extraneous parentheses [-Wparentheses-equality]
1246 | if((lp->objfromvalue == NULL) /* || (lp->objtillvalue == NULL) */) {
| ~~~~~~~~~~~~~~~~~^~~~~~~
lp_lib.c:1246:26: note: remove extraneous parentheses around the comparison to silence this warning
1246 | if((lp->objfromvalue == NULL) /* || (lp->objtillvalue == NULL) */) {
| ~ ^ ~
lp_lib.c:1246:26: note: use '=' to turn this equality comparison into an assignment
1246 | if((lp->objfromvalue == NULL) /* || (lp->objtillvalue == NULL) */) {
| ^~
| =
lp_lib.c:1252:28: warning: equality comparison with extraneous parentheses [-Wparentheses-equality]
1252 | if((lp->objfromvalue == NULL) /* || (lp->objtillvalue == NULL) */)
| ~~~~~~~~~~~~~~~~~^~~~~~~
lp_lib.c:1252:28: note: remove extraneous parentheses around the comparison to silence this warning
1252 | if((lp->objfromvalue == NULL) /* || (lp->objtillvalue == NULL) */)
| ~ ^ ~
lp_lib.c:1252:28: note: use '=' to turn this equality comparison into an assignment
1252 | if((lp->objfromvalue == NULL) /* || (lp->objtillvalue == NULL) */)
| ^~
| =
lp_lib.c:4258:30: warning: variable 'aREAL' set but not used [-Wunused-but-set-variable]
4258 | int aBIN = 0, aINT = 0, aREAL = 0,
| ^
lp_lib.c:8669:23: warning: variable 'dualOF' set but not used [-Wunused-but-set-variable]
8669 | REAL scale0, value, dualOF;
| ^
4 warnings generated.
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I . -DINTEGERTIME -DPARSER_LP -DBUILDING_FOR_R -DYY_NEVER_INTERACTIVE -DUSRDLL -DCLOCKTIME -DRoleIsExternalInvEngine -DINVERSE_ACTIVE=INVERSE_LUSOL -DINLINE=static -DParanoia -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c lp_matrix.c -o lp_matrix.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I . -DINTEGERTIME -DPARSER_LP -DBUILDING_FOR_R -DYY_NEVER_INTERACTIVE -DUSRDLL -DCLOCKTIME -DRoleIsExternalInvEngine -DINVERSE_ACTIVE=INVERSE_LUSOL -DINLINE=static -DParanoia -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c lp_mipbb.c -o lp_mipbb.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I . -DINTEGERTIME -DPARSER_LP -DBUILDING_FOR_R -DYY_NEVER_INTERACTIVE -DUSRDLL -DCLOCKTIME -DRoleIsExternalInvEngine -DINVERSE_ACTIVE=INVERSE_LUSOL -DINLINE=static -DParanoia -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c lp_params.c -o lp_params.o
lp_params.c:268:34: warning: suggest braces around initialization of subobject [-Wmissing-braces]
268 | { "ANTI_DEGEN", setintfunction(get_anti_degen, set_anti_degen), setvalues(anti_degen, ~0), WRITE_ACTIVE },
| ^~~~~~~~~~~~~~
| {
lp_params.c:28:52: note: expanded from macro 'setintfunction'
28 | #define setintfunction(get_function, set_function) get_function, set_function, intfunction
| ^~~~~~~~~~~~
lp_params.c:268:50: warning: suggest braces around initialization of subobject [-Wmissing-braces]
268 | { "ANTI_DEGEN", setintfunction(get_anti_degen, set_anti_degen), setvalues(anti_degen, ~0), WRITE_ACTIVE },
| ^~~~~~~~~~~~~~
| {
lp_params.c:28:66: note: expanded from macro 'setintfunction'
28 | #define setintfunction(get_function, set_function) get_function, set_function, intfunction
| ^~~~~~~~~~~~
lp_params.c:269:34: warning: suggest braces around initialization of subobject [-Wmissing-braces]
269 | { "BASISCRASH", setintfunction(get_basiscrash, set_basiscrash), setvalues(basiscrash, ~0), WRITE_ACTIVE },
| ^~~~~~~~~~~~~~
| {
lp_params.c:28:52: note: expanded from macro 'setintfunction'
28 | #define setintfunction(get_function, set_function) get_function, set_function, intfunction
| ^~~~~~~~~~~~
lp_params.c:269:50: warning: suggest braces around initialization of subobject [-Wmissing-braces]
269 | { "BASISCRASH", setintfunction(get_basiscrash, set_basiscrash), setvalues(basiscrash, ~0), WRITE_ACTIVE },
| ^~~~~~~~~~~~~~
| {
lp_params.c:28:66: note: expanded from macro 'setintfunction'
28 | #define setintfunction(get_function, set_function) get_function, set_function, intfunction
| ^~~~~~~~~~~~
lp_params.c:270:31: warning: suggest braces around initialization of subobject [-Wmissing-braces]
270 | { "IMPROVE", setintfunction(get_improve, set_improve), setvalues(improve, ~0), WRITE_ACTIVE },
| ^~~~~~~~~~~
| {
lp_params.c:28:52: note: expanded from macro 'setintfunction'
28 | #define setintfunction(get_function, set_function) get_function, set_function, intfunction
| ^~~~~~~~~~~~
lp_params.c:270:44: warning: suggest braces around initialization of subobject [-Wmissing-braces]
270 | { "IMPROVE", setintfunction(get_improve, set_improve), setvalues(improve, ~0), WRITE_ACTIVE },
| ^~~~~~~~~~~
| {
lp_params.c:28:66: note: expanded from macro 'setintfunction'
28 | #define setintfunction(get_function, set_function) get_function, set_function, intfunction
| ^~~~~~~~~~~~
lp_params.c:271:32: warning: suggest braces around initialization of subobject [-Wmissing-braces]
271 | { "MAXPIVOT", setintfunction(get_maxpivot, set_maxpivot), setNULLvalues, WRITE_ACTIVE },
| ^~~~~~~~~~~~
| {
lp_params.c:28:52: note: expanded from macro 'setintfunction'
28 | #define setintfunction(get_function, set_function) get_function, set_function, intfunction
| ^~~~~~~~~~~~
lp_params.c:271:46: warning: suggest braces around initialization of subobject [-Wmissing-braces]
271 | { "MAXPIVOT", setintfunction(get_maxpivot, set_maxpivot), setNULLvalues, WRITE_ACTIVE },
| ^~~~~~~~~~~~
| {
lp_params.c:28:66: note: expanded from macro 'setintfunction'
28 | #define setintfunction(get_function, set_function) get_function, set_function, intfunction
| ^~~~~~~~~~~~
lp_params.c:272:17: warning: suggest braces around initialization of subobject [-Wmissing-braces]
272 | { "NEGRANGE", setREALfunction(get_negrange, set_negrange), setNULLvalues, WRITE_ACTIVE },
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
| {
lp_params.c:31:53: note: expanded from macro 'setREALfunction'
31 | #define setREALfunction(get_function, set_function) (int_get_function *) get_function, (int_set_function *) set_function, REALfunction
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
lp_params.c:272:17: warning: suggest braces around initialization of subobject [-Wmissing-braces]
272 | { "NEGRANGE", setREALfunction(get_negrange, set_negrange), setNULLvalues, WRITE_ACTIVE },
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
lp_params.c:31:88: note: expanded from macro 'setREALfunction'
31 | #define setREALfunction(get_function, set_function) (int_get_function *) get_function, (int_set_function *) set_function, REALfunction
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
lp_params.c:273:32: warning: suggest braces around initialization of subobject [-Wmissing-braces]
273 | { "PIVOTING", setintfunction(get_pivoting, set_pivoting), setvalues(pivoting, PRICER_LASTOPTION), WRITE_ACTIVE },
| ^~~~~~~~~~~~
| {
lp_params.c:28:52: note: expanded from macro 'setintfunction'
28 | #define setintfunction(get_function, set_function) get_function, set_function, intfunction
| ^~~~~~~~~~~~
lp_params.c:273:46: warning: suggest braces around initialization of subobject [-Wmissing-braces]
273 | { "PIVOTING", setintfunction(get_pivoting, set_pivoting), setvalues(pivoting, PRICER_LASTOPTION), WRITE_ACTIVE },
| ^~~~~~~~~~~~
| {
lp_params.c:28:66: note: expanded from macro 'setintfunction'
28 | #define setintfunction(get_function, set_function) get_function, set_function, intfunction
| ^~~~~~~~~~~~
lp_params.c:274:32: warning: suggest braces around initialization of subobject [-Wmissing-braces]
274 | { "PRESOLVE", setintfunction(get_presolve, set_presolve1), setvalues(presolving, ~0), WRITE_ACTIVE },
| ^~~~~~~~~~~~
| {
lp_params.c:28:52: note: expanded from macro 'setintfunction'
28 | #define setintfunction(get_function, set_function) get_function, set_function, intfunction
| ^~~~~~~~~~~~
lp_params.c:274:46: warning: suggest braces around initialization of subobject [-Wmissing-braces]
274 | { "PRESOLVE", setintfunction(get_presolve, set_presolve1), setvalues(presolving, ~0), WRITE_ACTIVE },
| ^~~~~~~~~~~~~
| {
lp_params.c:28:66: note: expanded from macro 'setintfunction'
28 | #define setintfunction(get_function, set_function) get_function, set_function, intfunction
| ^~~~~~~~~~~~
lp_params.c:275:37: warning: suggest braces around initialization of subobject [-Wmissing-braces]
275 | { "PRESOLVELOOPS", setintfunction(get_presolveloops, set_presolve2), setNULLvalues, WRITE_ACTIVE },
| ^~~~~~~~~~~~~~~~~
| {
lp_params.c:28:52: note: expanded from macro 'setintfunction'
28 | #define setintfunction(get_function, set_function) get_function, set_function, intfunction
| ^~~~~~~~~~~~
lp_params.c:275:56: warning: suggest braces around initialization of subobject [-Wmissing-braces]
275 | { "PRESOLVELOOPS", setintfunction(get_presolveloops, set_presolve2), setNULLvalues, WRITE_ACTIVE },
| ^~~~~~~~~~~~~
| {
lp_params.c:28:66: note: expanded from macro 'setintfunction'
28 | #define setintfunction(get_function, set_function) get_function, set_function, intfunction
| ^~~~~~~~~~~~
lp_params.c:276:19: warning: suggest braces around initialization of subobject [-Wmissing-braces]
276 | { "SCALELIMIT", setREALfunction(get_scalelimit, set_scalelimit), setNULLvalues, WRITE_ACTIVE },
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
| {
lp_params.c:31:53: note: expanded from macro 'setREALfunction'
31 | #define setREALfunction(get_function, set_function) (int_get_function *) get_function, (int_set_function *) set_function, REALfunction
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
lp_params.c:276:19: warning: suggest braces around initialization of subobject [-Wmissing-braces]
276 | { "SCALELIMIT", setREALfunction(get_scalelimit, set_scalelimit), setNULLvalues, WRITE_ACTIVE },
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
lp_params.c:31:88: note: expanded from macro 'setREALfunction'
31 | #define setREALfunction(get_function, set_function) (int_get_function *) get_function, (int_set_function *) set_function, REALfunction
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
lp_params.c:277:31: warning: suggest braces around initialization of subobject [-Wmissing-braces]
277 | { "SCALING", setintfunction(get_scaling, set_scaling), setvalues(scaling, SCALE_CURTISREID), WRITE_ACTIVE },
| ^~~~~~~~~~~
| {
lp_params.c:28:52: note: expanded from macro 'setintfunction'
28 | #define setintfunction(get_function, set_function) get_function, set_function, intfunction
| ^~~~~~~~~~~~
lp_params.c:277:44: warning: suggest braces around initialization of subobject [-Wmissing-braces]
277 | { "SCALING", setintfunction(get_scaling, set_scaling), setvalues(scaling, SCALE_CURTISREID), WRITE_ACTIVE },
| ^~~~~~~~~~~
| {
lp_params.c:28:66: note: expanded from macro 'setintfunction'
28 | #define setintfunction(get_function, set_function) get_function, set_function, intfunction
| ^~~~~~~~~~~~
lp_params.c:278:35: warning: suggest braces around initialization of subobject [-Wmissing-braces]
278 | { "SIMPLEXTYPE", setintfunction(get_simplextype, set_simplextype), setvalues(simplextype, ~0), WRITE_ACTIVE },
| ^~~~~~~~~~~~~~~
| {
lp_params.c:28:52: note: expanded from macro 'setintfunction'
28 | #define setintfunction(get_function, set_function) get_function, set_function, intfunction
| ^~~~~~~~~~~~
lp_params.c:278:52: warning: suggest braces around initialization of subobject [-Wmissing-braces]
278 | { "SIMPLEXTYPE", setintfunction(get_simplextype, set_simplextype), setvalues(simplextype, ~0), WRITE_ACTIVE },
| ^~~~~~~~~~~~~~~
| {
lp_params.c:28:66: note: expanded from macro 'setintfunction'
28 | #define setintfunction(get_function, set_function) get_function, set_function, intfunction
| ^~~~~~~~~~~~
lp_params.c:279:21: warning: suggest braces around initialization of subobject [-Wmissing-braces]
279 | { "OBJ_IN_BASIS", setMYBOOLfunction(is_obj_in_basis, set_obj_in_basis), setNULLvalues, WRITE_COMMENTED },
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
| {
lp_params.c:30:55: note: expanded from macro 'setMYBOOLfunction'
30 | #define setMYBOOLfunction(get_function, set_function) (int_get_function *) get_function, (int_set_function *) set_function, MYBOOLfunction
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
lp_params.c:279:21: warning: suggest braces around initialization of subobject [-Wmissing-braces]
279 | { "OBJ_IN_BASIS", setMYBOOLfunction(is_obj_in_basis, set_obj_in_basis), setNULLvalues, WRITE_COMMENTED },
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
lp_params.c:30:90: note: expanded from macro 'setMYBOOLfunction'
30 | #define setMYBOOLfunction(get_function, set_function) (int_get_function *) get_function, (int_set_function *) set_function, MYBOOLfunction
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
lp_params.c:282:37: warning: suggest braces around initialization of subobject [-Wmissing-braces]
282 | { "BB_DEPTHLIMIT", setintfunction(get_bb_depthlimit, set_bb_depthlimit), setNULLvalues, WRITE_ACTIVE },
| ^~~~~~~~~~~~~~~~~
| {
lp_params.c:28:52: note: expanded from macro 'setintfunction'
28 | #define setintfunction(get_function, set_function) get_function, set_function, intfunction
| ^~~~~~~~~~~~
lp_params.c:282:56: warning: suggest braces around initialization of subobject [-Wmissing-braces]
282 | { "BB_DEPTHLIMIT", setintfunction(get_bb_depthlimit, set_bb_depthlimit), setNULLvalues, WRITE_ACTIVE },
| ^~~~~~~~~~~~~~~~~
| {
lp_params.c:28:66: note: expanded from macro 'setintfunction'
28 | #define setintfunction(get_function, set_function) get_function, set_function, intfunction
| ^~~~~~~~~~~~
lp_params.c:283:37: warning: suggest braces around initialization of subobject [-Wmissing-braces]
283 | { "BB_FLOORFIRST", setintfunction(get_bb_floorfirst, set_bb_floorfirst), setvalues(bb_floorfirst, ~0), WRITE_ACTIVE },
| ^~~~~~~~~~~~~~~~~
| {
lp_params.c:28:52: note: expanded from macro 'setintfunction'
28 | #define setintfunction(get_function, set_function) get_function, set_function, intfunction
| ^~~~~~~~~~~~
lp_params.c:283:56: warning: suggest braces around initialization of subobject [-Wmissing-braces]
283 | { "BB_FLOORFIRST", setintfunction(get_bb_floorfirst, set_bb_floorfirst), setvalues(bb_floorfirst, ~0), WRITE_ACTIVE },
| ^~~~~~~~~~~~~~~~~
| {
lp_params.c:28:66: note: expanded from macro 'setintfunction'
28 | #define setintfunction(get_function, set_function) get_function, set_function, intfunction
| ^~~~~~~~~~~~
lp_params.c:284:31: warning: suggest braces around initialization of subobject [-Wmissing-braces]
284 | { "BB_RULE", setintfunction(get_bb_rule, set_bb_rule), setvalues(bb_rule, NODE_STRATEGYMASK), WRITE_ACTIVE },
| ^~~~~~~~~~~
| {
lp_params.c:28:52: note: expanded from macro 'setintfunction'
28 | #define setintfunction(get_function, set_function) get_function, set_function, intfunction
| ^~~~~~~~~~~~
lp_params.c:284:44: warning: suggest braces around initialization of subobject [-Wmissing-braces]
284 | { "BB_RULE", setintfunction(get_bb_rule, set_bb_rule), setvalues(bb_rule, NODE_STRATEGYMASK), WRITE_ACTIVE },
| ^~~~~~~~~~~
| {
lp_params.c:28:66: note: expanded from macro 'setintfunction'
28 | #define setintfunction(get_function, set_function) get_function, set_function, intfunction
| ^~~~~~~~~~~~
lp_params.c:285:23: warning: suggest braces around initialization of subobject [-Wmissing-braces]
285 | { "BREAK_AT_FIRST", setMYBOOLfunction(is_break_at_first, set_break_at_first), setNULLvalues, WRITE_COMMENTED },
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
| {
lp_params.c:30:55: note: expanded from macro 'setMYBOOLfunction'
30 | #define setMYBOOLfunction(get_function, set_function) (int_get_function *) get_function, (int_set_function *) set_function, MYBOOLfunction
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
lp_params.c:285:23: warning: suggest braces around initialization of subobject [-Wmissing-braces]
285 | { "BREAK_AT_FIRST", setMYBOOLfunction(is_break_at_first, set_break_at_first), setNULLvalues, WRITE_COMMENTED },
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
lp_params.c:30:90: note: expanded from macro 'setMYBOOLfunction'
30 | #define setMYBOOLfunction(get_function, set_function) (int_get_function *) get_function, (int_set_function *) set_function, MYBOOLfunction
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
lp_params.c:286:23: warning: suggest braces around initialization of subobject [-Wmissing-braces]
286 | { "BREAK_AT_VALUE", setREALfunction(get_break_at_value, set_break_at_value), setNULLvalues, WRITE_COMMENTED },
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
| {
lp_params.c:31:53: note: expanded from macro 'setREALfunction'
31 | #define setREALfunction(get_function, set_function) (int_get_function *) get_function, (int_set_function *) set_function, REALfunction
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
lp_params.c:286:23: warning: suggest braces around initialization of subobject [-Wmissing-braces]
286 | { "BREAK_AT_VALUE", setREALfunction(get_break_at_value, set_break_at_value), setNULLvalues, WRITE_COMMENTED },
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
lp_params.c:31:88: note: expanded from macro 'setREALfunction'
31 | #define setREALfunction(get_function, set_function) (int_get_function *) get_function, (int_set_function *) set_function, REALfunction
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
lp_params.c:287:20: warning: suggest braces around initialization of subobject [-Wmissing-braces]
287 | { "MIP_GAP_ABS", setREALfunction(get_mip_gap_abs, set_mip_gap_abs), setNULLvalues, WRITE_ACTIVE },
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
| {
lp_params.c:31:53: note: expanded from macro 'setREALfunction'
31 | #define setREALfunction(get_function, set_function) (int_get_function *) get_function, (int_set_function *) set_function, REALfunction
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
lp_params.c:287:20: warning: suggest braces around initialization of subobject [-Wmissing-braces]
287 | { "MIP_GAP_ABS", setREALfunction(get_mip_gap_abs, set_mip_gap_abs), setNULLvalues, WRITE_ACTIVE },
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
lp_params.c:31:88: note: expanded from macro 'setREALfunction'
31 | #define setREALfunction(get_function, set_function) (int_get_function *) get_function, (int_set_function *) set_function, REALfunction
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
lp_params.c:288:20: warning: suggest braces around initialization of subobject [-Wmissing-braces]
288 | { "MIP_GAP_REL", setREALfunction(get_mip_gap_rel, set_mip_gap_rel), setNULLvalues, WRITE_ACTIVE },
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
| {
lp_params.c:31:53: note: expanded from macro 'setREALfunction'
31 | #define setREALfunction(get_function, set_function) (int_get_function *) get_function, (int_set_function *) set_function, REALfunction
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
lp_params.c:288:20: warning: suggest braces around initialization of subobject [-Wmissing-braces]
288 | { "MIP_GAP_REL", setREALfunction(get_mip_gap_rel, set_mip_gap_rel), setNULLvalues, WRITE_ACTIVE },
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
lp_params.c:31:88: note: expanded from macro 'setREALfunction'
31 | #define setREALfunction(get_function, set_function) (int_get_function *) get_function, (int_set_function *) set_function, REALfunction
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
lp_params.c:289:15: warning: suggest braces around initialization of subobject [-Wmissing-braces]
289 | { "EPSINT", setREALfunction(get_epsint, set_epsint), setNULLvalues, WRITE_ACTIVE },
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
| {
lp_params.c:31:53: note: expanded from macro 'setREALfunction'
31 | #define setREALfunction(get_function, set_function) (int_get_function *) get_function, (int_set_function *) set_function, REALfunction
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
lp_params.c:289:15: warning: suggest braces around initialization of subobject [-Wmissing-braces]
289 | { "EPSINT", setREALfunction(get_epsint, set_epsint), setNULLvalues, WRITE_ACTIVE },
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
lp_params.c:31:88: note: expanded from macro 'setREALfunction'
31 | #define setREALfunction(get_function, set_function) (int_get_function *) get_function, (int_set_function *) set_function, REALfunction
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
lp_params.c:292:13: warning: suggest braces around initialization of subobject [-Wmissing-braces]
292 | { "EPSB", setREALfunction(get_epsb, set_epsb), setNULLvalues, WRITE_ACTIVE },
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
| {
lp_params.c:31:53: note: expanded from macro 'setREALfunction'
31 | #define setREALfunction(get_function, set_function) (int_get_function *) get_function, (int_set_function *) set_function, REALfunction
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
lp_params.c:292:13: warning: suggest braces around initialization of subobject [-Wmissing-braces]
292 | { "EPSB", setREALfunction(get_epsb, set_epsb), setNULLvalues, WRITE_ACTIVE },
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
lp_params.c:31:88: note: expanded from macro 'setREALfunction'
31 | #define setREALfunction(get_function, set_function) (int_get_function *) get_function, (int_set_function *) set_function, REALfunction
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
lp_params.c:293:13: warning: suggest braces around initialization of subobject [-Wmissing-braces]
293 | { "EPSD", setREALfunction(get_epsd, set_epsd), setNULLvalues, WRITE_ACTIVE },
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
| {
lp_params.c:31:53: note: expanded from macro 'setREALfunction'
31 | #define setREALfunction(get_function, set_function) (int_get_function *) get_function, (int_set_function *) set_function, REALfunction
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
lp_params.c:293:13: warning: suggest braces around initialization of subobject [-Wmissing-braces]
293 | { "EPSD", setREALfunction(get_epsd, set_epsd), setNULLvalues, WRITE_ACTIVE },
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
lp_params.c:31:88: note: expanded from macro 'setREALfunction'
31 | #define setREALfunction(get_function, set_function) (int_get_function *) get_function, (int_set_function *) set_function, REALfunction
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
lp_params.c:294:14: warning: suggest braces around initialization of subobject [-Wmissing-braces]
294 | { "EPSEL", setREALfunction(get_epsel, set_epsel), setNULLvalues, WRITE_ACTIVE },
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
| {
lp_params.c:31:53: note: expanded from macro 'setREALfunction'
31 | #define setREALfunction(get_function, set_function) (int_get_function *) get_function, (int_set_function *) set_function, REALfunction
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
lp_params.c:294:14: warning: suggest braces around initialization of subobject [-Wmissing-braces]
294 | { "EPSEL", setREALfunction(get_epsel, set_epsel), setNULLvalues, WRITE_ACTIVE },
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
lp_params.c:31:88: note: expanded from macro 'setREALfunction'
31 | #define setREALfunction(get_function, set_function) (int_get_function *) get_function, (int_set_function *) set_function, REALfunction
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
lp_params.c:295:19: warning: suggest braces around initialization of subobject [-Wmissing-braces]
295 | { "EPSPERTURB", setREALfunction(get_epsperturb, set_epsperturb), setNULLvalues, WRITE_ACTIVE },
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
| {
lp_params.c:31:53: note: expanded from macro 'setREALfunction'
31 | #define setREALfunction(get_function, set_function) (int_get_function *) get_function, (int_set_function *) set_function, REALfunction
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
lp_params.c:295:19: warning: suggest braces around initialization of subobject [-Wmissing-braces]
295 | { "EPSPERTURB", setREALfunction(get_epsperturb, set_epsperturb), setNULLvalues, WRITE_ACTIVE },
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
lp_params.c:31:88: note: expanded from macro 'setREALfunction'
31 | #define setREALfunction(get_function, set_function) (int_get_function *) get_function, (int_set_function *) set_function, REALfunction
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
lp_params.c:296:17: warning: suggest braces around initialization of subobject [-Wmissing-braces]
296 | { "EPSPIVOT", setREALfunction(get_epspivot, set_epspivot), setNULLvalues, WRITE_ACTIVE },
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
| {
lp_params.c:31:53: note: expanded from macro 'setREALfunction'
31 | #define setREALfunction(get_function, set_function) (int_get_function *) get_function, (int_set_function *) set_function, REALfunction
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
lp_params.c:296:17: warning: suggest braces around initialization of subobject [-Wmissing-braces]
296 | { "EPSPIVOT", setREALfunction(get_epspivot, set_epspivot), setNULLvalues, WRITE_ACTIVE },
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
lp_params.c:31:88: note: expanded from macro 'setREALfunction'
31 | #define setREALfunction(get_function, set_function) (int_get_function *) get_function, (int_set_function *) set_function, REALfunction
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
lp_params.c:297:17: warning: suggest braces around initialization of subobject [-Wmissing-braces]
297 | { "INFINITE", setREALfunction(get_infinite, set_infinite), setNULLvalues, WRITE_ACTIVE },
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
| {
lp_params.c:31:53: note: expanded from macro 'setREALfunction'
31 | #define setREALfunction(get_function, set_function) (int_get_function *) get_function, (int_set_function *) set_function, REALfunction
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
lp_params.c:297:17: warning: suggest braces around initialization of subobject [-Wmissing-braces]
297 | { "INFINITE", setREALfunction(get_infinite, set_infinite), setNULLvalues, WRITE_ACTIVE },
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
lp_params.c:31:88: note: expanded from macro 'setREALfunction'
31 | #define setREALfunction(get_function, set_function) (int_get_function *) get_function, (int_set_function *) set_function, REALfunction
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
lp_params.c:300:14: warning: suggest braces around initialization of subobject [-Wmissing-braces]
300 | { "DEBUG", setMYBOOLfunction(is_debug, set_debug), setNULLvalues, WRITE_COMMENTED },
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
| {
lp_params.c:30:55: note: expanded from macro 'setMYBOOLfunction'
30 | #define setMYBOOLfunction(get_function, set_function) (int_get_function *) get_function, (int_set_function *) set_function, MYBOOLfunction
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
lp_params.c:300:14: warning: suggest braces around initialization of subobject [-Wmissing-braces]
300 | { "DEBUG", setMYBOOLfunction(is_debug, set_debug), setNULLvalues, WRITE_COMMENTED },
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
lp_params.c:30:90: note: expanded from macro 'setMYBOOLfunction'
30 | #define setMYBOOLfunction(get_function, set_function) (int_get_function *) get_function, (int_set_function *) set_function, MYBOOLfunction
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
lp_params.c:301:18: warning: suggest braces around initialization of subobject [-Wmissing-braces]
301 | { "OBJ_BOUND", setREALfunction(get_obj_bound, set_obj_bound), setNULLvalues, WRITE_COMMENTED },
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
| {
lp_params.c:31:53: note: expanded from macro 'setREALfunction'
31 | #define setREALfunction(get_function, set_function) (int_get_function *) get_function, (int_set_function *) set_function, REALfunction
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
lp_params.c:301:18: warning: suggest braces around initialization of subobject [-Wmissing-braces]
301 | { "OBJ_BOUND", setREALfunction(get_obj_bound, set_obj_bound), setNULLvalues, WRITE_COMMENTED },
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
lp_params.c:31:88: note: expanded from macro 'setREALfunction'
31 | #define setREALfunction(get_function, set_function) (int_get_function *) get_function, (int_set_function *) set_function, REALfunction
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
lp_params.c:302:33: warning: suggest braces around initialization of subobject [-Wmissing-braces]
302 | { "PRINT_SOL", setintfunction(get_print_sol, set_print_sol), setvalues(print_sol, ~0), WRITE_COMMENTED },
| ^~~~~~~~~~~~~
| {
lp_params.c:28:52: note: expanded from macro 'setintfunction'
28 | #define setintfunction(get_function, set_function) get_function, set_function, intfunction
| ^~~~~~~~~~~~
lp_params.c:302:48: warning: suggest braces around initialization of subobject [-Wmissing-braces]
302 | { "PRINT_SOL", setintfunction(get_print_sol, set_print_sol), setvalues(print_sol, ~0), WRITE_COMMENTED },
| ^~~~~~~~~~~~~
| {
lp_params.c:28:66: note: expanded from macro 'setintfunction'
28 | #define setintfunction(get_function, set_function) get_function, set_function, intfunction
| ^~~~~~~~~~~~
lp_params.c:303:16: warning: suggest braces around initialization of subobject [-Wmissing-braces]
303 | { "TIMEOUT", setlongfunction(get_timeout, set_timeout), setNULLvalues, WRITE_COMMENTED },
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
| {
lp_params.c:29:53: note: expanded from macro 'setlongfunction'
29 | #define setlongfunction(get_function, set_function) (int_get_function *) get_function, (int_set_function *) set_function, longfunction
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
lp_params.c:303:16: warning: suggest braces around initialization of subobject [-Wmissing-braces]
303 | { "TIMEOUT", setlongfunction(get_timeout, set_timeout), setNULLvalues, WRITE_COMMENTED },
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
lp_params.c:29:88: note: expanded from macro 'setlongfunction'
29 | #define setlongfunction(get_function, set_function) (int_get_function *) get_function, (int_set_function *) set_function, longfunction
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
lp_params.c:304:14: warning: suggest braces around initialization of subobject [-Wmissing-braces]
304 | { "TRACE", setMYBOOLfunction(is_trace, set_trace), setNULLvalues, WRITE_COMMENTED },
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
| {
lp_params.c:30:55: note: expanded from macro 'setMYBOOLfunction'
30 | #define setMYBOOLfunction(get_function, set_function) (int_get_function *) get_function, (int_set_function *) set_function, MYBOOLfunction
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
lp_params.c:304:14: warning: suggest braces around initialization of subobject [-Wmissing-braces]
304 | { "TRACE", setMYBOOLfunction(is_trace, set_trace), setNULLvalues, WRITE_COMMENTED },
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
lp_params.c:30:90: note: expanded from macro 'setMYBOOLfunction'
30 | #define setMYBOOLfunction(get_function, set_function) (int_get_function *) get_function, (int_set_function *) set_function, MYBOOLfunction
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
lp_params.c:305:31: warning: suggest braces around initialization of subobject [-Wmissing-braces]
305 | { "VERBOSE", setintfunction(get_verbose, set_verbose), setvalues(verbose, ~0), WRITE_COMMENTED }
| ^~~~~~~~~~~
| {
lp_params.c:28:52: note: expanded from macro 'setintfunction'
28 | #define setintfunction(get_function, set_function) get_function, set_function, intfunction
| ^~~~~~~~~~~~
lp_params.c:305:44: warning: suggest braces around initialization of subobject [-Wmissing-braces]
305 | { "VERBOSE", setintfunction(get_verbose, set_verbose), setvalues(verbose, ~0), WRITE_COMMENTED }
| ^~~~~~~~~~~
| {
lp_params.c:28:66: note: expanded from macro 'setintfunction'
28 | #define setintfunction(get_function, set_function) get_function, set_function, intfunction
| ^~~~~~~~~~~~
64 warnings generated.
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I . -DINTEGERTIME -DPARSER_LP -DBUILDING_FOR_R -DYY_NEVER_INTERACTIVE -DUSRDLL -DCLOCKTIME -DRoleIsExternalInvEngine -DINVERSE_ACTIVE=INVERSE_LUSOL -DINLINE=static -DParanoia -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c lp_presolve.c -o lp_presolve.o
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:809:41: warning: variable 'countC' set but not used [-Wunused-but-set-variable]
809 | int status = RUNNING, countR = 0, countC = 0,
| ^
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: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:4615:31: warning: variable 'unbounded' set but not used [-Wunused-but-set-variable]
4615 | MYBOOL candelete, isOFNZ, unbounded,
| ^
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:5062:15: warning: misleading indentation; statement is not part of the previous 'if' [-Wmisleading-indentation]
5062 | psdata->forceupdate = TRUE;
| ^
lp_presolve.c:5060:13: note: previous statement is here
5060 | if(!presolve_fixSOS1(psdata, j, Value1, &iConRemove, &iVarFixed))
| ^
7 warnings generated.
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I . -DINTEGERTIME -DPARSER_LP -DBUILDING_FOR_R -DYY_NEVER_INTERACTIVE -DUSRDLL -DCLOCKTIME -DRoleIsExternalInvEngine -DINVERSE_ACTIVE=INVERSE_LUSOL -DINLINE=static -DParanoia -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c lp_price.c -o lp_price.o
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:49:7: warning: variable 'candidatecolno' set but not used [-Wunused-but-set-variable]
49 | 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:162:10: warning: variable 'candidatecolno' set but not used [-Wunused-but-set-variable]
162 | candidatecolno, candidatevarno = candidate->varno;
| ^
lp_price.c:664:24: warning: variable 'nz' set but not used [-Wunused-but-set-variable]
664 | int i, j, ib, ie, nz, nc;
| ^
lp_price.c:1560:15: warning: variable 'blockdata' set but not used [-Wunused-but-set-variable]
1560 | partialrec *blockdata;
| ^
6 warnings generated.
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I . -DINTEGERTIME -DPARSER_LP -DBUILDING_FOR_R -DYY_NEVER_INTERACTIVE -DUSRDLL -DCLOCKTIME -DRoleIsExternalInvEngine -DINVERSE_ACTIVE=INVERSE_LUSOL -DINLINE=static -DParanoia -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c lp_pricePSE.c -o lp_pricePSE.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I . -DINTEGERTIME -DPARSER_LP -DBUILDING_FOR_R -DYY_NEVER_INTERACTIVE -DUSRDLL -DCLOCKTIME -DRoleIsExternalInvEngine -DINVERSE_ACTIVE=INVERSE_LUSOL -DINLINE=static -DParanoia -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c lp_report.c -o lp_report.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I . -DINTEGERTIME -DPARSER_LP -DBUILDING_FOR_R -DYY_NEVER_INTERACTIVE -DUSRDLL -DCLOCKTIME -DRoleIsExternalInvEngine -DINVERSE_ACTIVE=INVERSE_LUSOL -DINLINE=static -DParanoia -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c lp_rlp.c -o lp_rlp.o
In file included from lp_rlp.c:97:
./lp_rlp.h:1871:14: warning: unused function 'lp_yy_flex_realloc' [-Wunused-function]
1871 | static void *lp_yy_flex_realloc( void *ptr, lp_yy_size_t size )
| ^~~~~~~~~~~~~~~~~~
./lp_rlp.h:1797:13: warning: unused function 'lp_yy_fatal_error' [-Wunused-function]
1797 | static void lp_yy_fatal_error( lp_yyconst char msg[] )
| ^~~~~~~~~~~~~~~~~
./lp_rlp.h:1353:13: warning: unused function 'lp_yyunput' [-Wunused-function]
1353 | static void lp_yyunput( int c, register char *lp_yy_bp )
| ^~~~~~~~~~
./lp_rlp.h:1845:12: warning: unused function 'lp_yy_flex_strlen' [-Wunused-function]
1845 | static int lp_yy_flex_strlen( lp_yyconst char *s )
| ^~~~~~~~~~~~~~~~~
4 warnings generated.
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I . -DINTEGERTIME -DPARSER_LP -DBUILDING_FOR_R -DYY_NEVER_INTERACTIVE -DUSRDLL -DCLOCKTIME -DRoleIsExternalInvEngine -DINVERSE_ACTIVE=INVERSE_LUSOL -DINLINE=static -DParanoia -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c lp_scale.c -o lp_scale.o
lp_scale.c:366:19: warning: variable 'error' set but not used [-Wunused-but-set-variable]
366 | double check, error;
| ^
lp_scale.c:150:10: warning: variable 'qkm2' set but not used [-Wunused-but-set-variable]
150 | qkm2, qkqkm1, ekm2, ekekm1,
| ^
lp_scale.c:150:24: warning: variable 'ekm2' set but not used [-Wunused-but-set-variable]
150 | qkm2, qkqkm1, ekm2, ekekm1,
| ^
lp_scale.c:632:16: warning: variable 'colMax' set but not used [-Wunused-but-set-variable]
632 | int i,j, colMax, nz;
| ^
4 warnings generated.
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I . -DINTEGERTIME -DPARSER_LP -DBUILDING_FOR_R -DYY_NEVER_INTERACTIVE -DUSRDLL -DCLOCKTIME -DRoleIsExternalInvEngine -DINVERSE_ACTIVE=INVERSE_LUSOL -DINLINE=static -DParanoia -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c lp_simplex.c -o lp_simplex.o
lp_simplex.c:983:10: warning: variable 'epsvalue' set but not used [-Wunused-but-set-variable]
983 | REAL epsvalue, xviolated, cviolated,
| ^
1 warning generated.
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I . -DINTEGERTIME -DPARSER_LP -DBUILDING_FOR_R -DYY_NEVER_INTERACTIVE -DUSRDLL -DCLOCKTIME -DRoleIsExternalInvEngine -DINVERSE_ACTIVE=INVERSE_LUSOL -DINLINE=static -DParanoia -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c lp_utils.c -o lp_utils.o
lp_utils.c:548:7: warning: misleading indentation; statement is not part of the previous 'if' [-Wmisleading-indentation]
548 | while((beginPos < endPos) && (match != target)) {
| ^
lp_utils.c:546:5: note: previous statement is here
546 | if(absolute)
| ^
lp_utils.c:949:5: warning: misleading indentation; statement is not part of the previous 'if' [-Wmisleading-indentation]
949 | if(test == 0)
| ^
lp_utils.c:947:3: note: previous statement is here
947 | if(test == 0)
| ^
2 warnings generated.
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I . -DINTEGERTIME -DPARSER_LP -DBUILDING_FOR_R -DYY_NEVER_INTERACTIVE -DUSRDLL -DCLOCKTIME -DRoleIsExternalInvEngine -DINVERSE_ACTIVE=INVERSE_LUSOL -DINLINE=static -DParanoia -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c lp_wlp.c -o lp_wlp.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I . -DINTEGERTIME -DPARSER_LP -DBUILDING_FOR_R -DYY_NEVER_INTERACTIVE -DUSRDLL -DCLOCKTIME -DRoleIsExternalInvEngine -DINVERSE_ACTIVE=INVERSE_LUSOL -DINLINE=static -DParanoia -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c lpslink56.c -o lpslink56.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I . -DINTEGERTIME -DPARSER_LP -DBUILDING_FOR_R -DYY_NEVER_INTERACTIVE -DUSRDLL -DCLOCKTIME -DRoleIsExternalInvEngine -DINVERSE_ACTIVE=INVERSE_LUSOL -DINLINE=static -DParanoia -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c lusol.c -o lusol.o
In file included from lusol.c:748:
./lusol1.h:3359:19: warning: variable 'TCP' 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:3359:34: warning: variable 'TSP' set but not used [-Wunused-but-set-variable]
3359 | MYBOOL KEEPLU, TCP, TPP, TRP, TSP;
| ^
3 warnings generated.
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I . -DINTEGERTIME -DPARSER_LP -DBUILDING_FOR_R -DYY_NEVER_INTERACTIVE -DUSRDLL -DCLOCKTIME -DRoleIsExternalInvEngine -DINVERSE_ACTIVE=INVERSE_LUSOL -DINLINE=static -DParanoia -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c lusolio.c -o lusolio.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I . -DINTEGERTIME -DPARSER_LP -DBUILDING_FOR_R -DYY_NEVER_INTERACTIVE -DUSRDLL -DCLOCKTIME -DRoleIsExternalInvEngine -DINVERSE_ACTIVE=INVERSE_LUSOL -DINLINE=static -DParanoia -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c mmio.c -o mmio.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I . -DINTEGERTIME -DPARSER_LP -DBUILDING_FOR_R -DYY_NEVER_INTERACTIVE -DUSRDLL -DCLOCKTIME -DRoleIsExternalInvEngine -DINVERSE_ACTIVE=INVERSE_LUSOL -DINLINE=static -DParanoia -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c myblas.c -o myblas.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I . -DINTEGERTIME -DPARSER_LP -DBUILDING_FOR_R -DYY_NEVER_INTERACTIVE -DUSRDLL -DCLOCKTIME -DRoleIsExternalInvEngine -DINVERSE_ACTIVE=INVERSE_LUSOL -DINLINE=static -DParanoia -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c sparselib.c -o sparselib.o
sparselib.c:823:10: warning: variable 'd' set but not used [-Wunused-but-set-variable]
823 | int i, d, n;
| ^
1 warning generated.
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I . -DINTEGERTIME -DPARSER_LP -DBUILDING_FOR_R -DYY_NEVER_INTERACTIVE -DUSRDLL -DCLOCKTIME -DRoleIsExternalInvEngine -DINVERSE_ACTIVE=INVERSE_LUSOL -DINLINE=static -DParanoia -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c yacc_read.c -o yacc_read.o
clang-22 -std=gnu23 -shared -L/usr/local/clang/lib64 -L/usr/local/clang22/lib -L/usr/local/clang22/lib/x86_64-unknown-linux-gnu -L/usr/local/lib64 -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
make[2]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/Rtmp2a3zS2/R.INSTALL178603375c510b/pak/src/library/lpSolve/src'
make[2]: Entering directory '/tmp/RtmpokSdMQ/working_dir/Rtmp2a3zS2/R.INSTALL178603375c510b/pak/src/library/lpSolve/src'
make[2]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/Rtmp2a3zS2/R.INSTALL178603375c510b/pak/src/library/lpSolve/src'
installing to /tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/00LOCK-pak/00new/pak/library/lpSolve/libs
Compiling ps
using C compiler: ‘clang version 22.1.2 (https://github.com/llvm/llvm-project 1ab49a973e210e97d61e5db6557180dcb92c3e98)’
make[2]: Entering directory '/tmp/RtmpokSdMQ/working_dir/Rtmp2a3zS2/R.INSTALL178603375c510b/pak/src/library/ps/src'
clang-22 -std=gnu23 -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -L/usr/local/clang/lib64 -L/usr/local/clang22/lib -L/usr/local/clang22/lib/x86_64-unknown-linux-gnu -L/usr/local/lib64 -Wall px.c -o px
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c init.c -o init.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c api-common.c -o api-common.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c common.c -o common.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c extra.c -o extra.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c dummy.c -o dummy.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c error-codes.c -o error-codes.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c cleancall.c -o cleancall.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c posix.c -o posix.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c api-posix.c -o api-posix.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c linux.c -o linux.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c api-linux.c -o api-linux.o
clang-22 -std=gnu23 -shared -L/usr/local/clang/lib64 -L/usr/local/clang22/lib -L/usr/local/clang22/lib/x86_64-unknown-linux-gnu -L/usr/local/lib64 -o ps.so init.o api-common.o common.o extra.o dummy.o error-codes.o cleancall.o posix.o api-posix.o linux.o api-linux.o
make[2]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/Rtmp2a3zS2/R.INSTALL178603375c510b/pak/src/library/ps/src'
make[2]: Entering directory '/tmp/RtmpokSdMQ/working_dir/Rtmp2a3zS2/R.INSTALL178603375c510b/pak/src/library/ps/src'
make[2]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/Rtmp2a3zS2/R.INSTALL178603375c510b/pak/src/library/ps/src'
installing via 'install.libs.R' to /tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/00LOCK-pak/00new/pak/library/ps
Compiling zip
using C compiler: ‘clang version 22.1.2 (https://github.com/llvm/llvm-project 1ab49a973e210e97d61e5db6557180dcb92c3e98)’
make[2]: Entering directory '/tmp/RtmpokSdMQ/working_dir/Rtmp2a3zS2/R.INSTALL178603375c510b/pak/src/library/zip/src'
clang-22 -std=gnu23 -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 miniz.c zip.c unixutils.c tools/cmdzip.c -o tools/cmdzip
clang-22 -std=gnu23 -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 miniz.c zip.c unixutils.c tools/cmdunzip.c -o tools/cmdunzip
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c init.c -o init.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c miniz.c -o miniz.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c rzip.c -o rzip.o
rzip.c:19:9: warning: 'S_IFLNK' macro redefined [-Wmacro-redefined]
19 | #define S_IFLNK 0120000 /* [XSI] symbolic link */
| ^
/usr/include/sys/stat.h:113:11: note: previous definition is here
113 | # define S_IFLNK __S_IFLNK
| ^
1 warning generated.
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c zip.c -o zip.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c unixutils.c -o unixutils.o
clang-22 -std=gnu23 -shared -L/usr/local/clang/lib64 -L/usr/local/clang22/lib -L/usr/local/clang22/lib/x86_64-unknown-linux-gnu -L/usr/local/lib64 -o zip.so init.o miniz.o rzip.o zip.o unixutils.o
make[2]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/Rtmp2a3zS2/R.INSTALL178603375c510b/pak/src/library/zip/src'
make[2]: Entering directory '/tmp/RtmpokSdMQ/working_dir/Rtmp2a3zS2/R.INSTALL178603375c510b/pak/src/library/zip/src'
make[2]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/Rtmp2a3zS2/R.INSTALL178603375c510b/pak/src/library/zip/src'
installing via 'install.libs.R' to /tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/00LOCK-pak/00new/pak/library/zip
Compiling processx
using C compiler: ‘clang version 22.1.2 (https://github.com/llvm/llvm-project 1ab49a973e210e97d61e5db6557180dcb92c3e98)’
make[2]: Entering directory '/tmp/RtmpokSdMQ/working_dir/Rtmp2a3zS2/R.INSTALL178603375c510b/pak/src/library/processx/src'
clang-22 -std=gnu23 -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -L/usr/local/clang/lib64 -L/usr/local/clang22/lib -L/usr/local/clang22/lib/x86_64-unknown-linux-gnu -L/usr/local/lib64 -Wall tools/px.c -o tools/px
clang-22 -std=gnu23 -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -L/usr/local/clang/lib64 -L/usr/local/clang22/lib -L/usr/local/clang22/lib/x86_64-unknown-linux-gnu -L/usr/local/lib64 -I../inst/include -Wall tools/sock.c -o tools/sock
clang-22 -std=gnu23 -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -L/usr/local/clang/lib64 -L/usr/local/clang22/lib -L/usr/local/clang22/lib/x86_64-unknown-linux-gnu -L/usr/local/lib64 supervisor/supervisor.c \
supervisor/utils.c -o supervisor/supervisor
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c base64.c -o base64.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c client.c -o client.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c errors.c -o errors.o
clang-22 -std=gnu23 -shared -L/usr/local/clang/lib64 -L/usr/local/clang22/lib -L/usr/local/clang22/lib/x86_64-unknown-linux-gnu -L/usr/local/lib64 -o client.so base64.o client.o errors.o \
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c init.c -o init.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c poll.c -o poll.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c processx-connection.c -o processx-connection.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c processx-vector.c -o processx-vector.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c create-time.c -o create-time.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c unix/childlist.c -o unix/childlist.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c unix/connection.c -o unix/connection.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c unix/processx.c -o unix/processx.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c unix/sigchld.c -o unix/sigchld.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c unix/utils.c -o unix/utils.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c unix/named_pipe.c -o unix/named_pipe.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c cleancall.c -o cleancall.o
clang-22 -std=gnu23 -shared -L/usr/local/clang/lib64 -L/usr/local/clang22/lib -L/usr/local/clang22/lib/x86_64-unknown-linux-gnu -L/usr/local/lib64 -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
make[2]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/Rtmp2a3zS2/R.INSTALL178603375c510b/pak/src/library/processx/src'
make[2]: Entering directory '/tmp/RtmpokSdMQ/working_dir/Rtmp2a3zS2/R.INSTALL178603375c510b/pak/src/library/processx/src'
make[2]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/Rtmp2a3zS2/R.INSTALL178603375c510b/pak/src/library/processx/src'
installing via 'install.libs.R' to /tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/00LOCK-pak/00new/pak/library/processx
Compiling callr
Compiling desc
Compiling pkgbuild
Compiling pkgcache
using C compiler: ‘clang version 22.1.2 (https://github.com/llvm/llvm-project 1ab49a973e210e97d61e5db6557180dcb92c3e98)’
make[2]: Entering directory '/tmp/RtmpokSdMQ/working_dir/Rtmp2a3zS2/R.INSTALL178603375c510b/pak/src/library/pkgcache/src'
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c errors.c -o errors.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c init.c -o init.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c lib.c -o lib.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c winfiles.c -o winfiles.o
clang-22 -std=gnu23 -shared -L/usr/local/clang/lib64 -L/usr/local/clang22/lib -L/usr/local/clang22/lib/x86_64-unknown-linux-gnu -L/usr/local/lib64 -o pkgcache.so errors.o init.o lib.o winfiles.o
make[2]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/Rtmp2a3zS2/R.INSTALL178603375c510b/pak/src/library/pkgcache/src'
make[2]: Entering directory '/tmp/RtmpokSdMQ/working_dir/Rtmp2a3zS2/R.INSTALL178603375c510b/pak/src/library/pkgcache/src'
make[2]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/Rtmp2a3zS2/R.INSTALL178603375c510b/pak/src/library/pkgcache/src'
installing to /tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/00LOCK-pak/00new/pak/library/pkgcache/libs
Compiling pkgsearch
Compiling yaml
using C compiler: ‘clang version 22.1.2 (https://github.com/llvm/llvm-project 1ab49a973e210e97d61e5db6557180dcb92c3e98)’
make[2]: Entering directory '/tmp/RtmpokSdMQ/working_dir/Rtmp2a3zS2/R.INSTALL178603375c510b/pak/src/library/yaml/src'
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I. -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c api.c -o api.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I. -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c dumper.c -o dumper.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I. -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c emitter.c -o emitter.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I. -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c implicit.c -o implicit.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I. -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c loader.c -o loader.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I. -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c parser.c -o parser.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I. -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c r_emit.c -o r_emit.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I. -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c r_ext.c -o r_ext.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I. -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c r_parse.c -o r_parse.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I. -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c reader.c -o reader.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I. -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c scanner.c -o scanner.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I. -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c writer.c -o writer.o
clang-22 -std=gnu23 -shared -L/usr/local/clang/lib64 -L/usr/local/clang22/lib -L/usr/local/clang22/lib/x86_64-unknown-linux-gnu -L/usr/local/lib64 -o yaml.so api.o dumper.o emitter.o implicit.o loader.o parser.o r_emit.o r_ext.o r_parse.o reader.o scanner.o writer.o
make[2]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/Rtmp2a3zS2/R.INSTALL178603375c510b/pak/src/library/yaml/src'
make[2]: Entering directory '/tmp/RtmpokSdMQ/working_dir/Rtmp2a3zS2/R.INSTALL178603375c510b/pak/src/library/yaml/src'
make[2]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/Rtmp2a3zS2/R.INSTALL178603375c510b/pak/src/library/yaml/src'
installing to /tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/00LOCK-pak/00new/pak/library/yaml/libs
Compiling pkgdepends
using C compiler: ‘clang version 22.1.2 (https://github.com/llvm/llvm-project 1ab49a973e210e97d61e5db6557180dcb92c3e98)’
make[2]: Entering directory '/tmp/RtmpokSdMQ/working_dir/Rtmp2a3zS2/R.INSTALL178603375c510b/pak/src/library/pkgdepends/src'
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I./tree-sitter/lib/include -I./tree-sitter/lib/src -I./yaml -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c tree-sitter/lib/src/lib.c -o tree-sitter/lib/src/lib.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I./tree-sitter/lib/include -I./tree-sitter/lib/src -I./yaml -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c tree-sitter/r/parser.c -o tree-sitter/r/parser.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I./tree-sitter/lib/include -I./tree-sitter/lib/src -I./yaml -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c tree-sitter/r/scanner.c -o tree-sitter/r/scanner.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I./tree-sitter/lib/include -I./tree-sitter/lib/src -I./yaml -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c tree-sitter/markdown/parser.c -o tree-sitter/markdown/parser.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I./tree-sitter/lib/include -I./tree-sitter/lib/src -I./yaml -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c tree-sitter/markdown/scanner.c -o tree-sitter/markdown/scanner.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I./tree-sitter/lib/include -I./tree-sitter/lib/src -I./yaml -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c tree-sitter/markdown-inline/parser.c -o tree-sitter/markdown-inline/parser.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I./tree-sitter/lib/include -I./tree-sitter/lib/src -I./yaml -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c tree-sitter/markdown-inline/scanner.c -o tree-sitter/markdown-inline/scanner.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I./tree-sitter/lib/include -I./tree-sitter/lib/src -I./yaml -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c tree-sitter/yaml/parser.c -o tree-sitter/yaml/parser.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I./tree-sitter/lib/include -I./tree-sitter/lib/src -I./yaml -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c tree-sitter/yaml/scanner.c -o tree-sitter/yaml/scanner.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I./tree-sitter/lib/include -I./tree-sitter/lib/src -I./yaml -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c yaml/api.c -o yaml/api.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I./tree-sitter/lib/include -I./tree-sitter/lib/src -I./yaml -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c yaml/dumper.c -o yaml/dumper.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I./tree-sitter/lib/include -I./tree-sitter/lib/src -I./yaml -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c yaml/emitter.c -o yaml/emitter.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I./tree-sitter/lib/include -I./tree-sitter/lib/src -I./yaml -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c yaml/loader.c -o yaml/loader.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I./tree-sitter/lib/include -I./tree-sitter/lib/src -I./yaml -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c yaml/parser.c -o yaml/parser.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I./tree-sitter/lib/include -I./tree-sitter/lib/src -I./yaml -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c yaml/reader.c -o yaml/reader.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I./tree-sitter/lib/include -I./tree-sitter/lib/src -I./yaml -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c yaml/scanner.c -o yaml/scanner.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I./tree-sitter/lib/include -I./tree-sitter/lib/src -I./yaml -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c yaml/writer.c -o yaml/writer.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I./tree-sitter/lib/include -I./tree-sitter/lib/src -I./yaml -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c init.c -o init.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I./tree-sitter/lib/include -I./tree-sitter/lib/src -I./yaml -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c cleancall.c -o cleancall.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I./tree-sitter/lib/include -I./tree-sitter/lib/src -I./yaml -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c tree-sitter.c -o tree-sitter.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I./tree-sitter/lib/include -I./tree-sitter/lib/src -I./yaml -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c yaml.c -o yaml.o
clang-22 -std=gnu23 -shared -L/usr/local/clang/lib64 -L/usr/local/clang22/lib -L/usr/local/clang22/lib/x86_64-unknown-linux-gnu -L/usr/local/lib64 -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
make[2]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/Rtmp2a3zS2/R.INSTALL178603375c510b/pak/src/library/pkgdepends/src'
make[2]: Entering directory '/tmp/RtmpokSdMQ/working_dir/Rtmp2a3zS2/R.INSTALL178603375c510b/pak/src/library/pkgdepends/src'
make[2]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/Rtmp2a3zS2/R.INSTALL178603375c510b/pak/src/library/pkgdepends/src'
installing to /tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/00LOCK-pak/00new/pak/library/pkgdepends/libs
Compiling keyring
Found libsecret via pkg-config.
using C compiler: ‘clang version 22.1.2 (https://github.com/llvm/llvm-project 1ab49a973e210e97d61e5db6557180dcb92c3e98)’
make[2]: Entering directory '/tmp/RtmpokSdMQ/working_dir/Rtmp2a3zS2/R.INSTALL178603375c510b/pak/src/library/keyring/src'
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DMBEDTLS_AES_C -DMBEDTLS_ALLOW_PRIVATE_ACCESS -DMBEDTLS_PLATFORM_PRINTF_ALT -I. -isystem /usr/local/clang22/include -I/usr/local/clang/include -DHAS_LIBSECRET -I/usr/include/libsecret-1 -I/usr/include/gio-unix-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DWITH_GZFILEOP -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/sysprof-6 -pthread -I/usr/include/p11-kit-1 -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c aes.c -o aes.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DMBEDTLS_AES_C -DMBEDTLS_ALLOW_PRIVATE_ACCESS -DMBEDTLS_PLATFORM_PRINTF_ALT -I. -isystem /usr/local/clang22/include -I/usr/local/clang/include -DHAS_LIBSECRET -I/usr/include/libsecret-1 -I/usr/include/gio-unix-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DWITH_GZFILEOP -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/sysprof-6 -pthread -I/usr/include/p11-kit-1 -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c aesce.c -o aesce.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DMBEDTLS_AES_C -DMBEDTLS_ALLOW_PRIVATE_ACCESS -DMBEDTLS_PLATFORM_PRINTF_ALT -I. -isystem /usr/local/clang22/include -I/usr/local/clang/include -DHAS_LIBSECRET -I/usr/include/libsecret-1 -I/usr/include/gio-unix-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DWITH_GZFILEOP -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/sysprof-6 -pthread -I/usr/include/p11-kit-1 -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c aesni.c -o aesni.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DMBEDTLS_AES_C -DMBEDTLS_ALLOW_PRIVATE_ACCESS -DMBEDTLS_PLATFORM_PRINTF_ALT -I. -isystem /usr/local/clang22/include -I/usr/local/clang/include -DHAS_LIBSECRET -I/usr/include/libsecret-1 -I/usr/include/gio-unix-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DWITH_GZFILEOP -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/sysprof-6 -pthread -I/usr/include/p11-kit-1 -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c base64.c -o base64.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DMBEDTLS_AES_C -DMBEDTLS_ALLOW_PRIVATE_ACCESS -DMBEDTLS_PLATFORM_PRINTF_ALT -I. -isystem /usr/local/clang22/include -I/usr/local/clang/include -DHAS_LIBSECRET -I/usr/include/libsecret-1 -I/usr/include/gio-unix-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DWITH_GZFILEOP -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/sysprof-6 -pthread -I/usr/include/p11-kit-1 -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c blake2b-compress-ref.c -o blake2b-compress-ref.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DMBEDTLS_AES_C -DMBEDTLS_ALLOW_PRIVATE_ACCESS -DMBEDTLS_PLATFORM_PRINTF_ALT -I. -isystem /usr/local/clang22/include -I/usr/local/clang/include -DHAS_LIBSECRET -I/usr/include/libsecret-1 -I/usr/include/gio-unix-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DWITH_GZFILEOP -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/sysprof-6 -pthread -I/usr/include/p11-kit-1 -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c blake2b-ref.c -o blake2b-ref.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DMBEDTLS_AES_C -DMBEDTLS_ALLOW_PRIVATE_ACCESS -DMBEDTLS_PLATFORM_PRINTF_ALT -I. -isystem /usr/local/clang22/include -I/usr/local/clang/include -DHAS_LIBSECRET -I/usr/include/libsecret-1 -I/usr/include/gio-unix-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DWITH_GZFILEOP -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/sysprof-6 -pthread -I/usr/include/p11-kit-1 -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c core_hsalsa20_ref2.c -o core_hsalsa20_ref2.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DMBEDTLS_AES_C -DMBEDTLS_ALLOW_PRIVATE_ACCESS -DMBEDTLS_PLATFORM_PRINTF_ALT -I. -isystem /usr/local/clang22/include -I/usr/local/clang/include -DHAS_LIBSECRET -I/usr/include/libsecret-1 -I/usr/include/gio-unix-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DWITH_GZFILEOP -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/sysprof-6 -pthread -I/usr/include/p11-kit-1 -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c core_salsa_ref.c -o core_salsa_ref.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DMBEDTLS_AES_C -DMBEDTLS_ALLOW_PRIVATE_ACCESS -DMBEDTLS_PLATFORM_PRINTF_ALT -I. -isystem /usr/local/clang22/include -I/usr/local/clang/include -DHAS_LIBSECRET -I/usr/include/libsecret-1 -I/usr/include/gio-unix-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DWITH_GZFILEOP -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/sysprof-6 -pthread -I/usr/include/p11-kit-1 -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c crypto_generichash.c -o crypto_generichash.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DMBEDTLS_AES_C -DMBEDTLS_ALLOW_PRIVATE_ACCESS -DMBEDTLS_PLATFORM_PRINTF_ALT -I. -isystem /usr/local/clang22/include -I/usr/local/clang/include -DHAS_LIBSECRET -I/usr/include/libsecret-1 -I/usr/include/gio-unix-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DWITH_GZFILEOP -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/sysprof-6 -pthread -I/usr/include/p11-kit-1 -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c crypto_secretbox_easy.c -o crypto_secretbox_easy.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DMBEDTLS_AES_C -DMBEDTLS_ALLOW_PRIVATE_ACCESS -DMBEDTLS_PLATFORM_PRINTF_ALT -I. -isystem /usr/local/clang22/include -I/usr/local/clang/include -DHAS_LIBSECRET -I/usr/include/libsecret-1 -I/usr/include/gio-unix-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DWITH_GZFILEOP -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/sysprof-6 -pthread -I/usr/include/p11-kit-1 -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c generichash_blake2b.c -o generichash_blake2b.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DMBEDTLS_AES_C -DMBEDTLS_ALLOW_PRIVATE_ACCESS -DMBEDTLS_PLATFORM_PRINTF_ALT -I. -isystem /usr/local/clang22/include -I/usr/local/clang/include -DHAS_LIBSECRET -I/usr/include/libsecret-1 -I/usr/include/gio-unix-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DWITH_GZFILEOP -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/sysprof-6 -pthread -I/usr/include/p11-kit-1 -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c init.c -o init.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DMBEDTLS_AES_C -DMBEDTLS_ALLOW_PRIVATE_ACCESS -DMBEDTLS_PLATFORM_PRINTF_ALT -I. -isystem /usr/local/clang22/include -I/usr/local/clang/include -DHAS_LIBSECRET -I/usr/include/libsecret-1 -I/usr/include/gio-unix-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DWITH_GZFILEOP -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/sysprof-6 -pthread -I/usr/include/p11-kit-1 -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c keyring_macos.c -o keyring_macos.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DMBEDTLS_AES_C -DMBEDTLS_ALLOW_PRIVATE_ACCESS -DMBEDTLS_PLATFORM_PRINTF_ALT -I. -isystem /usr/local/clang22/include -I/usr/local/clang/include -DHAS_LIBSECRET -I/usr/include/libsecret-1 -I/usr/include/gio-unix-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DWITH_GZFILEOP -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/sysprof-6 -pthread -I/usr/include/p11-kit-1 -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c keyring_secret_service.c -o keyring_secret_service.o
In file included from keyring_secret_service.c:13:
In file included from /usr/include/libsecret-1/libsecret/secret.h:18:
In file included from /usr/include/glib-2.0/glib.h:34:
In file included from /usr/include/glib-2.0/glib/gasyncqueue.h:34:
In file included from /usr/include/glib-2.0/glib/gthread.h:36:
/usr/include/glib-2.0/glib/gutils.h:378:7: warning: '__COUNTER__' is a C2y extension [-Wc2y-extensions]
378 | if (G_UNLIKELY (nth_bit < -1))
| ^
/usr/include/glib-2.0/glib/gmacros.h:1249:45: note: expanded from macro 'G_UNLIKELY'
1249 | #define G_UNLIKELY(expr) (__builtin_expect (_G_BOOLEAN_EXPR(expr), 0))
| ^
/usr/include/glib-2.0/glib/gmacros.h:1247:53: note: expanded from macro '_G_BOOLEAN_EXPR'
1247 | #define _G_BOOLEAN_EXPR(expr) _G_BOOLEAN_EXPR_IMPL (__COUNTER__, expr)
| ^
In file included from keyring_secret_service.c:13:
In file included from /usr/include/libsecret-1/libsecret/secret.h:18:
In file included from /usr/include/glib-2.0/glib.h:34:
In file included from /usr/include/glib-2.0/glib/gasyncqueue.h:34:
In file included from /usr/include/glib-2.0/glib/gthread.h:36:
/usr/include/glib-2.0/glib/gutils.h:393:22: warning: '__COUNTER__' is a C2y extension [-Wc2y-extensions]
393 | if (nth_bit < 0 || G_UNLIKELY (nth_bit > GLIB_SIZEOF_LONG * 8))
| ^
/usr/include/glib-2.0/glib/gmacros.h:1249:45: note: expanded from macro 'G_UNLIKELY'
1249 | #define G_UNLIKELY(expr) (__builtin_expect (_G_BOOLEAN_EXPR(expr), 0))
| ^
/usr/include/glib-2.0/glib/gmacros.h:1247:53: note: expanded from macro '_G_BOOLEAN_EXPR'
1247 | #define _G_BOOLEAN_EXPR(expr) _G_BOOLEAN_EXPR_IMPL (__COUNTER__, expr)
| ^
In file included from keyring_secret_service.c:13:
In file included from /usr/include/libsecret-1/libsecret/secret.h:18:
In file included from /usr/include/glib-2.0/glib.h:34:
In file included from /usr/include/glib-2.0/glib/gasyncqueue.h:34:
In file included from /usr/include/glib-2.0/glib/gthread.h:36:
/usr/include/glib-2.0/glib/gutils.h:408:10: warning: '__COUNTER__' is a C2y extension [-Wc2y-extensions]
408 | return G_LIKELY (number) ?
| ^
/usr/include/glib-2.0/glib/gmacros.h:1248:43: note: expanded from macro 'G_LIKELY'
1248 | #define G_LIKELY(expr) (__builtin_expect (_G_BOOLEAN_EXPR(expr), 1))
| ^
/usr/include/glib-2.0/glib/gmacros.h:1247:53: note: expanded from macro '_G_BOOLEAN_EXPR'
1247 | #define _G_BOOLEAN_EXPR(expr) _G_BOOLEAN_EXPR_IMPL (__COUNTER__, expr)
| ^
In file included from keyring_secret_service.c:13:
In file included from /usr/include/libsecret-1/libsecret/secret.h:18:
In file included from /usr/include/glib-2.0/glib.h:56:
In file included from /usr/include/glib-2.0/glib/giochannel.h:36:
/usr/include/glib-2.0/glib/gstring.h:202:7: warning: '__COUNTER__' is a C2y extension [-Wc2y-extensions]
202 | if (G_LIKELY (gstring != NULL &&
| ^
/usr/include/glib-2.0/glib/gmacros.h:1248:43: note: expanded from macro 'G_LIKELY'
1248 | #define G_LIKELY(expr) (__builtin_expect (_G_BOOLEAN_EXPR(expr), 1))
| ^
/usr/include/glib-2.0/glib/gmacros.h:1247:53: note: expanded from macro '_G_BOOLEAN_EXPR'
1247 | #define _G_BOOLEAN_EXPR(expr) _G_BOOLEAN_EXPR_IMPL (__COUNTER__, expr)
| ^
In file included from keyring_secret_service.c:13:
In file included from /usr/include/libsecret-1/libsecret/secret.h:18:
In file included from /usr/include/glib-2.0/glib.h:56:
In file included from /usr/include/glib-2.0/glib/giochannel.h:36:
/usr/include/glib-2.0/glib/gstring.h:224:6: warning: '__COUNTER__' is a C2y extension [-Wc2y-extensions]
224 | if G_UNLIKELY (gstring == NULL)
| ^
/usr/include/glib-2.0/glib/gmacros.h:1249:45: note: expanded from macro 'G_UNLIKELY'
1249 | #define G_UNLIKELY(expr) (__builtin_expect (_G_BOOLEAN_EXPR(expr), 0))
| ^
/usr/include/glib-2.0/glib/gmacros.h:1247:53: note: expanded from macro '_G_BOOLEAN_EXPR'
1247 | #define _G_BOOLEAN_EXPR(expr) _G_BOOLEAN_EXPR_IMPL (__COUNTER__, expr)
| ^
In file included from keyring_secret_service.c:13:
In file included from /usr/include/libsecret-1/libsecret/secret.h:18:
In file included from /usr/include/glib-2.0/glib.h:56:
In file included from /usr/include/glib-2.0/glib/giochannel.h:36:
/usr/include/glib-2.0/glib/gstring.h:227:6: warning: '__COUNTER__' is a C2y extension [-Wc2y-extensions]
227 | if G_UNLIKELY (val == NULL)
| ^
/usr/include/glib-2.0/glib/gmacros.h:1249:45: note: expanded from macro 'G_UNLIKELY'
1249 | #define G_UNLIKELY(expr) (__builtin_expect (_G_BOOLEAN_EXPR(expr), 0))
| ^
/usr/include/glib-2.0/glib/gmacros.h:1247:53: note: expanded from macro '_G_BOOLEAN_EXPR'
1247 | #define _G_BOOLEAN_EXPR(expr) _G_BOOLEAN_EXPR_IMPL (__COUNTER__, expr)
| ^
In file included from keyring_secret_service.c:13:
In file included from /usr/include/libsecret-1/libsecret/secret.h:18:
In file included from /usr/include/glib-2.0/glib.h:56:
In file included from /usr/include/glib-2.0/glib/giochannel.h:36:
/usr/include/glib-2.0/glib/gstring.h:235:7: warning: '__COUNTER__' is a C2y extension [-Wc2y-extensions]
235 | if (G_LIKELY (gstring->len + len_unsigned < gstring->allocated_len))
| ^
/usr/include/glib-2.0/glib/gmacros.h:1248:43: note: expanded from macro 'G_LIKELY'
1248 | #define G_LIKELY(expr) (__builtin_expect (_G_BOOLEAN_EXPR(expr), 1))
| ^
/usr/include/glib-2.0/glib/gmacros.h:1247:53: note: expanded from macro '_G_BOOLEAN_EXPR'
1247 | #define _G_BOOLEAN_EXPR(expr) _G_BOOLEAN_EXPR_IMPL (__COUNTER__, expr)
| ^
In file included from keyring_secret_service.c:13:
In file included from /usr/include/libsecret-1/libsecret/secret.h:18:
In file included from /usr/include/glib-2.0/glib.h:56:
In file included from /usr/include/glib-2.0/glib/giochannel.h:36:
/usr/include/glib-2.0/glib/gstring.h:238:11: warning: '__COUNTER__' is a C2y extension [-Wc2y-extensions]
238 | if (G_LIKELY (val + len_unsigned <= end || val > end + len_unsigned))
| ^
/usr/include/glib-2.0/glib/gmacros.h:1248:43: note: expanded from macro 'G_LIKELY'
1248 | #define G_LIKELY(expr) (__builtin_expect (_G_BOOLEAN_EXPR(expr), 1))
| ^
/usr/include/glib-2.0/glib/gmacros.h:1247:53: note: expanded from macro '_G_BOOLEAN_EXPR'
1247 | #define _G_BOOLEAN_EXPR(expr) _G_BOOLEAN_EXPR_IMPL (__COUNTER__, expr)
| ^
In file included from keyring_secret_service.c:13:
In file included from /usr/include/libsecret-1/libsecret/secret.h:22:
In file included from /usr/include/libsecret-1/libsecret/secret-attributes.h:25:
In file included from /usr/include/libsecret-1/libsecret/secret-schema.h:23:
In file included from /usr/include/glib-2.0/glib-object.h:24:
In file included from /usr/include/glib-2.0/gobject/gbinding.h:31:
/usr/include/glib-2.0/gobject/gobject.h:804:3: warning: '__COUNTER__' is a C2y extension [-Wc2y-extensions]
804 | g_assert_true (G_IS_OBJECT (weak_pointer));
| ^
/usr/include/glib-2.0/glib/gtestutils.h:228:49: note: expanded from macro 'g_assert_true'
228 | if G_LIKELY (expr) ; else \
| ^
/usr/include/glib-2.0/glib/gmacros.h:1248:43: note: expanded from macro 'G_LIKELY'
1248 | #define G_LIKELY(expr) (__builtin_expect (_G_BOOLEAN_EXPR(expr), 1))
| ^
/usr/include/glib-2.0/glib/gmacros.h:1247:53: note: expanded from macro '_G_BOOLEAN_EXPR'
1247 | #define _G_BOOLEAN_EXPR(expr) _G_BOOLEAN_EXPR_IMPL (__COUNTER__, expr)
| ^
In file included from keyring_secret_service.c:13:
In file included from /usr/include/libsecret-1/libsecret/secret.h:22:
In file included from /usr/include/libsecret-1/libsecret/secret-attributes.h:25:
In file included from /usr/include/libsecret-1/libsecret/secret-schema.h:23:
In file included from /usr/include/glib-2.0/glib-object.h:24:
In file included from /usr/include/glib-2.0/gobject/gbinding.h:31:
/usr/include/glib-2.0/gobject/gobject.h:807:3: warning: '__COUNTER__' is a C2y extension [-Wc2y-extensions]
807 | g_assert_null (weak_pointer);
| ^
/usr/include/glib-2.0/glib/gtestutils.h:250:59: note: expanded from macro 'g_assert_null'
250 | #define g_assert_null(expr) G_STMT_START { if G_LIKELY ((expr) == NULL) ; else \
| ^
/usr/include/glib-2.0/glib/gmacros.h:1248:43: note: expanded from macro 'G_LIKELY'
1248 | #define G_LIKELY(expr) (__builtin_expect (_G_BOOLEAN_EXPR(expr), 1))
| ^
/usr/include/glib-2.0/glib/gmacros.h:1247:53: note: expanded from macro '_G_BOOLEAN_EXPR'
1247 | #define _G_BOOLEAN_EXPR(expr) _G_BOOLEAN_EXPR_IMPL (__COUNTER__, expr)
| ^
10 warnings generated.
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DMBEDTLS_AES_C -DMBEDTLS_ALLOW_PRIVATE_ACCESS -DMBEDTLS_PLATFORM_PRINTF_ALT -I. -isystem /usr/local/clang22/include -I/usr/local/clang/include -DHAS_LIBSECRET -I/usr/include/libsecret-1 -I/usr/include/gio-unix-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DWITH_GZFILEOP -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/sysprof-6 -pthread -I/usr/include/p11-kit-1 -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c keyring_wincred.c -o keyring_wincred.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DMBEDTLS_AES_C -DMBEDTLS_ALLOW_PRIVATE_ACCESS -DMBEDTLS_PLATFORM_PRINTF_ALT -I. -isystem /usr/local/clang22/include -I/usr/local/clang/include -DHAS_LIBSECRET -I/usr/include/libsecret-1 -I/usr/include/gio-unix-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DWITH_GZFILEOP -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/sysprof-6 -pthread -I/usr/include/p11-kit-1 -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c onetimeauth_poly1305.c -o onetimeauth_poly1305.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DMBEDTLS_AES_C -DMBEDTLS_ALLOW_PRIVATE_ACCESS -DMBEDTLS_PLATFORM_PRINTF_ALT -I. -isystem /usr/local/clang22/include -I/usr/local/clang/include -DHAS_LIBSECRET -I/usr/include/libsecret-1 -I/usr/include/gio-unix-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DWITH_GZFILEOP -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/sysprof-6 -pthread -I/usr/include/p11-kit-1 -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c padlock.c -o padlock.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DMBEDTLS_AES_C -DMBEDTLS_ALLOW_PRIVATE_ACCESS -DMBEDTLS_PLATFORM_PRINTF_ALT -I. -isystem /usr/local/clang22/include -I/usr/local/clang/include -DHAS_LIBSECRET -I/usr/include/libsecret-1 -I/usr/include/gio-unix-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DWITH_GZFILEOP -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/sysprof-6 -pthread -I/usr/include/p11-kit-1 -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c platform_util.c -o platform_util.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DMBEDTLS_AES_C -DMBEDTLS_ALLOW_PRIVATE_ACCESS -DMBEDTLS_PLATFORM_PRINTF_ALT -I. -isystem /usr/local/clang22/include -I/usr/local/clang/include -DHAS_LIBSECRET -I/usr/include/libsecret-1 -I/usr/include/gio-unix-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DWITH_GZFILEOP -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/sysprof-6 -pthread -I/usr/include/p11-kit-1 -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c poly1305_donna.c -o poly1305_donna.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DMBEDTLS_AES_C -DMBEDTLS_ALLOW_PRIVATE_ACCESS -DMBEDTLS_PLATFORM_PRINTF_ALT -I. -isystem /usr/local/clang22/include -I/usr/local/clang/include -DHAS_LIBSECRET -I/usr/include/libsecret-1 -I/usr/include/gio-unix-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DWITH_GZFILEOP -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/sysprof-6 -pthread -I/usr/include/p11-kit-1 -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c raes.c -o raes.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DMBEDTLS_AES_C -DMBEDTLS_ALLOW_PRIVATE_ACCESS -DMBEDTLS_PLATFORM_PRINTF_ALT -I. -isystem /usr/local/clang22/include -I/usr/local/clang/include -DHAS_LIBSECRET -I/usr/include/libsecret-1 -I/usr/include/gio-unix-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DWITH_GZFILEOP -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/sysprof-6 -pthread -I/usr/include/p11-kit-1 -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c randombytes_sysrandom.c -o randombytes_sysrandom.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DMBEDTLS_AES_C -DMBEDTLS_ALLOW_PRIVATE_ACCESS -DMBEDTLS_PLATFORM_PRINTF_ALT -I. -isystem /usr/local/clang22/include -I/usr/local/clang/include -DHAS_LIBSECRET -I/usr/include/libsecret-1 -I/usr/include/gio-unix-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DWITH_GZFILEOP -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/sysprof-6 -pthread -I/usr/include/p11-kit-1 -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c salsa20_ref.c -o salsa20_ref.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DMBEDTLS_AES_C -DMBEDTLS_ALLOW_PRIVATE_ACCESS -DMBEDTLS_PLATFORM_PRINTF_ALT -I. -isystem /usr/local/clang22/include -I/usr/local/clang/include -DHAS_LIBSECRET -I/usr/include/libsecret-1 -I/usr/include/gio-unix-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DWITH_GZFILEOP -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/sysprof-6 -pthread -I/usr/include/p11-kit-1 -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c sha256.c -o sha256.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DMBEDTLS_AES_C -DMBEDTLS_ALLOW_PRIVATE_ACCESS -DMBEDTLS_PLATFORM_PRINTF_ALT -I. -isystem /usr/local/clang22/include -I/usr/local/clang/include -DHAS_LIBSECRET -I/usr/include/libsecret-1 -I/usr/include/gio-unix-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DWITH_GZFILEOP -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/sysprof-6 -pthread -I/usr/include/p11-kit-1 -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c sodium-utils.c -o sodium-utils.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DMBEDTLS_AES_C -DMBEDTLS_ALLOW_PRIVATE_ACCESS -DMBEDTLS_PLATFORM_PRINTF_ALT -I. -isystem /usr/local/clang22/include -I/usr/local/clang/include -DHAS_LIBSECRET -I/usr/include/libsecret-1 -I/usr/include/gio-unix-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DWITH_GZFILEOP -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/sysprof-6 -pthread -I/usr/include/p11-kit-1 -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c sodium.c -o sodium.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DMBEDTLS_AES_C -DMBEDTLS_ALLOW_PRIVATE_ACCESS -DMBEDTLS_PLATFORM_PRINTF_ALT -I. -isystem /usr/local/clang22/include -I/usr/local/clang/include -DHAS_LIBSECRET -I/usr/include/libsecret-1 -I/usr/include/gio-unix-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DWITH_GZFILEOP -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/sysprof-6 -pthread -I/usr/include/p11-kit-1 -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c stream_salsa20.c -o stream_salsa20.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DMBEDTLS_AES_C -DMBEDTLS_ALLOW_PRIVATE_ACCESS -DMBEDTLS_PLATFORM_PRINTF_ALT -I. -isystem /usr/local/clang22/include -I/usr/local/clang/include -DHAS_LIBSECRET -I/usr/include/libsecret-1 -I/usr/include/gio-unix-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DWITH_GZFILEOP -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/sysprof-6 -pthread -I/usr/include/p11-kit-1 -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c verify.c -o verify.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DMBEDTLS_AES_C -DMBEDTLS_ALLOW_PRIVATE_ACCESS -DMBEDTLS_PLATFORM_PRINTF_ALT -I. -isystem /usr/local/clang22/include -I/usr/local/clang/include -DHAS_LIBSECRET -I/usr/include/libsecret-1 -I/usr/include/gio-unix-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DWITH_GZFILEOP -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/sysprof-6 -pthread -I/usr/include/p11-kit-1 -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c win-path.c -o win-path.o
clang-22 -std=gnu23 -shared -L/usr/local/clang/lib64 -L/usr/local/clang22/lib -L/usr/local/clang22/lib/x86_64-unknown-linux-gnu -L/usr/local/lib64 -o keyring.so aes.o aesce.o aesni.o base64.o blake2b-compress-ref.o blake2b-ref.o core_hsalsa20_ref2.o core_salsa_ref.o crypto_generichash.o crypto_secretbox_easy.o generichash_blake2b.o init.o keyring_macos.o keyring_secret_service.o keyring_wincred.o onetimeauth_poly1305.o padlock.o platform_util.o poly1305_donna.o raes.o randombytes_sysrandom.o salsa20_ref.o sha256.o sodium-utils.o sodium.o stream_salsa20.o verify.o win-path.o -lsecret-1 -lgio-2.0 -lgobject-2.0 -lglib-2.0
make[2]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/Rtmp2a3zS2/R.INSTALL178603375c510b/pak/src/library/keyring/src'
make[2]: Entering directory '/tmp/RtmpokSdMQ/working_dir/Rtmp2a3zS2/R.INSTALL178603375c510b/pak/src/library/keyring/src'
make[2]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/Rtmp2a3zS2/R.INSTALL178603375c510b/pak/src/library/keyring/src'
installing to /tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/00LOCK-pak/00new/pak/library/keyring/libs
make[1]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/Rtmp2a3zS2/R.INSTALL178603375c510b/pak/src'
make[1]: Entering directory '/tmp/RtmpokSdMQ/working_dir/Rtmp2a3zS2/R.INSTALL178603375c510b/pak/src'
make[1]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/Rtmp2a3zS2/R.INSTALL178603375c510b/pak/src'
installing via 'install.libs.R' to /tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/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)
* installing *source* package ‘sessioninfo’ ...
** this is package ‘sessioninfo’ version ‘1.2.3’
** package ‘sessioninfo’ 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 (sessioninfo)
* installing *source* package ‘Rcpp’ ...
** this is package ‘Rcpp’ version ‘1.1.1’
** package ‘Rcpp’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C++ compiler: ‘clang version 22.1.2 (https://github.com/llvm/llvm-project 1ab49a973e210e97d61e5db6557180dcb92c3e98)’
make[1]: Entering directory '/tmp/RtmpokSdMQ/working_dir/RtmpVyBt41/R.INSTALL185e637a0d5689/Rcpp/src'
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../inst/include/ -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c api.cpp -o api.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../inst/include/ -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c attributes.cpp -o attributes.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../inst/include/ -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c barrier.cpp -o barrier.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../inst/include/ -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c date.cpp -o date.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../inst/include/ -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c module.cpp -o module.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../inst/include/ -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c rcpp_init.cpp -o rcpp_init.o
clang++-22 -stdlib=libc++ -std=gnu++20 -shared -L/usr/local/clang/lib64 -L/usr/local/clang22/lib -L/usr/local/clang22/lib/x86_64-unknown-linux-gnu -L/usr/local/lib64 -o Rcpp.so api.o attributes.o barrier.o date.o module.o rcpp_init.o
make[1]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/RtmpVyBt41/R.INSTALL185e637a0d5689/Rcpp/src'
make[1]: Entering directory '/tmp/RtmpokSdMQ/working_dir/RtmpVyBt41/R.INSTALL185e637a0d5689/Rcpp/src'
make[1]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/RtmpVyBt41/R.INSTALL185e637a0d5689/Rcpp/src'
installing to /tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/00LOCK-Rcpp/00new/Rcpp/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 (Rcpp)
* installing *source* package ‘zip’ ...
** this is package ‘zip’ version ‘2.3.3’
** package ‘zip’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C compiler: ‘clang version 22.1.2 (https://github.com/llvm/llvm-project 1ab49a973e210e97d61e5db6557180dcb92c3e98)’
make[1]: Entering directory '/tmp/RtmpokSdMQ/working_dir/RtmpBvzpa0/R.INSTALL1878bf7807376b/zip/src'
clang-22 -std=gnu23 -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 miniz.c zip.c unixutils.c tools/cmdzip.c -o tools/cmdzip
clang-22 -std=gnu23 -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 miniz.c zip.c unixutils.c tools/cmdunzip.c -o tools/cmdunzip
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c init.c -o init.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c miniz.c -o miniz.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c rzip.c -o rzip.o
rzip.c:19:9: warning: 'S_IFLNK' macro redefined [-Wmacro-redefined]
19 | #define S_IFLNK 0120000 /* [XSI] symbolic link */
| ^
/usr/include/sys/stat.h:113:11: note: previous definition is here
113 | # define S_IFLNK __S_IFLNK
| ^
1 warning generated.
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c zip.c -o zip.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c unixutils.c -o unixutils.o
clang-22 -std=gnu23 -shared -L/usr/local/clang/lib64 -L/usr/local/clang22/lib -L/usr/local/clang22/lib/x86_64-unknown-linux-gnu -L/usr/local/lib64 -o zip.so init.o miniz.o rzip.o zip.o unixutils.o
make[1]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/RtmpBvzpa0/R.INSTALL1878bf7807376b/zip/src'
make[1]: Entering directory '/tmp/RtmpokSdMQ/working_dir/RtmpBvzpa0/R.INSTALL1878bf7807376b/zip/src'
make[1]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/RtmpBvzpa0/R.INSTALL1878bf7807376b/zip/src'
installing via 'install.libs.R' to /tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/00LOCK-zip/00new/zip
** 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 (zip)
* installing *source* package ‘later’ ...
** this is package ‘later’ version ‘1.4.8’
** package ‘later’ successfully unpacked and MD5 sums checked
** using staged installation
Running configure script
-latomic linker flag not needed.
** libs
using C compiler: ‘clang version 22.1.2 (https://github.com/llvm/llvm-project 1ab49a973e210e97d61e5db6557180dcb92c3e98)’
using C++ compiler: ‘clang version 22.1.2 (https://github.com/llvm/llvm-project 1ab49a973e210e97d61e5db6557180dcb92c3e98)’
make[1]: Entering directory '/tmp/RtmpokSdMQ/working_dir/RtmplzZcfY/R.INSTALL18833f7e75c627/later/src'
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -pthread -DSTRICT_R_HEADERS -DRCPP_NO_MODULES -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/Rcpp/include' -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c RcppExports.cpp -o RcppExports.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -pthread -DSTRICT_R_HEADERS -DRCPP_NO_MODULES -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/Rcpp/include' -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c callback_registry.cpp -o callback_registry.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -pthread -DSTRICT_R_HEADERS -DRCPP_NO_MODULES -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/Rcpp/include' -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c debug.cpp -o debug.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -pthread -DSTRICT_R_HEADERS -DRCPP_NO_MODULES -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/Rcpp/include' -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c fd.cpp -o fd.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -pthread -DSTRICT_R_HEADERS -DRCPP_NO_MODULES -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/Rcpp/include' -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c init.c -o init.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -pthread -DSTRICT_R_HEADERS -DRCPP_NO_MODULES -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/Rcpp/include' -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c later.cpp -o later.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -pthread -DSTRICT_R_HEADERS -DRCPP_NO_MODULES -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/Rcpp/include' -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c later_posix.cpp -o later_posix.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -pthread -DSTRICT_R_HEADERS -DRCPP_NO_MODULES -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/Rcpp/include' -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c later_win32.cpp -o later_win32.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -pthread -DSTRICT_R_HEADERS -DRCPP_NO_MODULES -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/Rcpp/include' -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c timer_posix.cpp -o timer_posix.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -pthread -DSTRICT_R_HEADERS -DRCPP_NO_MODULES -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/Rcpp/include' -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c timestamp_unix.cpp -o timestamp_unix.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -pthread -DSTRICT_R_HEADERS -DRCPP_NO_MODULES -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/Rcpp/include' -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c timestamp_win32.cpp -o timestamp_win32.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -pthread -DSTRICT_R_HEADERS -DRCPP_NO_MODULES -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/Rcpp/include' -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c tinycthread.c -o tinycthread.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -pthread -DSTRICT_R_HEADERS -DRCPP_NO_MODULES -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/Rcpp/include' -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c wref.c -o wref.o
clang++-22 -stdlib=libc++ -std=gnu++20 -shared -L/usr/local/clang/lib64 -L/usr/local/clang22/lib -L/usr/local/clang22/lib/x86_64-unknown-linux-gnu -L/usr/local/lib64 -o later.so RcppExports.o callback_registry.o debug.o fd.o init.o later.o later_posix.o later_win32.o timer_posix.o timestamp_unix.o timestamp_win32.o tinycthread.o wref.o -pthread
make[1]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/RtmplzZcfY/R.INSTALL18833f7e75c627/later/src'
make[1]: Entering directory '/tmp/RtmpokSdMQ/working_dir/RtmplzZcfY/R.INSTALL18833f7e75c627/later/src'
make[1]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/RtmplzZcfY/R.INSTALL18833f7e75c627/later/src'
installing to /tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/00LOCK-later/00new/later/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 (later)
* installing *source* package ‘systemfonts’ ...
** this is package ‘systemfonts’ version ‘1.3.2’
** package ‘systemfonts’ successfully unpacked and MD5 sums checked
** using staged installation
Found pkg-config cflags and libs!
Using PKG_CFLAGS=-I/usr/include/libxml2 -I/usr/include/freetype2 -I/usr/include/libpng16 -DWITH_GZFILEOP -I/usr/include/harfbuzz -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-6 -pthread
Using PKG_LIBS=-lfontconfig -lfreetype
** libs
using C++ compiler: ‘clang version 22.1.2 (https://github.com/llvm/llvm-project 1ab49a973e210e97d61e5db6557180dcb92c3e98)’
make[1]: Entering directory '/tmp/RtmpokSdMQ/working_dir/Rtmp9mXz3M/R.INSTALL18970d74c5838e/systemfonts/src'
rm -f systemfonts.so caches.o cpp11.o dev_metrics.o font_matching.o font_local.o font_variation.o font_registry.o ft_cache.o string_shape.o font_metrics.o font_outlines.o font_fallback.o string_metrics.o emoji.o cache_store.o init.o unix/FontManagerLinux.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I/usr/include/libxml2 -I/usr/include/freetype2 -I/usr/include/libpng16 -DWITH_GZFILEOP -I/usr/include/harfbuzz -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-6 -pthread -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/cpp11/include' -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c caches.cpp -o caches.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I/usr/include/libxml2 -I/usr/include/freetype2 -I/usr/include/libpng16 -DWITH_GZFILEOP -I/usr/include/harfbuzz -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-6 -pthread -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/cpp11/include' -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c cpp11.cpp -o cpp11.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I/usr/include/libxml2 -I/usr/include/freetype2 -I/usr/include/libpng16 -DWITH_GZFILEOP -I/usr/include/harfbuzz -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-6 -pthread -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/cpp11/include' -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c dev_metrics.cpp -o dev_metrics.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I/usr/include/libxml2 -I/usr/include/freetype2 -I/usr/include/libpng16 -DWITH_GZFILEOP -I/usr/include/harfbuzz -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-6 -pthread -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/cpp11/include' -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c font_matching.cpp -o font_matching.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I/usr/include/libxml2 -I/usr/include/freetype2 -I/usr/include/libpng16 -DWITH_GZFILEOP -I/usr/include/harfbuzz -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-6 -pthread -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/cpp11/include' -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c font_local.cpp -o font_local.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I/usr/include/libxml2 -I/usr/include/freetype2 -I/usr/include/libpng16 -DWITH_GZFILEOP -I/usr/include/harfbuzz -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-6 -pthread -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/cpp11/include' -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c font_variation.cpp -o font_variation.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I/usr/include/libxml2 -I/usr/include/freetype2 -I/usr/include/libpng16 -DWITH_GZFILEOP -I/usr/include/harfbuzz -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-6 -pthread -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/cpp11/include' -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c font_registry.cpp -o font_registry.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I/usr/include/libxml2 -I/usr/include/freetype2 -I/usr/include/libpng16 -DWITH_GZFILEOP -I/usr/include/harfbuzz -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-6 -pthread -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/cpp11/include' -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c ft_cache.cpp -o ft_cache.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I/usr/include/libxml2 -I/usr/include/freetype2 -I/usr/include/libpng16 -DWITH_GZFILEOP -I/usr/include/harfbuzz -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-6 -pthread -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/cpp11/include' -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c string_shape.cpp -o string_shape.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I/usr/include/libxml2 -I/usr/include/freetype2 -I/usr/include/libpng16 -DWITH_GZFILEOP -I/usr/include/harfbuzz -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-6 -pthread -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/cpp11/include' -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c font_metrics.cpp -o font_metrics.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I/usr/include/libxml2 -I/usr/include/freetype2 -I/usr/include/libpng16 -DWITH_GZFILEOP -I/usr/include/harfbuzz -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-6 -pthread -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/cpp11/include' -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c font_outlines.cpp -o font_outlines.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I/usr/include/libxml2 -I/usr/include/freetype2 -I/usr/include/libpng16 -DWITH_GZFILEOP -I/usr/include/harfbuzz -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-6 -pthread -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/cpp11/include' -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c font_fallback.cpp -o font_fallback.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I/usr/include/libxml2 -I/usr/include/freetype2 -I/usr/include/libpng16 -DWITH_GZFILEOP -I/usr/include/harfbuzz -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-6 -pthread -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/cpp11/include' -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c string_metrics.cpp -o string_metrics.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I/usr/include/libxml2 -I/usr/include/freetype2 -I/usr/include/libpng16 -DWITH_GZFILEOP -I/usr/include/harfbuzz -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-6 -pthread -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/cpp11/include' -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c emoji.cpp -o emoji.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I/usr/include/libxml2 -I/usr/include/freetype2 -I/usr/include/libpng16 -DWITH_GZFILEOP -I/usr/include/harfbuzz -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-6 -pthread -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/cpp11/include' -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c cache_store.cpp -o cache_store.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I/usr/include/libxml2 -I/usr/include/freetype2 -I/usr/include/libpng16 -DWITH_GZFILEOP -I/usr/include/harfbuzz -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-6 -pthread -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/cpp11/include' -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c init.cpp -o init.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I/usr/include/libxml2 -I/usr/include/freetype2 -I/usr/include/libpng16 -DWITH_GZFILEOP -I/usr/include/harfbuzz -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-6 -pthread -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/cpp11/include' -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c unix/FontManagerLinux.cpp -o unix/FontManagerLinux.o
clang++-22 -stdlib=libc++ -std=gnu++20 -shared -L/usr/local/clang/lib64 -L/usr/local/clang22/lib -L/usr/local/clang22/lib/x86_64-unknown-linux-gnu -L/usr/local/lib64 -o systemfonts.so caches.o cpp11.o dev_metrics.o font_matching.o font_local.o font_variation.o font_registry.o ft_cache.o string_shape.o font_metrics.o font_outlines.o font_fallback.o string_metrics.o emoji.o cache_store.o init.o unix/FontManagerLinux.o -lfontconfig -lfreetype
make[1]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/Rtmp9mXz3M/R.INSTALL18970d74c5838e/systemfonts/src'
make[1]: Entering directory '/tmp/RtmpokSdMQ/working_dir/Rtmp9mXz3M/R.INSTALL18970d74c5838e/systemfonts/src'
make[1]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/Rtmp9mXz3M/R.INSTALL18970d74c5838e/systemfonts/src'
installing to /tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/00LOCK-systemfonts/00new/systemfonts/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 (systemfonts)
* installing *source* package ‘tinytex’ ...
** this is package ‘tinytex’ version ‘0.58’
** package ‘tinytex’ 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 (tinytex)
* installing *source* package ‘highr’ ...
** this is package ‘highr’ version ‘0.12’
** package ‘highr’ 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 (highr)
* installing *source* package ‘diffobj’ ...
** this is package ‘diffobj’ version ‘0.3.6’
** package ‘diffobj’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C compiler: ‘clang version 22.1.2 (https://github.com/llvm/llvm-project 1ab49a973e210e97d61e5db6557180dcb92c3e98)’
make[1]: Entering directory '/tmp/RtmpokSdMQ/working_dir/RtmpJEcDMN/R.INSTALL18d0d266911f55/diffobj/src'
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c diff.c -o diff.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c diffobj.c -o diffobj.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c init.c -o init.o
clang-22 -std=gnu23 -shared -L/usr/local/clang/lib64 -L/usr/local/clang22/lib -L/usr/local/clang22/lib/x86_64-unknown-linux-gnu -L/usr/local/lib64 -o diffobj.so diff.o diffobj.o init.o
make[1]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/RtmpJEcDMN/R.INSTALL18d0d266911f55/diffobj/src'
make[1]: Entering directory '/tmp/RtmpokSdMQ/working_dir/RtmpJEcDMN/R.INSTALL18d0d266911f55/diffobj/src'
make[1]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/RtmpJEcDMN/R.INSTALL18d0d266911f55/diffobj/src'
installing to /tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/00LOCK-diffobj/00new/diffobj/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 (diffobj)
* installing *source* package ‘askpass’ ...
** this is package ‘askpass’ version ‘1.2.1’
** package ‘askpass’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C compiler: ‘clang version 22.1.2 (https://github.com/llvm/llvm-project 1ab49a973e210e97d61e5db6557180dcb92c3e98)’
make[1]: Entering directory '/tmp/RtmpokSdMQ/working_dir/RtmpCccF3H/R.INSTALL18e31d2fbb3402/askpass/src'
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c askpass.c -o askpass.o
clang-22 -std=gnu23 -shared -L/usr/local/clang/lib64 -L/usr/local/clang22/lib -L/usr/local/clang22/lib/x86_64-unknown-linux-gnu -L/usr/local/lib64 -o askpass.so askpass.o
make[1]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/RtmpCccF3H/R.INSTALL18e31d2fbb3402/askpass/src'
make[1]: Entering directory '/tmp/RtmpokSdMQ/working_dir/RtmpCccF3H/R.INSTALL18e31d2fbb3402/askpass/src'
make[1]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/RtmpCccF3H/R.INSTALL18e31d2fbb3402/askpass/src'
installing to /tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/00LOCK-askpass/00new/askpass/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 (askpass)
* installing *source* package ‘cachem’ ...
** this is package ‘cachem’ version ‘1.1.0’
** package ‘cachem’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C compiler: ‘clang version 22.1.2 (https://github.com/llvm/llvm-project 1ab49a973e210e97d61e5db6557180dcb92c3e98)’
make[1]: Entering directory '/tmp/RtmpokSdMQ/working_dir/Rtmp05AppI/R.INSTALL18e684155134b/cachem/src'
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c cache.c -o cache.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c init.c -o init.o
clang-22 -std=gnu23 -shared -L/usr/local/clang/lib64 -L/usr/local/clang22/lib -L/usr/local/clang22/lib/x86_64-unknown-linux-gnu -L/usr/local/lib64 -o cachem.so cache.o init.o
make[1]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/Rtmp05AppI/R.INSTALL18e684155134b/cachem/src'
make[1]: Entering directory '/tmp/RtmpokSdMQ/working_dir/Rtmp05AppI/R.INSTALL18e684155134b/cachem/src'
make[1]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/Rtmp05AppI/R.INSTALL18e684155134b/cachem/src'
installing to /tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/00LOCK-cachem/00new/cachem/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 (cachem)
* installing *source* package ‘htmltools’ ...
** this is package ‘htmltools’ version ‘0.5.9’
** package ‘htmltools’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C compiler: ‘clang version 22.1.2 (https://github.com/llvm/llvm-project 1ab49a973e210e97d61e5db6557180dcb92c3e98)’
make[1]: Entering directory '/tmp/RtmpokSdMQ/working_dir/RtmpoSq6tx/R.INSTALL18ec7818b9b070/htmltools/src'
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c init.c -o init.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c template.c -o template.o
clang-22 -std=gnu23 -shared -L/usr/local/clang/lib64 -L/usr/local/clang22/lib -L/usr/local/clang22/lib/x86_64-unknown-linux-gnu -L/usr/local/lib64 -o htmltools.so init.o template.o
make[1]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/RtmpoSq6tx/R.INSTALL18ec7818b9b070/htmltools/src'
make[1]: Entering directory '/tmp/RtmpokSdMQ/working_dir/RtmpoSq6tx/R.INSTALL18ec7818b9b070/htmltools/src'
make[1]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/RtmpoSq6tx/R.INSTALL18ec7818b9b070/htmltools/src'
installing to /tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/00LOCK-htmltools/00new/htmltools/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 (htmltools)
* installing *source* package ‘processx’ ...
** this is package ‘processx’ version ‘3.8.6’
** package ‘processx’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C compiler: ‘clang version 22.1.2 (https://github.com/llvm/llvm-project 1ab49a973e210e97d61e5db6557180dcb92c3e98)’
make[1]: Entering directory '/tmp/RtmpokSdMQ/working_dir/RtmpbwgOlh/R.INSTALL19078d20974132/processx/src'
clang-22 -std=gnu23 -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -L/usr/local/clang/lib64 -L/usr/local/clang22/lib -L/usr/local/clang22/lib/x86_64-unknown-linux-gnu -L/usr/local/lib64 -Wall tools/px.c -o tools/px
clang-22 -std=gnu23 -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -L/usr/local/clang/lib64 -L/usr/local/clang22/lib -L/usr/local/clang22/lib/x86_64-unknown-linux-gnu -L/usr/local/lib64 -I../inst/include -Wall tools/sock.c -o tools/sock
clang-22 -std=gnu23 -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -L/usr/local/clang/lib64 -L/usr/local/clang22/lib -L/usr/local/clang22/lib/x86_64-unknown-linux-gnu -L/usr/local/lib64 supervisor/supervisor.c \
supervisor/utils.c -o supervisor/supervisor
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c base64.c -o base64.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c client.c -o client.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c errors.c -o errors.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c init.c -o init.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c poll.c -o poll.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c processx-connection.c -o processx-connection.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c processx-vector.c -o processx-vector.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c create-time.c -o create-time.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c unix/childlist.c -o unix/childlist.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c unix/connection.c -o unix/connection.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c unix/processx.c -o unix/processx.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c unix/sigchld.c -o unix/sigchld.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c unix/utils.c -o unix/utils.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c unix/named_pipe.c -o unix/named_pipe.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c cleancall.c -o cleancall.o
clang-22 -std=gnu23 -shared -L/usr/local/clang/lib64 -L/usr/local/clang22/lib -L/usr/local/clang22/lib/x86_64-unknown-linux-gnu -L/usr/local/lib64 -o client.so base64.o client.o errors.o \
clang-22 -std=gnu23 -shared -L/usr/local/clang/lib64 -L/usr/local/clang22/lib -L/usr/local/clang22/lib/x86_64-unknown-linux-gnu -L/usr/local/lib64 -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
make[1]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/RtmpbwgOlh/R.INSTALL19078d20974132/processx/src'
make[1]: Entering directory '/tmp/RtmpokSdMQ/working_dir/RtmpbwgOlh/R.INSTALL19078d20974132/processx/src'
make[1]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/RtmpbwgOlh/R.INSTALL19078d20974132/processx/src'
installing via 'install.libs.R' to /tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/00LOCK-processx/00new/processx
** R
** inst
** byte-compile and prepare package for lazy loading
R6Class process: finalize() method is public, but it should be private as of R6 2.4.0. This code will continue to work, but in a future version of R6, finalize() will be required to be private.
** 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 (processx)
* installing *source* package ‘rversions’ ...
** this is package ‘rversions’ version ‘3.0.0’
** package ‘rversions’ 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 (rversions)
* installing *source* package ‘urlchecker’ ...
** this is package ‘urlchecker’ version ‘1.0.1’
** package ‘urlchecker’ 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 (urlchecker)
* installing *source* package ‘plyr’ ...
** this is package ‘plyr’ version ‘1.8.9’
** package ‘plyr’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C compiler: ‘clang version 22.1.2 (https://github.com/llvm/llvm-project 1ab49a973e210e97d61e5db6557180dcb92c3e98)’
using C++ compiler: ‘clang version 22.1.2 (https://github.com/llvm/llvm-project 1ab49a973e210e97d61e5db6557180dcb92c3e98)’
make[1]: Entering directory '/tmp/RtmpokSdMQ/working_dir/Rtmp5VmrsT/R.INSTALL19219d34102ed9/plyr/src'
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/Rcpp/include' -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c RcppExports.cpp -o RcppExports.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/Rcpp/include' -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c loop_apply.c -o loop_apply.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/Rcpp/include' -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c split-numeric.cpp -o split-numeric.o
clang++-22 -stdlib=libc++ -std=gnu++20 -shared -L/usr/local/clang/lib64 -L/usr/local/clang22/lib -L/usr/local/clang22/lib/x86_64-unknown-linux-gnu -L/usr/local/lib64 -o plyr.so RcppExports.o loop_apply.o split-numeric.o
make[1]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/Rtmp5VmrsT/R.INSTALL19219d34102ed9/plyr/src'
make[1]: Entering directory '/tmp/RtmpokSdMQ/working_dir/Rtmp5VmrsT/R.INSTALL19219d34102ed9/plyr/src'
make[1]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/Rtmp5VmrsT/R.INSTALL19219d34102ed9/plyr/src'
installing to /tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/00LOCK-plyr/00new/plyr/libs
** R
** data
*** moving datasets to lazyload DB
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** testing if installed package can be loaded from temporary location
** checking absolute paths in shared objects and dynamic libraries
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (plyr)
* installing *source* package ‘openxlsx’ ...
** this is package ‘openxlsx’ version ‘4.2.8.1’
** package ‘openxlsx’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C++ compiler: ‘clang version 22.1.2 (https://github.com/llvm/llvm-project 1ab49a973e210e97d61e5db6557180dcb92c3e98)’
make[1]: Entering directory '/tmp/RtmpokSdMQ/working_dir/RtmpYhcgt3/R.INSTALL19303d2ccc5361/openxlsx/src'
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/Rcpp/include' -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c RcppExports.cpp -o RcppExports.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/Rcpp/include' -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c helper_functions.cpp -o helper_functions.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/Rcpp/include' -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c load_workbook.cpp -o load_workbook.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/Rcpp/include' -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c read_workbook.cpp -o read_workbook.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/Rcpp/include' -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c write_data.cpp -o write_data.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/Rcpp/include' -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c write_file.cpp -o write_file.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/Rcpp/include' -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c write_file_2.cpp -o write_file_2.o
clang++-22 -stdlib=libc++ -std=gnu++20 -shared -L/usr/local/clang/lib64 -L/usr/local/clang22/lib -L/usr/local/clang22/lib/x86_64-unknown-linux-gnu -L/usr/local/lib64 -o openxlsx.so RcppExports.o helper_functions.o load_workbook.o read_workbook.o write_data.o write_file.o write_file_2.o
make[1]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/RtmpYhcgt3/R.INSTALL19303d2ccc5361/openxlsx/src'
make[1]: Entering directory '/tmp/RtmpokSdMQ/working_dir/RtmpYhcgt3/R.INSTALL19303d2ccc5361/openxlsx/src'
make[1]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/RtmpYhcgt3/R.INSTALL19303d2ccc5361/openxlsx/src'
installing to /tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/00LOCK-openxlsx/00new/openxlsx/libs
** R
** data
*** moving datasets to lazyload DB
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
*** copying figures
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** checking absolute paths in shared objects and dynamic libraries
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (openxlsx)
* installing *source* package ‘promises’ ...
** this is package ‘promises’ version ‘1.5.0’
** package ‘promises’ 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 (promises)
* installing *source* package ‘jquerylib’ ...
** this is package ‘jquerylib’ version ‘0.1.4’
** package ‘jquerylib’ 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 (jquerylib)
* installing *source* package ‘sass’ ...
** this is package ‘sass’ version ‘0.4.10’
** package ‘sass’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C compiler: ‘clang version 22.1.2 (https://github.com/llvm/llvm-project 1ab49a973e210e97d61e5db6557180dcb92c3e98)’
using C++ compiler: ‘clang version 22.1.2 (https://github.com/llvm/llvm-project 1ab49a973e210e97d61e5db6557180dcb92c3e98)’
make[1]: Entering directory '/tmp/RtmpokSdMQ/working_dir/Rtmp6ghWw6/R.INSTALL19a031d264643/sass/src'
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I./libsass/include -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c compile.c -o compile.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I./libsass/include -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c init.cpp -o init.o
MAKEFLAGS= CC="clang-22 -std=gnu23" CFLAGS="-O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 " CXX="clang++-22 -stdlib=libc++ -std=gnu++20" AR="ar" LDFLAGS="-L/usr/local/clang/lib64 -L/usr/local/clang22/lib -L/usr/local/clang22/lib/x86_64-unknown-linux-gnu -L/usr/local/lib64" make -C libsass
make[2]: Entering directory '/tmp/RtmpokSdMQ/working_dir/Rtmp6ghWw6/R.INSTALL19a031d264643/sass/src/libsass'
clang-22 -std=gnu23 -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -O2 -I ./include -fPIC -c -o src/cencode.o src/cencode.c
clang++-22 -stdlib=libc++ -std=gnu++20 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/ast.o src/ast.cpp
clang++-22 -stdlib=libc++ -std=gnu++20 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/ast_values.o src/ast_values.cpp
clang++-22 -stdlib=libc++ -std=gnu++20 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/ast_supports.o src/ast_supports.cpp
clang++-22 -stdlib=libc++ -std=gnu++20 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/ast_sel_cmp.o src/ast_sel_cmp.cpp
clang++-22 -stdlib=libc++ -std=gnu++20 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/ast_sel_unify.o src/ast_sel_unify.cpp
clang++-22 -stdlib=libc++ -std=gnu++20 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/ast_sel_super.o src/ast_sel_super.cpp
clang++-22 -stdlib=libc++ -std=gnu++20 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/ast_sel_weave.o src/ast_sel_weave.cpp
clang++-22 -stdlib=libc++ -std=gnu++20 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/ast_selectors.o src/ast_selectors.cpp
clang++-22 -stdlib=libc++ -std=gnu++20 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/context.o src/context.cpp
clang++-22 -stdlib=libc++ -std=gnu++20 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/constants.o src/constants.cpp
clang++-22 -stdlib=libc++ -std=gnu++20 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/fn_utils.o src/fn_utils.cpp
clang++-22 -stdlib=libc++ -std=gnu++20 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/fn_miscs.o src/fn_miscs.cpp
clang++-22 -stdlib=libc++ -std=gnu++20 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/fn_maps.o src/fn_maps.cpp
clang++-22 -stdlib=libc++ -std=gnu++20 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/fn_lists.o src/fn_lists.cpp
clang++-22 -stdlib=libc++ -std=gnu++20 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/fn_colors.o src/fn_colors.cpp
clang++-22 -stdlib=libc++ -std=gnu++20 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/fn_numbers.o src/fn_numbers.cpp
clang++-22 -stdlib=libc++ -std=gnu++20 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/fn_strings.o src/fn_strings.cpp
clang++-22 -stdlib=libc++ -std=gnu++20 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/fn_selectors.o src/fn_selectors.cpp
clang++-22 -stdlib=libc++ -std=gnu++20 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/color_maps.o src/color_maps.cpp
clang++-22 -stdlib=libc++ -std=gnu++20 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/environment.o src/environment.cpp
clang++-22 -stdlib=libc++ -std=gnu++20 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/ast_fwd_decl.o src/ast_fwd_decl.cpp
clang++-22 -stdlib=libc++ -std=gnu++20 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/bind.o src/bind.cpp
clang++-22 -stdlib=libc++ -std=gnu++20 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/file.o src/file.cpp
clang++-22 -stdlib=libc++ -std=gnu++20 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/util.o src/util.cpp
clang++-22 -stdlib=libc++ -std=gnu++20 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/util_string.o src/util_string.cpp
clang++-22 -stdlib=libc++ -std=gnu++20 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/json.o src/json.cpp
clang++-22 -stdlib=libc++ -std=gnu++20 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/units.o src/units.cpp
clang++-22 -stdlib=libc++ -std=gnu++20 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/values.o src/values.cpp
clang++-22 -stdlib=libc++ -std=gnu++20 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/plugins.o src/plugins.cpp
clang++-22 -stdlib=libc++ -std=gnu++20 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/source.o src/source.cpp
clang++-22 -stdlib=libc++ -std=gnu++20 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/position.o src/position.cpp
clang++-22 -stdlib=libc++ -std=gnu++20 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/lexer.o src/lexer.cpp
clang++-22 -stdlib=libc++ -std=gnu++20 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/parser.o src/parser.cpp
clang++-22 -stdlib=libc++ -std=gnu++20 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/parser_selectors.o src/parser_selectors.cpp
clang++-22 -stdlib=libc++ -std=gnu++20 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/prelexer.o src/prelexer.cpp
clang++-22 -stdlib=libc++ -std=gnu++20 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/eval.o src/eval.cpp
clang++-22 -stdlib=libc++ -std=gnu++20 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/eval_selectors.o src/eval_selectors.cpp
clang++-22 -stdlib=libc++ -std=gnu++20 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/expand.o src/expand.cpp
clang++-22 -stdlib=libc++ -std=gnu++20 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/listize.o src/listize.cpp
clang++-22 -stdlib=libc++ -std=gnu++20 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/cssize.o src/cssize.cpp
clang++-22 -stdlib=libc++ -std=gnu++20 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/extender.o src/extender.cpp
clang++-22 -stdlib=libc++ -std=gnu++20 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/extension.o src/extension.cpp
clang++-22 -stdlib=libc++ -std=gnu++20 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/stylesheet.o src/stylesheet.cpp
clang++-22 -stdlib=libc++ -std=gnu++20 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/output.o src/output.cpp
clang++-22 -stdlib=libc++ -std=gnu++20 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/inspect.o src/inspect.cpp
clang++-22 -stdlib=libc++ -std=gnu++20 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/emitter.o src/emitter.cpp
clang++-22 -stdlib=libc++ -std=gnu++20 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/check_nesting.o src/check_nesting.cpp
clang++-22 -stdlib=libc++ -std=gnu++20 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/remove_placeholders.o src/remove_placeholders.cpp
clang++-22 -stdlib=libc++ -std=gnu++20 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/sass.o src/sass.cpp
clang++-22 -stdlib=libc++ -std=gnu++20 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/sass_values.o src/sass_values.cpp
clang++-22 -stdlib=libc++ -std=gnu++20 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/sass_context.o src/sass_context.cpp
clang++-22 -stdlib=libc++ -std=gnu++20 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/sass_functions.o src/sass_functions.cpp
clang++-22 -stdlib=libc++ -std=gnu++20 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/sass2scss.o src/sass2scss.cpp
clang++-22 -stdlib=libc++ -std=gnu++20 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/backtrace.o src/backtrace.cpp
clang++-22 -stdlib=libc++ -std=gnu++20 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/operators.o src/operators.cpp
clang++-22 -stdlib=libc++ -std=gnu++20 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/ast2c.o src/ast2c.cpp
clang++-22 -stdlib=libc++ -std=gnu++20 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/c2ast.o src/c2ast.cpp
clang++-22 -stdlib=libc++ -std=gnu++20 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/to_value.o src/to_value.cpp
clang++-22 -stdlib=libc++ -std=gnu++20 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/source_map.o src/source_map.cpp
clang++-22 -stdlib=libc++ -std=gnu++20 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/error_handling.o src/error_handling.cpp
clang++-22 -stdlib=libc++ -std=gnu++20 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/memory/allocator.o src/memory/allocator.cpp
clang++-22 -stdlib=libc++ -std=gnu++20 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/memory/shared_ptr.o src/memory/shared_ptr.cpp
clang++-22 -stdlib=libc++ -std=gnu++20 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/utf8_string.o src/utf8_string.cpp
clang++-22 -stdlib=libc++ -std=gnu++20 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/base64vlq.o src/base64vlq.cpp
mkdir lib
ar rcvs lib/libsass.a src/cencode.o src/ast.o src/ast_values.o src/ast_supports.o src/ast_sel_cmp.o src/ast_sel_unify.o src/ast_sel_super.o src/ast_sel_weave.o src/ast_selectors.o src/context.o src/constants.o src/fn_utils.o src/fn_miscs.o src/fn_maps.o src/fn_lists.o src/fn_colors.o src/fn_numbers.o src/fn_strings.o src/fn_selectors.o src/color_maps.o src/environment.o src/ast_fwd_decl.o src/bind.o src/file.o src/util.o src/util_string.o src/json.o src/units.o src/values.o src/plugins.o src/source.o src/position.o src/lexer.o src/parser.o src/parser_selectors.o src/prelexer.o src/eval.o src/eval_selectors.o src/expand.o src/listize.o src/cssize.o src/extender.o src/extension.o src/stylesheet.o src/output.o src/inspect.o src/emitter.o src/check_nesting.o src/remove_placeholders.o src/sass.o src/sass_values.o src/sass_context.o src/sass_functions.o src/sass2scss.o src/backtrace.o src/operators.o src/ast2c.o src/c2ast.o src/to_value.o src/source_map.o src/error_handling.o src/memory/allocator.o src/memory/shared_ptr.o src/utf8_string.o src/base64vlq.o
a - src/cencode.o
a - src/ast.o
a - src/ast_values.o
a - src/ast_supports.o
a - src/ast_sel_cmp.o
a - src/ast_sel_unify.o
a - src/ast_sel_super.o
a - src/ast_sel_weave.o
a - src/ast_selectors.o
a - src/context.o
a - src/constants.o
a - src/fn_utils.o
a - src/fn_miscs.o
a - src/fn_maps.o
a - src/fn_lists.o
a - src/fn_colors.o
a - src/fn_numbers.o
a - src/fn_strings.o
a - src/fn_selectors.o
a - src/color_maps.o
a - src/environment.o
a - src/ast_fwd_decl.o
a - src/bind.o
a - src/file.o
a - src/util.o
a - src/util_string.o
a - src/json.o
a - src/units.o
a - src/values.o
a - src/plugins.o
a - src/source.o
a - src/position.o
a - src/lexer.o
a - src/parser.o
a - src/parser_selectors.o
a - src/prelexer.o
a - src/eval.o
a - src/eval_selectors.o
a - src/expand.o
a - src/listize.o
a - src/cssize.o
a - src/extender.o
a - src/extension.o
a - src/stylesheet.o
a - src/output.o
a - src/inspect.o
a - src/emitter.o
a - src/check_nesting.o
a - src/remove_placeholders.o
a - src/sass.o
a - src/sass_values.o
a - src/sass_context.o
a - src/sass_functions.o
a - src/sass2scss.o
a - src/backtrace.o
a - src/operators.o
a - src/ast2c.o
a - src/c2ast.o
a - src/to_value.o
a - src/source_map.o
a - src/error_handling.o
a - src/memory/allocator.o
a - src/memory/shared_ptr.o
a - src/utf8_string.o
a - src/base64vlq.o
make[2]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/Rtmp6ghWw6/R.INSTALL19a031d264643/sass/src/libsass'
clang++-22 -stdlib=libc++ -std=gnu++20 -shared -L/usr/local/clang/lib64 -L/usr/local/clang22/lib -L/usr/local/clang22/lib/x86_64-unknown-linux-gnu -L/usr/local/lib64 -o sass.so compile.o init.o ./libsass/lib/libsass.a
rm -f libsass/lib/libsass.a
make[1]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/Rtmp6ghWw6/R.INSTALL19a031d264643/sass/src'
make[1]: Entering directory '/tmp/RtmpokSdMQ/working_dir/Rtmp6ghWw6/R.INSTALL19a031d264643/sass/src'
make[1]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/Rtmp6ghWw6/R.INSTALL19a031d264643/sass/src'
installing to /tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/00LOCK-sass/00new/sass/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 (sass)
* installing *source* package ‘textshaping’ ...
** this is package ‘textshaping’ version ‘1.0.5’
** package ‘textshaping’ successfully unpacked and MD5 sums checked
** using staged installation
Found pkg-config cflags and libs!
Using PKG_CFLAGS=-I/usr/include/freetype2 -I/usr/include/libpng16 -DWITH_GZFILEOP -I/usr/include/harfbuzz -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-6 -pthread -I/usr/include/fribidi
Using PKG_LIBS=-lharfbuzz -lfreetype -lfribidi
** libs
using C++ compiler: ‘clang version 22.1.2 (https://github.com/llvm/llvm-project 1ab49a973e210e97d61e5db6557180dcb92c3e98)’
make[1]: Entering directory '/tmp/RtmpokSdMQ/working_dir/RtmpeCcL7g/R.INSTALL1a634f2b07015a/textshaping/src'
rm -f textshaping.so cpp11.o face_feature.o hb_shaper.o init.o string_bidi.o string_metrics.o string_shape.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DNDEBUG -I/usr/include/freetype2 -I/usr/include/libpng16 -DWITH_GZFILEOP -I/usr/include/harfbuzz -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-6 -pthread -I/usr/include/fribidi -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/cpp11/include' -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/systemfonts/include' -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c cpp11.cpp -o cpp11.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DNDEBUG -I/usr/include/freetype2 -I/usr/include/libpng16 -DWITH_GZFILEOP -I/usr/include/harfbuzz -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-6 -pthread -I/usr/include/fribidi -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/cpp11/include' -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/systemfonts/include' -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c face_feature.cpp -o face_feature.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DNDEBUG -I/usr/include/freetype2 -I/usr/include/libpng16 -DWITH_GZFILEOP -I/usr/include/harfbuzz -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-6 -pthread -I/usr/include/fribidi -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/cpp11/include' -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/systemfonts/include' -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c hb_shaper.cpp -o hb_shaper.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DNDEBUG -I/usr/include/freetype2 -I/usr/include/libpng16 -DWITH_GZFILEOP -I/usr/include/harfbuzz -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-6 -pthread -I/usr/include/fribidi -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/cpp11/include' -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/systemfonts/include' -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c init.cpp -o init.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DNDEBUG -I/usr/include/freetype2 -I/usr/include/libpng16 -DWITH_GZFILEOP -I/usr/include/harfbuzz -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-6 -pthread -I/usr/include/fribidi -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/cpp11/include' -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/systemfonts/include' -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c string_bidi.cpp -o string_bidi.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DNDEBUG -I/usr/include/freetype2 -I/usr/include/libpng16 -DWITH_GZFILEOP -I/usr/include/harfbuzz -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-6 -pthread -I/usr/include/fribidi -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/cpp11/include' -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/systemfonts/include' -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c string_metrics.cpp -o string_metrics.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DNDEBUG -I/usr/include/freetype2 -I/usr/include/libpng16 -DWITH_GZFILEOP -I/usr/include/harfbuzz -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-6 -pthread -I/usr/include/fribidi -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/cpp11/include' -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/systemfonts/include' -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c string_shape.cpp -o string_shape.o
clang++-22 -stdlib=libc++ -std=gnu++20 -shared -L/usr/local/clang/lib64 -L/usr/local/clang22/lib -L/usr/local/clang22/lib/x86_64-unknown-linux-gnu -L/usr/local/lib64 -o textshaping.so cpp11.o face_feature.o hb_shaper.o init.o string_bidi.o string_metrics.o string_shape.o -lharfbuzz -lfreetype -lfribidi
make[1]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/RtmpeCcL7g/R.INSTALL1a634f2b07015a/textshaping/src'
make[1]: Entering directory '/tmp/RtmpokSdMQ/working_dir/RtmpeCcL7g/R.INSTALL1a634f2b07015a/textshaping/src'
make[1]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/RtmpeCcL7g/R.INSTALL1a634f2b07015a/textshaping/src'
installing to /tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/00LOCK-textshaping/00new/textshaping/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 (textshaping)
* installing *source* package ‘openssl’ ...
** this is package ‘openssl’ version ‘2.3.5’
** package ‘openssl’ successfully unpacked and MD5 sums checked
** using staged installation
Found pkg-config cflags and libs!
Using PKG_CFLAGS=
Using PKG_LIBS=-l:libssl.so.3 -l:libcrypto.so.3
** libs
using C compiler: ‘clang version 22.1.2 (https://github.com/llvm/llvm-project 1ab49a973e210e97d61e5db6557180dcb92c3e98)’
make[1]: Entering directory '/tmp/RtmpokSdMQ/working_dir/RtmpU77swv/R.INSTALL1a81481b224c1c/openssl/src'
rm -f aes.o base64.o bignum.o cert.o compatibility.o diffie.o envelope.o error.o hash.o info.o keygen.o keys.o onload.o openssh.o password.o pbkdf.o pem.o pkcs12.o pkcs7.o rand.o rsa.o signing.o ssl.o stream.o write.o x25519.o openssl.so bcrypt/libstatbcrypt.a bcrypt/bcrypt_pbkdf.o bcrypt/blowfish.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DOPENSSL_SUPPRESS_DEPRECATED -DSTRICT_R_HEADERS -DR_NO_REMAP -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c aes.c -o aes.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DOPENSSL_SUPPRESS_DEPRECATED -DSTRICT_R_HEADERS -DR_NO_REMAP -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c base64.c -o base64.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DOPENSSL_SUPPRESS_DEPRECATED -DSTRICT_R_HEADERS -DR_NO_REMAP -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c bignum.c -o bignum.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DOPENSSL_SUPPRESS_DEPRECATED -DSTRICT_R_HEADERS -DR_NO_REMAP -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c cert.c -o cert.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DOPENSSL_SUPPRESS_DEPRECATED -DSTRICT_R_HEADERS -DR_NO_REMAP -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c compatibility.c -o compatibility.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DOPENSSL_SUPPRESS_DEPRECATED -DSTRICT_R_HEADERS -DR_NO_REMAP -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c diffie.c -o diffie.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DOPENSSL_SUPPRESS_DEPRECATED -DSTRICT_R_HEADERS -DR_NO_REMAP -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c envelope.c -o envelope.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DOPENSSL_SUPPRESS_DEPRECATED -DSTRICT_R_HEADERS -DR_NO_REMAP -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c error.c -o error.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DOPENSSL_SUPPRESS_DEPRECATED -DSTRICT_R_HEADERS -DR_NO_REMAP -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c hash.c -o hash.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DOPENSSL_SUPPRESS_DEPRECATED -DSTRICT_R_HEADERS -DR_NO_REMAP -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c info.c -o info.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DOPENSSL_SUPPRESS_DEPRECATED -DSTRICT_R_HEADERS -DR_NO_REMAP -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c keygen.c -o keygen.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DOPENSSL_SUPPRESS_DEPRECATED -DSTRICT_R_HEADERS -DR_NO_REMAP -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c keys.c -o keys.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DOPENSSL_SUPPRESS_DEPRECATED -DSTRICT_R_HEADERS -DR_NO_REMAP -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c onload.c -o onload.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DOPENSSL_SUPPRESS_DEPRECATED -DSTRICT_R_HEADERS -DR_NO_REMAP -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c openssh.c -o openssh.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DOPENSSL_SUPPRESS_DEPRECATED -DSTRICT_R_HEADERS -DR_NO_REMAP -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c password.c -o password.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DOPENSSL_SUPPRESS_DEPRECATED -DSTRICT_R_HEADERS -DR_NO_REMAP -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c pbkdf.c -o pbkdf.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DOPENSSL_SUPPRESS_DEPRECATED -DSTRICT_R_HEADERS -DR_NO_REMAP -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c pem.c -o pem.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DOPENSSL_SUPPRESS_DEPRECATED -DSTRICT_R_HEADERS -DR_NO_REMAP -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c pkcs12.c -o pkcs12.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DOPENSSL_SUPPRESS_DEPRECATED -DSTRICT_R_HEADERS -DR_NO_REMAP -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c pkcs7.c -o pkcs7.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DOPENSSL_SUPPRESS_DEPRECATED -DSTRICT_R_HEADERS -DR_NO_REMAP -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c rand.c -o rand.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DOPENSSL_SUPPRESS_DEPRECATED -DSTRICT_R_HEADERS -DR_NO_REMAP -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c rsa.c -o rsa.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DOPENSSL_SUPPRESS_DEPRECATED -DSTRICT_R_HEADERS -DR_NO_REMAP -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c signing.c -o signing.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DOPENSSL_SUPPRESS_DEPRECATED -DSTRICT_R_HEADERS -DR_NO_REMAP -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c ssl.c -o ssl.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DOPENSSL_SUPPRESS_DEPRECATED -DSTRICT_R_HEADERS -DR_NO_REMAP -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c stream.c -o stream.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DOPENSSL_SUPPRESS_DEPRECATED -DSTRICT_R_HEADERS -DR_NO_REMAP -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c write.c -o write.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DOPENSSL_SUPPRESS_DEPRECATED -DSTRICT_R_HEADERS -DR_NO_REMAP -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c x25519.c -o x25519.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DOPENSSL_SUPPRESS_DEPRECATED -DSTRICT_R_HEADERS -DR_NO_REMAP -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c bcrypt/bcrypt_pbkdf.c -o bcrypt/bcrypt_pbkdf.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DOPENSSL_SUPPRESS_DEPRECATED -DSTRICT_R_HEADERS -DR_NO_REMAP -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c bcrypt/blowfish.c -o bcrypt/blowfish.o
ar rcs bcrypt/libstatbcrypt.a bcrypt/bcrypt_pbkdf.o bcrypt/blowfish.o
clang-22 -std=gnu23 -shared -L/usr/local/clang/lib64 -L/usr/local/clang22/lib -L/usr/local/clang22/lib/x86_64-unknown-linux-gnu -L/usr/local/lib64 -o openssl.so aes.o base64.o bignum.o cert.o compatibility.o diffie.o envelope.o error.o hash.o info.o keygen.o keys.o onload.o openssh.o password.o pbkdf.o pem.o pkcs12.o pkcs7.o rand.o rsa.o signing.o ssl.o stream.o write.o x25519.o -Lbcrypt -lstatbcrypt -l:libssl.so.3 -l:libcrypto.so.3
make[1]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/RtmpU77swv/R.INSTALL1a81481b224c1c/openssl/src'
make[1]: Entering directory '/tmp/RtmpokSdMQ/working_dir/RtmpU77swv/R.INSTALL1a81481b224c1c/openssl/src'
make[1]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/RtmpU77swv/R.INSTALL1a81481b224c1c/openssl/src'
installing to /tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/00LOCK-openssl/00new/openssl/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 (openssl)
* installing *source* package ‘callr’ ...
** this is package ‘callr’ version ‘3.7.6’
** package ‘callr’ successfully unpacked and MD5 sums checked
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
R6Class r_process: finalize() method is public, but it should be private as of R6 2.4.0. This code will continue to work, but in a future version of R6, finalize() will be required to be private.
R6Class r_session: finalize() method is public, but it should be private as of R6 2.4.0. This code will continue to work, but in a future version of R6, finalize() will be required to be private.
R6Class rcmd_process: finalize() method is public, but it should be private as of R6 2.4.0. This code will continue to work, but in a future version of R6, finalize() will be required to be private.
R6Class rscript_process: finalize() method is public, but it should be private as of R6 2.4.0. This code will continue to work, but in a future version of R6, finalize() will be required to be private.
** 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 (callr)
* installing *source* package ‘fontawesome’ ...
** this is package ‘fontawesome’ version ‘0.5.3’
** package ‘fontawesome’ 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 (fontawesome)
* installing *source* package ‘xopen’ ...
** this is package ‘xopen’ version ‘1.0.1’
** package ‘xopen’ 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 (xopen)
* installing *source* package ‘knitr’ ...
** this is package ‘knitr’ version ‘1.51’
** package ‘knitr’ 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 (knitr)
* installing *source* package ‘waldo’ ...
** this is package ‘waldo’ version ‘0.6.2’
** package ‘waldo’ 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 (waldo)
* installing *source* package ‘memoise’ ...
** this is package ‘memoise’ version ‘2.0.1’
** package ‘memoise’ 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 (memoise)
* installing *source* package ‘reshape2’ ...
** this is package ‘reshape2’ version ‘1.4.5’
** package ‘reshape2’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C++ compiler: ‘clang version 22.1.2 (https://github.com/llvm/llvm-project 1ab49a973e210e97d61e5db6557180dcb92c3e98)’
make[1]: Entering directory '/tmp/RtmpokSdMQ/working_dir/RtmpdTsJBl/R.INSTALL1ab20359a5acb2/reshape2/src'
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/Rcpp/include' -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c RcppExports.cpp -o RcppExports.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/Rcpp/include' -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c melt.cpp -o melt.o
clang++-22 -stdlib=libc++ -std=gnu++20 -shared -L/usr/local/clang/lib64 -L/usr/local/clang22/lib -L/usr/local/clang22/lib/x86_64-unknown-linux-gnu -L/usr/local/lib64 -o reshape2.so RcppExports.o melt.o
make[1]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/RtmpdTsJBl/R.INSTALL1ab20359a5acb2/reshape2/src'
make[1]: Entering directory '/tmp/RtmpokSdMQ/working_dir/RtmpdTsJBl/R.INSTALL1ab20359a5acb2/reshape2/src'
make[1]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/RtmpdTsJBl/R.INSTALL1ab20359a5acb2/reshape2/src'
installing to /tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/00LOCK-reshape2/00new/reshape2/libs
** R
** data
*** moving datasets to lazyload DB
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** testing if installed package can be loaded from temporary location
** checking absolute paths in shared objects and dynamic libraries
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (reshape2)
* installing *source* package ‘httpuv’ ...
** this is package ‘httpuv’ version ‘1.6.17’
** package ‘httpuv’ successfully unpacked and MD5 sums checked
** using staged installation
** Using libuv found by pkg-config in /usr
** PKG_CFLAGS=
** PKG_LIBS=-luv -lpthread -ldl -lrt -lm
** libs
using C compiler: ‘clang version 22.1.2 (https://github.com/llvm/llvm-project 1ab49a973e210e97d61e5db6557180dcb92c3e98)’
using C++ compiler: ‘clang version 22.1.2 (https://github.com/llvm/llvm-project 1ab49a973e210e97d61e5db6557180dcb92c3e98)’
make[1]: Entering directory '/tmp/RtmpokSdMQ/working_dir/Rtmp1Nypm8/R.INSTALL1ac1cc19659808/httpuv/src'
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -pthread -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/later/include' -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/Rcpp/include' -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -DSTRICT_R_HEADERS -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c RcppExports.cpp -o RcppExports.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -pthread -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/later/include' -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/Rcpp/include' -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -DSTRICT_R_HEADERS -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c callback.cpp -o callback.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -pthread -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/later/include' -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/Rcpp/include' -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -DSTRICT_R_HEADERS -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c callbackqueue.cpp -o callbackqueue.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -pthread -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/later/include' -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/Rcpp/include' -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -DSTRICT_R_HEADERS -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c filedatasource-unix.cpp -o filedatasource-unix.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -pthread -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/later/include' -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/Rcpp/include' -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -DSTRICT_R_HEADERS -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c filedatasource-win.cpp -o filedatasource-win.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -pthread -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/later/include' -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/Rcpp/include' -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -DSTRICT_R_HEADERS -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c fs.cpp -o fs.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -pthread -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/later/include' -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/Rcpp/include' -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -DSTRICT_R_HEADERS -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c gzipdatasource.cpp -o gzipdatasource.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -pthread -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/later/include' -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/Rcpp/include' -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -DSTRICT_R_HEADERS -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c http.cpp -o http.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -pthread -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/later/include' -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/Rcpp/include' -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -DSTRICT_R_HEADERS -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c httprequest.cpp -o httprequest.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -pthread -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/later/include' -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/Rcpp/include' -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -DSTRICT_R_HEADERS -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c httpresponse.cpp -o httpresponse.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -pthread -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/later/include' -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/Rcpp/include' -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -DSTRICT_R_HEADERS -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c httpuv.cpp -o httpuv.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -pthread -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/later/include' -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/Rcpp/include' -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -DSTRICT_R_HEADERS -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c md5.c -o md5.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -pthread -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/later/include' -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/Rcpp/include' -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -DSTRICT_R_HEADERS -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c mime.cpp -o mime.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -pthread -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/later/include' -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/Rcpp/include' -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -DSTRICT_R_HEADERS -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c socket.cpp -o socket.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -pthread -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/later/include' -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/Rcpp/include' -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -DSTRICT_R_HEADERS -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c staticpath.cpp -o staticpath.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -pthread -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/later/include' -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/Rcpp/include' -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -DSTRICT_R_HEADERS -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c thread.cpp -o thread.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -pthread -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/later/include' -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/Rcpp/include' -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -DSTRICT_R_HEADERS -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c timegm.cpp -o timegm.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -pthread -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/later/include' -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/Rcpp/include' -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -DSTRICT_R_HEADERS -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c utils.cpp -o utils.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -pthread -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/later/include' -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/Rcpp/include' -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -DSTRICT_R_HEADERS -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c uvutil.cpp -o uvutil.o
uvutil.cpp:104:19: warning: unused variable 'CRLF' [-Wunused-const-variable]
104 | const std::string CRLF = "\r\n";
| ^~~~
1 warning generated.
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -pthread -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/later/include' -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/Rcpp/include' -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -DSTRICT_R_HEADERS -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c webapplication.cpp -o webapplication.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -pthread -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/later/include' -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/Rcpp/include' -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -DSTRICT_R_HEADERS -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c websockets-base.cpp -o websockets-base.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -pthread -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/later/include' -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/Rcpp/include' -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -DSTRICT_R_HEADERS -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c websockets-hixie76.cpp -o websockets-hixie76.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -pthread -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/later/include' -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/Rcpp/include' -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -DSTRICT_R_HEADERS -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c websockets-hybi03.cpp -o websockets-hybi03.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -pthread -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/later/include' -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/Rcpp/include' -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -DSTRICT_R_HEADERS -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c websockets-ietf.cpp -o websockets-ietf.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -pthread -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/later/include' -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/Rcpp/include' -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -DSTRICT_R_HEADERS -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c websockets.cpp -o websockets.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -pthread -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/later/include' -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/Rcpp/include' -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -DSTRICT_R_HEADERS -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c winutils.cpp -o winutils.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -pthread -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/later/include' -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/Rcpp/include' -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -DSTRICT_R_HEADERS -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c http-parser/http_parser.c -o http-parser/http_parser.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -pthread -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/later/include' -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/Rcpp/include' -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -DSTRICT_R_HEADERS -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c sha1/sha1.c -o sha1/sha1.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -pthread -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/later/include' -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/Rcpp/include' -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -DSTRICT_R_HEADERS -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c base64/base64.cpp -o base64/base64.o
clang++-22 -stdlib=libc++ -std=gnu++20 -shared -L/usr/local/clang/lib64 -L/usr/local/clang22/lib -L/usr/local/clang22/lib/x86_64-unknown-linux-gnu -L/usr/local/lib64 -o httpuv.so RcppExports.o callback.o callbackqueue.o filedatasource-unix.o filedatasource-win.o fs.o gzipdatasource.o http.o httprequest.o httpresponse.o httpuv.o md5.o mime.o socket.o staticpath.o thread.o timegm.o utils.o uvutil.o webapplication.o websockets-base.o websockets-hixie76.o websockets-hybi03.o websockets-ietf.o websockets.o winutils.o -luv -lpthread -ldl -lrt -lm ./http-parser/http_parser.o ./sha1/sha1.o ./base64/base64.o -pthread
make[1]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/Rtmp1Nypm8/R.INSTALL1ac1cc19659808/httpuv/src'
make[1]: Entering directory '/tmp/RtmpokSdMQ/working_dir/Rtmp1Nypm8/R.INSTALL1ac1cc19659808/httpuv/src'
make[1]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/Rtmp1Nypm8/R.INSTALL1ac1cc19659808/httpuv/src'
installing to /tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/00LOCK-httpuv/00new/httpuv/libs
** R
** demo
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** testing if installed package can be loaded from temporary location
** 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 (httpuv)
* installing *source* package ‘credentials’ ...
** this is package ‘credentials’ version ‘2.0.3’
** package ‘credentials’ 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 (credentials)
* installing *source* package ‘httr2’ ...
** this is package ‘httr2’ version ‘1.2.2’
** package ‘httr2’ 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 (httr2)
* installing *source* package ‘bslib’ ...
** this is package ‘bslib’ version ‘0.10.0’
** package ‘bslib’ 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 (bslib)
* installing *source* package ‘downlit’ ...
** this is package ‘downlit’ version ‘0.4.5’
** package ‘downlit’ 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 (downlit)
* installing *source* package ‘ragg’ ...
** this is package ‘ragg’ version ‘1.5.2’
** package ‘ragg’ successfully unpacked and MD5 sums checked
** using staged installation
Found pkg-config cflags and libs!
Using PKG_CFLAGS=-I/usr/include/freetype2 -I/usr/include/harfbuzz -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-6 -pthread -I/usr/include/libpng16 -DWITH_GZFILEOP -I/usr/include/webp
Using PKG_LIBS=-lfreetype -lpng16 -ltiff -ljpeg -lwebp -lwebpmux
** libs
using C++ compiler: ‘clang version 22.1.2 (https://github.com/llvm/llvm-project 1ab49a973e210e97d61e5db6557180dcb92c3e98)’
make[1]: Entering directory '/tmp/RtmpokSdMQ/working_dir/Rtmp4aJLme/R.INSTALL1b45bc63b6352d/ragg/src'
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I./agg/include -I/usr/include/freetype2 -I/usr/include/harfbuzz -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-6 -pthread -I/usr/include/libpng16 -DWITH_GZFILEOP -I/usr/include/webp -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/systemfonts/include' -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/textshaping/include' -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c capture_dev.cpp -o capture_dev.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I./agg/include -I/usr/include/freetype2 -I/usr/include/harfbuzz -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-6 -pthread -I/usr/include/libpng16 -DWITH_GZFILEOP -I/usr/include/webp -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/systemfonts/include' -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/textshaping/include' -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c init.cpp -o init.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I./agg/include -I/usr/include/freetype2 -I/usr/include/harfbuzz -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-6 -pthread -I/usr/include/libpng16 -DWITH_GZFILEOP -I/usr/include/webp -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/systemfonts/include' -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/textshaping/include' -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c jpeg_dev.cpp -o jpeg_dev.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I./agg/include -I/usr/include/freetype2 -I/usr/include/harfbuzz -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-6 -pthread -I/usr/include/libpng16 -DWITH_GZFILEOP -I/usr/include/webp -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/systemfonts/include' -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/textshaping/include' -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c png_dev.cpp -o png_dev.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I./agg/include -I/usr/include/freetype2 -I/usr/include/harfbuzz -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-6 -pthread -I/usr/include/libpng16 -DWITH_GZFILEOP -I/usr/include/webp -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/systemfonts/include' -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/textshaping/include' -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c ppm_dev.cpp -o ppm_dev.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I./agg/include -I/usr/include/freetype2 -I/usr/include/harfbuzz -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-6 -pthread -I/usr/include/libpng16 -DWITH_GZFILEOP -I/usr/include/webp -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/systemfonts/include' -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/textshaping/include' -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c record_dev.cpp -o record_dev.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I./agg/include -I/usr/include/freetype2 -I/usr/include/harfbuzz -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-6 -pthread -I/usr/include/libpng16 -DWITH_GZFILEOP -I/usr/include/webp -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/systemfonts/include' -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/textshaping/include' -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c tiff_dev.cpp -o tiff_dev.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I./agg/include -I/usr/include/freetype2 -I/usr/include/harfbuzz -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-6 -pthread -I/usr/include/libpng16 -DWITH_GZFILEOP -I/usr/include/webp -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/systemfonts/include' -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/textshaping/include' -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c webp_anim_dev.cpp -o webp_anim_dev.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I./agg/include -I/usr/include/freetype2 -I/usr/include/harfbuzz -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-6 -pthread -I/usr/include/libpng16 -DWITH_GZFILEOP -I/usr/include/webp -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/systemfonts/include' -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/textshaping/include' -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c webp_dev.cpp -o webp_dev.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I./agg/include -I/usr/include/freetype2 -I/usr/include/harfbuzz -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-6 -pthread -I/usr/include/libpng16 -DWITH_GZFILEOP -I/usr/include/webp -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/systemfonts/include' -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/textshaping/include' -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c agg/src/agg_curves.cpp -o agg/src/agg_curves.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I./agg/include -I/usr/include/freetype2 -I/usr/include/harfbuzz -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-6 -pthread -I/usr/include/libpng16 -DWITH_GZFILEOP -I/usr/include/webp -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/systemfonts/include' -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/textshaping/include' -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c agg/src/agg_font_freetype.cpp -o agg/src/agg_font_freetype.o
agg/src/agg_font_freetype.cpp:116:18: warning: variable 'len' set but not used [-Wunused-but-set-variable]
116 | unsigned len = 0;
| ^
1 warning generated.
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I./agg/include -I/usr/include/freetype2 -I/usr/include/harfbuzz -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-6 -pthread -I/usr/include/libpng16 -DWITH_GZFILEOP -I/usr/include/webp -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/systemfonts/include' -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/textshaping/include' -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c agg/src/agg_image_filters.cpp -o agg/src/agg_image_filters.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I./agg/include -I/usr/include/freetype2 -I/usr/include/harfbuzz -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-6 -pthread -I/usr/include/libpng16 -DWITH_GZFILEOP -I/usr/include/webp -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/systemfonts/include' -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/textshaping/include' -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c agg/src/agg_trans_affine.cpp -o agg/src/agg_trans_affine.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I./agg/include -I/usr/include/freetype2 -I/usr/include/harfbuzz -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-6 -pthread -I/usr/include/libpng16 -DWITH_GZFILEOP -I/usr/include/webp -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/systemfonts/include' -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/textshaping/include' -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c agg/src/agg_vcgen_dash.cpp -o agg/src/agg_vcgen_dash.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I./agg/include -I/usr/include/freetype2 -I/usr/include/harfbuzz -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/sysprof-6 -pthread -I/usr/include/libpng16 -DWITH_GZFILEOP -I/usr/include/webp -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/systemfonts/include' -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/textshaping/include' -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c agg/src/agg_vcgen_stroke.cpp -o agg/src/agg_vcgen_stroke.o
ar rcs agg/libstatagg.a agg/src/agg_curves.o agg/src/agg_font_freetype.o agg/src/agg_image_filters.o agg/src/agg_trans_affine.o agg/src/agg_vcgen_dash.o agg/src/agg_vcgen_stroke.o
clang++-22 -stdlib=libc++ -std=gnu++20 -shared -L/usr/local/clang/lib64 -L/usr/local/clang22/lib -L/usr/local/clang22/lib/x86_64-unknown-linux-gnu -L/usr/local/lib64 -o ragg.so capture_dev.o init.o jpeg_dev.o png_dev.o ppm_dev.o record_dev.o tiff_dev.o webp_anim_dev.o webp_dev.o -Lagg -lstatagg -lfreetype -lpng16 -ltiff -ljpeg -lwebp -lwebpmux
make[1]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/Rtmp4aJLme/R.INSTALL1b45bc63b6352d/ragg/src'
make[1]: Entering directory '/tmp/RtmpokSdMQ/working_dir/Rtmp4aJLme/R.INSTALL1b45bc63b6352d/ragg/src'
make[1]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/Rtmp4aJLme/R.INSTALL1b45bc63b6352d/ragg/src'
installing to /tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/00LOCK-ragg/00new/ragg/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 (ragg)
* installing *source* package ‘pkgbuild’ ...
** this is package ‘pkgbuild’ version ‘1.4.8’
** package ‘pkgbuild’ 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 (pkgbuild)
* installing *source* package ‘shiny’ ...
** this is package ‘shiny’ version ‘1.13.0’
** package ‘shiny’ 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 (shiny)
* installing *source* package ‘rmarkdown’ ...
** this is package ‘rmarkdown’ version ‘2.31’
** package ‘rmarkdown’ 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 (rmarkdown)
* installing *source* package ‘gert’ ...
** this is package ‘gert’ version ‘2.3.1’
** package ‘gert’ successfully unpacked and MD5 sums checked
** using staged installation
Found pkg-config cflags and libs!
Using PKG_CFLAGS=-DWITH_GZFILEOP
Using PKG_LIBS=-lgit2
Configuration OK!
** libs
using C compiler: ‘clang version 22.1.2 (https://github.com/llvm/llvm-project 1ab49a973e210e97d61e5db6557180dcb92c3e98)’
make[1]: Entering directory '/tmp/RtmpokSdMQ/working_dir/RtmpKUdVhU/R.INSTALL1bd88b5d420b8e/gert/src'
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DWITH_GZFILEOP -DR_NO_REMAP -DSTRICT_R_HEADERS -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c branch.c -o branch.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DWITH_GZFILEOP -DR_NO_REMAP -DSTRICT_R_HEADERS -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c clone.c -o clone.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DWITH_GZFILEOP -DR_NO_REMAP -DSTRICT_R_HEADERS -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c commit.c -o commit.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DWITH_GZFILEOP -DR_NO_REMAP -DSTRICT_R_HEADERS -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c config.c -o config.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DWITH_GZFILEOP -DR_NO_REMAP -DSTRICT_R_HEADERS -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c conflicts.c -o conflicts.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DWITH_GZFILEOP -DR_NO_REMAP -DSTRICT_R_HEADERS -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c files.c -o files.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DWITH_GZFILEOP -DR_NO_REMAP -DSTRICT_R_HEADERS -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c ignore.c -o ignore.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DWITH_GZFILEOP -DR_NO_REMAP -DSTRICT_R_HEADERS -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c init.c -o init.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DWITH_GZFILEOP -DR_NO_REMAP -DSTRICT_R_HEADERS -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c merge.c -o merge.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DWITH_GZFILEOP -DR_NO_REMAP -DSTRICT_R_HEADERS -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c rebase.c -o rebase.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DWITH_GZFILEOP -DR_NO_REMAP -DSTRICT_R_HEADERS -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c stash.c -o stash.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DWITH_GZFILEOP -DR_NO_REMAP -DSTRICT_R_HEADERS -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c submodules.c -o submodules.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DWITH_GZFILEOP -DR_NO_REMAP -DSTRICT_R_HEADERS -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c tag.c -o tag.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DWITH_GZFILEOP -DR_NO_REMAP -DSTRICT_R_HEADERS -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c utils.c -o utils.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DWITH_GZFILEOP -DR_NO_REMAP -DSTRICT_R_HEADERS -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c version.c -o version.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -DWITH_GZFILEOP -DR_NO_REMAP -DSTRICT_R_HEADERS -isystem /usr/local/clang22/include -I/usr/local/clang/include -fvisibility=hidden -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c worktree.c -o worktree.o
clang-22 -std=gnu23 -shared -L/usr/local/clang/lib64 -L/usr/local/clang22/lib -L/usr/local/clang22/lib/x86_64-unknown-linux-gnu -L/usr/local/lib64 -o gert.so branch.o clone.o commit.o config.o conflicts.o files.o ignore.o init.o merge.o rebase.o stash.o submodules.o tag.o utils.o version.o worktree.o -lgit2
make[1]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/RtmpKUdVhU/R.INSTALL1bd88b5d420b8e/gert/src'
make[1]: Entering directory '/tmp/RtmpokSdMQ/working_dir/RtmpKUdVhU/R.INSTALL1bd88b5d420b8e/gert/src'
make[1]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/RtmpKUdVhU/R.INSTALL1bd88b5d420b8e/gert/src'
installing to /tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/00LOCK-gert/00new/gert/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 (gert)
* installing *source* package ‘gh’ ...
** this is package ‘gh’ version ‘1.5.0’
** package ‘gh’ 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 (gh)
* installing *source* package ‘pkgload’ ...
** this is package ‘pkgload’ version ‘1.5.0’
** package ‘pkgload’ 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 (pkgload)
* installing *source* package ‘rcmdcheck’ ...
** this is package ‘rcmdcheck’ version ‘1.4.0’
** package ‘rcmdcheck’ 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 (rcmdcheck)
* installing *source* package ‘htmlwidgets’ ...
** this is package ‘htmlwidgets’ version ‘1.6.4’
** package ‘htmlwidgets’ 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 (htmlwidgets)
* installing *source* package ‘miniUI’ ...
** this is package ‘miniUI’ version ‘0.1.2’
** package ‘miniUI’ 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 (miniUI)
* installing *source* package ‘pkgdown’ ...
** this is package ‘pkgdown’ version ‘2.2.0’
** package ‘pkgdown’ 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 (pkgdown)
* installing *source* package ‘roxygen2’ ...
** this is package ‘roxygen2’ version ‘7.3.3’
** package ‘roxygen2’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C++ compiler: ‘clang version 22.1.2 (https://github.com/llvm/llvm-project 1ab49a973e210e97d61e5db6557180dcb92c3e98)’
make[1]: Entering directory '/tmp/RtmpokSdMQ/working_dir/RtmpdqkT9u/R.INSTALL1c0192110dd889/roxygen2/src'
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/cpp11/include' -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c cpp11.cpp -o cpp11.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/cpp11/include' -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c escapeExamples.cpp -o escapeExamples.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/cpp11/include' -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c isComplete.cpp -o isComplete.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/cpp11/include' -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c leadingSpaces.cpp -o leadingSpaces.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/cpp11/include' -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c parser2.cpp -o parser2.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I'/tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/cpp11/include' -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c wrapUsage.cpp -o wrapUsage.o
clang++-22 -stdlib=libc++ -std=gnu++20 -shared -L/usr/local/clang/lib64 -L/usr/local/clang22/lib -L/usr/local/clang22/lib/x86_64-unknown-linux-gnu -L/usr/local/lib64 -o roxygen2.so cpp11.o escapeExamples.o isComplete.o leadingSpaces.o parser2.o wrapUsage.o
make[1]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/RtmpdqkT9u/R.INSTALL1c0192110dd889/roxygen2/src'
make[1]: Entering directory '/tmp/RtmpokSdMQ/working_dir/RtmpdqkT9u/R.INSTALL1c0192110dd889/roxygen2/src'
make[1]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/RtmpdqkT9u/R.INSTALL1c0192110dd889/roxygen2/src'
installing to /tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/00LOCK-roxygen2/00new/roxygen2/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 (roxygen2)
* installing *source* package ‘testthat’ ...
** this is package ‘testthat’ version ‘3.3.2’
** package ‘testthat’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C compiler: ‘clang version 22.1.2 (https://github.com/llvm/llvm-project 1ab49a973e210e97d61e5db6557180dcb92c3e98)’
using C++ compiler: ‘clang version 22.1.2 (https://github.com/llvm/llvm-project 1ab49a973e210e97d61e5db6557180dcb92c3e98)’
make[1]: Entering directory '/tmp/RtmpokSdMQ/working_dir/RtmpW26Ew3/R.INSTALL1c1a983bda7a75/testthat/src'
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../inst/include -DCOMPILING_TESTTHAT -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c init.c -o init.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../inst/include -DCOMPILING_TESTTHAT -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c test-catch.cpp -o test-catch.o
test-catch.cpp:16:1: warning: '__COUNTER__' is a C2y extension [-Wc2y-extensions]
16 | context("Catch: Example Unit Test") {
| ^
../inst/include/testthat/testthat.h:180:25: note: expanded from macro 'context'
180 | # define context(__X__) CATCH_TEST_CASE(__X__ " | " __FILE__)
| ^
../inst/include/testthat/vendor/catch.h:11403:36: note: expanded from macro 'CATCH_TEST_CASE'
11403 | #define CATCH_TEST_CASE( ... ) INTERNAL_CATCH_TESTCASE( __VA_ARGS__ )
| ^
../inst/include/testthat/vendor/catch.h:787:35: note: expanded from macro 'INTERNAL_CATCH_TESTCASE'
787 | INTERNAL_CATCH_TESTCASE2( INTERNAL_CATCH_UNIQUE_NAME( ____C_A_T_C_H____T_E_S_T____ ), __VA_ARGS__ )
| ^
../inst/include/testthat/vendor/catch.h:369:85: note: expanded from macro 'INTERNAL_CATCH_UNIQUE_NAME'
369 | # define INTERNAL_CATCH_UNIQUE_NAME( name ) INTERNAL_CATCH_UNIQUE_NAME_LINE( name, __COUNTER__ )
| ^
test-catch.cpp:16:1: warning: '__COUNTER__' is a C2y extension [-Wc2y-extensions]
../inst/include/testthat/testthat.h:180:25: note: expanded from macro 'context'
180 | # define context(__X__) CATCH_TEST_CASE(__X__ " | " __FILE__)
| ^
../inst/include/testthat/vendor/catch.h:11403:36: note: expanded from macro 'CATCH_TEST_CASE'
11403 | #define CATCH_TEST_CASE( ... ) INTERNAL_CATCH_TESTCASE( __VA_ARGS__ )
| ^
../inst/include/testthat/vendor/catch.h:787:9: note: expanded from macro 'INTERNAL_CATCH_TESTCASE'
787 | INTERNAL_CATCH_TESTCASE2( INTERNAL_CATCH_UNIQUE_NAME( ____C_A_T_C_H____T_E_S_T____ ), __VA_ARGS__ )
| ^
../inst/include/testthat/vendor/catch.h:783:35: note: expanded from macro 'INTERNAL_CATCH_TESTCASE2'
783 | namespace{ Catch::AutoReg INTERNAL_CATCH_UNIQUE_NAME( autoRegistrar )( &TestName, CATCH_INTERNAL_LINEINFO, Catch::NameAndDesc( __VA_ARGS__ ) ); } \
| ^
../inst/include/testthat/vendor/catch.h:369:85: note: expanded from macro 'INTERNAL_CATCH_UNIQUE_NAME'
369 | # define INTERNAL_CATCH_UNIQUE_NAME( name ) INTERNAL_CATCH_UNIQUE_NAME_LINE( name, __COUNTER__ )
| ^
test-catch.cpp:18:3: warning: '__COUNTER__' is a C2y extension [-Wc2y-extensions]
18 | test_that("4 + 4 == 8") {
| ^
../inst/include/testthat/testthat.h:181:20: note: expanded from macro 'test_that'
181 | # define test_that CATCH_SECTION
| ^
../inst/include/testthat/vendor/catch.h:11407:34: note: expanded from macro 'CATCH_SECTION'
11407 | #define CATCH_SECTION( ... ) INTERNAL_CATCH_SECTION( __VA_ARGS__ )
| ^
../inst/include/testthat/vendor/catch.h:2479:35: note: expanded from macro 'INTERNAL_CATCH_SECTION'
2479 | if( Catch::Section const& INTERNAL_CATCH_UNIQUE_NAME( catch_internal_Section ) = Catch::SectionInfo( CATCH_INTERNAL_LINEINFO, __VA_ARGS__ ) )
| ^
../inst/include/testthat/vendor/catch.h:369:85: note: expanded from macro 'INTERNAL_CATCH_UNIQUE_NAME'
369 | # define INTERNAL_CATCH_UNIQUE_NAME( name ) INTERNAL_CATCH_UNIQUE_NAME_LINE( name, __COUNTER__ )
| ^
test-catch.cpp:23:1: warning: '__COUNTER__' is a C2y extension [-Wc2y-extensions]
23 | context("Catch: A second context") {
| ^
../inst/include/testthat/testthat.h:180:25: note: expanded from macro 'context'
180 | # define context(__X__) CATCH_TEST_CASE(__X__ " | " __FILE__)
| ^
../inst/include/testthat/vendor/catch.h:11403:36: note: expanded from macro 'CATCH_TEST_CASE'
11403 | #define CATCH_TEST_CASE( ... ) INTERNAL_CATCH_TESTCASE( __VA_ARGS__ )
| ^
../inst/include/testthat/vendor/catch.h:787:35: note: expanded from macro 'INTERNAL_CATCH_TESTCASE'
787 | INTERNAL_CATCH_TESTCASE2( INTERNAL_CATCH_UNIQUE_NAME( ____C_A_T_C_H____T_E_S_T____ ), __VA_ARGS__ )
| ^
../inst/include/testthat/vendor/catch.h:369:85: note: expanded from macro 'INTERNAL_CATCH_UNIQUE_NAME'
369 | # define INTERNAL_CATCH_UNIQUE_NAME( name ) INTERNAL_CATCH_UNIQUE_NAME_LINE( name, __COUNTER__ )
| ^
test-catch.cpp:23:1: warning: '__COUNTER__' is a C2y extension [-Wc2y-extensions]
../inst/include/testthat/testthat.h:180:25: note: expanded from macro 'context'
180 | # define context(__X__) CATCH_TEST_CASE(__X__ " | " __FILE__)
| ^
../inst/include/testthat/vendor/catch.h:11403:36: note: expanded from macro 'CATCH_TEST_CASE'
11403 | #define CATCH_TEST_CASE( ... ) INTERNAL_CATCH_TESTCASE( __VA_ARGS__ )
| ^
../inst/include/testthat/vendor/catch.h:787:9: note: expanded from macro 'INTERNAL_CATCH_TESTCASE'
787 | INTERNAL_CATCH_TESTCASE2( INTERNAL_CATCH_UNIQUE_NAME( ____C_A_T_C_H____T_E_S_T____ ), __VA_ARGS__ )
| ^
../inst/include/testthat/vendor/catch.h:783:35: note: expanded from macro 'INTERNAL_CATCH_TESTCASE2'
783 | namespace{ Catch::AutoReg INTERNAL_CATCH_UNIQUE_NAME( autoRegistrar )( &TestName, CATCH_INTERNAL_LINEINFO, Catch::NameAndDesc( __VA_ARGS__ ) ); } \
| ^
../inst/include/testthat/vendor/catch.h:369:85: note: expanded from macro 'INTERNAL_CATCH_UNIQUE_NAME'
369 | # define INTERNAL_CATCH_UNIQUE_NAME( name ) INTERNAL_CATCH_UNIQUE_NAME_LINE( name, __COUNTER__ )
| ^
test-catch.cpp:25:3: warning: '__COUNTER__' is a C2y extension [-Wc2y-extensions]
25 | test_that("2 - 2 == 0") {
| ^
../inst/include/testthat/testthat.h:181:20: note: expanded from macro 'test_that'
181 | # define test_that CATCH_SECTION
| ^
../inst/include/testthat/vendor/catch.h:11407:34: note: expanded from macro 'CATCH_SECTION'
11407 | #define CATCH_SECTION( ... ) INTERNAL_CATCH_SECTION( __VA_ARGS__ )
| ^
../inst/include/testthat/vendor/catch.h:2479:35: note: expanded from macro 'INTERNAL_CATCH_SECTION'
2479 | if( Catch::Section const& INTERNAL_CATCH_UNIQUE_NAME( catch_internal_Section ) = Catch::SectionInfo( CATCH_INTERNAL_LINEINFO, __VA_ARGS__ ) )
| ^
../inst/include/testthat/vendor/catch.h:369:85: note: expanded from macro 'INTERNAL_CATCH_UNIQUE_NAME'
369 | # define INTERNAL_CATCH_UNIQUE_NAME( name ) INTERNAL_CATCH_UNIQUE_NAME_LINE( name, __COUNTER__ )
| ^
test-catch.cpp:29:3: warning: '__COUNTER__' is a C2y extension [-Wc2y-extensions]
29 | test_that("-1 is negative") {
| ^
../inst/include/testthat/testthat.h:181:20: note: expanded from macro 'test_that'
181 | # define test_that CATCH_SECTION
| ^
../inst/include/testthat/vendor/catch.h:11407:34: note: expanded from macro 'CATCH_SECTION'
11407 | #define CATCH_SECTION( ... ) INTERNAL_CATCH_SECTION( __VA_ARGS__ )
| ^
../inst/include/testthat/vendor/catch.h:2479:35: note: expanded from macro 'INTERNAL_CATCH_SECTION'
2479 | if( Catch::Section const& INTERNAL_CATCH_UNIQUE_NAME( catch_internal_Section ) = Catch::SectionInfo( CATCH_INTERNAL_LINEINFO, __VA_ARGS__ ) )
| ^
../inst/include/testthat/vendor/catch.h:369:85: note: expanded from macro 'INTERNAL_CATCH_UNIQUE_NAME'
369 | # define INTERNAL_CATCH_UNIQUE_NAME( name ) INTERNAL_CATCH_UNIQUE_NAME_LINE( name, __COUNTER__ )
| ^
test-catch.cpp:35:1: warning: '__COUNTER__' is a C2y extension [-Wc2y-extensions]
35 | context("Catch: Respect 'src/Makevars'") {
| ^
../inst/include/testthat/testthat.h:180:25: note: expanded from macro 'context'
180 | # define context(__X__) CATCH_TEST_CASE(__X__ " | " __FILE__)
| ^
../inst/include/testthat/vendor/catch.h:11403:36: note: expanded from macro 'CATCH_TEST_CASE'
11403 | #define CATCH_TEST_CASE( ... ) INTERNAL_CATCH_TESTCASE( __VA_ARGS__ )
| ^
../inst/include/testthat/vendor/catch.h:787:35: note: expanded from macro 'INTERNAL_CATCH_TESTCASE'
787 | INTERNAL_CATCH_TESTCASE2( INTERNAL_CATCH_UNIQUE_NAME( ____C_A_T_C_H____T_E_S_T____ ), __VA_ARGS__ )
| ^
../inst/include/testthat/vendor/catch.h:369:85: note: expanded from macro 'INTERNAL_CATCH_UNIQUE_NAME'
369 | # define INTERNAL_CATCH_UNIQUE_NAME( name ) INTERNAL_CATCH_UNIQUE_NAME_LINE( name, __COUNTER__ )
| ^
test-catch.cpp:35:1: warning: '__COUNTER__' is a C2y extension [-Wc2y-extensions]
../inst/include/testthat/testthat.h:180:25: note: expanded from macro 'context'
180 | # define context(__X__) CATCH_TEST_CASE(__X__ " | " __FILE__)
| ^
../inst/include/testthat/vendor/catch.h:11403:36: note: expanded from macro 'CATCH_TEST_CASE'
11403 | #define CATCH_TEST_CASE( ... ) INTERNAL_CATCH_TESTCASE( __VA_ARGS__ )
| ^
../inst/include/testthat/vendor/catch.h:787:9: note: expanded from macro 'INTERNAL_CATCH_TESTCASE'
787 | INTERNAL_CATCH_TESTCASE2( INTERNAL_CATCH_UNIQUE_NAME( ____C_A_T_C_H____T_E_S_T____ ), __VA_ARGS__ )
| ^
../inst/include/testthat/vendor/catch.h:783:35: note: expanded from macro 'INTERNAL_CATCH_TESTCASE2'
783 | namespace{ Catch::AutoReg INTERNAL_CATCH_UNIQUE_NAME( autoRegistrar )( &TestName, CATCH_INTERNAL_LINEINFO, Catch::NameAndDesc( __VA_ARGS__ ) ); } \
| ^
../inst/include/testthat/vendor/catch.h:369:85: note: expanded from macro 'INTERNAL_CATCH_UNIQUE_NAME'
369 | # define INTERNAL_CATCH_UNIQUE_NAME( name ) INTERNAL_CATCH_UNIQUE_NAME_LINE( name, __COUNTER__ )
| ^
test-catch.cpp:45:3: warning: '__COUNTER__' is a C2y extension [-Wc2y-extensions]
45 | test_that("COMPILING_TESTTHAT is inherited from 'src/Makevars'") {
| ^
../inst/include/testthat/testthat.h:181:20: note: expanded from macro 'test_that'
181 | # define test_that CATCH_SECTION
| ^
../inst/include/testthat/vendor/catch.h:11407:34: note: expanded from macro 'CATCH_SECTION'
11407 | #define CATCH_SECTION( ... ) INTERNAL_CATCH_SECTION( __VA_ARGS__ )
| ^
../inst/include/testthat/vendor/catch.h:2479:35: note: expanded from macro 'INTERNAL_CATCH_SECTION'
2479 | if( Catch::Section const& INTERNAL_CATCH_UNIQUE_NAME( catch_internal_Section ) = Catch::SectionInfo( CATCH_INTERNAL_LINEINFO, __VA_ARGS__ ) )
| ^
../inst/include/testthat/vendor/catch.h:369:85: note: expanded from macro 'INTERNAL_CATCH_UNIQUE_NAME'
369 | # define INTERNAL_CATCH_UNIQUE_NAME( name ) INTERNAL_CATCH_UNIQUE_NAME_LINE( name, __COUNTER__ )
| ^
test-catch.cpp:51:1: warning: '__COUNTER__' is a C2y extension [-Wc2y-extensions]
51 | context("Catch: Exception handling") {
| ^
../inst/include/testthat/testthat.h:180:25: note: expanded from macro 'context'
180 | # define context(__X__) CATCH_TEST_CASE(__X__ " | " __FILE__)
| ^
../inst/include/testthat/vendor/catch.h:11403:36: note: expanded from macro 'CATCH_TEST_CASE'
11403 | #define CATCH_TEST_CASE( ... ) INTERNAL_CATCH_TESTCASE( __VA_ARGS__ )
| ^
../inst/include/testthat/vendor/catch.h:787:35: note: expanded from macro 'INTERNAL_CATCH_TESTCASE'
787 | INTERNAL_CATCH_TESTCASE2( INTERNAL_CATCH_UNIQUE_NAME( ____C_A_T_C_H____T_E_S_T____ ), __VA_ARGS__ )
| ^
../inst/include/testthat/vendor/catch.h:369:85: note: expanded from macro 'INTERNAL_CATCH_UNIQUE_NAME'
369 | # define INTERNAL_CATCH_UNIQUE_NAME( name ) INTERNAL_CATCH_UNIQUE_NAME_LINE( name, __COUNTER__ )
| ^
test-catch.cpp:51:1: warning: '__COUNTER__' is a C2y extension [-Wc2y-extensions]
../inst/include/testthat/testthat.h:180:25: note: expanded from macro 'context'
180 | # define context(__X__) CATCH_TEST_CASE(__X__ " | " __FILE__)
| ^
../inst/include/testthat/vendor/catch.h:11403:36: note: expanded from macro 'CATCH_TEST_CASE'
11403 | #define CATCH_TEST_CASE( ... ) INTERNAL_CATCH_TESTCASE( __VA_ARGS__ )
| ^
../inst/include/testthat/vendor/catch.h:787:9: note: expanded from macro 'INTERNAL_CATCH_TESTCASE'
787 | INTERNAL_CATCH_TESTCASE2( INTERNAL_CATCH_UNIQUE_NAME( ____C_A_T_C_H____T_E_S_T____ ), __VA_ARGS__ )
| ^
../inst/include/testthat/vendor/catch.h:783:35: note: expanded from macro 'INTERNAL_CATCH_TESTCASE2'
783 | namespace{ Catch::AutoReg INTERNAL_CATCH_UNIQUE_NAME( autoRegistrar )( &TestName, CATCH_INTERNAL_LINEINFO, Catch::NameAndDesc( __VA_ARGS__ ) ); } \
| ^
../inst/include/testthat/vendor/catch.h:369:85: note: expanded from macro 'INTERNAL_CATCH_UNIQUE_NAME'
369 | # define INTERNAL_CATCH_UNIQUE_NAME( name ) INTERNAL_CATCH_UNIQUE_NAME_LINE( name, __COUNTER__ )
| ^
test-catch.cpp:53:3: warning: '__COUNTER__' is a C2y extension [-Wc2y-extensions]
53 | test_that("we can use Catch to test for exceptions") {
| ^
../inst/include/testthat/testthat.h:181:20: note: expanded from macro 'test_that'
181 | # define test_that CATCH_SECTION
| ^
../inst/include/testthat/vendor/catch.h:11407:34: note: expanded from macro 'CATCH_SECTION'
11407 | #define CATCH_SECTION( ... ) INTERNAL_CATCH_SECTION( __VA_ARGS__ )
| ^
../inst/include/testthat/vendor/catch.h:2479:35: note: expanded from macro 'INTERNAL_CATCH_SECTION'
2479 | if( Catch::Section const& INTERNAL_CATCH_UNIQUE_NAME( catch_internal_Section ) = Catch::SectionInfo( CATCH_INTERNAL_LINEINFO, __VA_ARGS__ ) )
| ^
../inst/include/testthat/vendor/catch.h:369:85: note: expanded from macro 'INTERNAL_CATCH_UNIQUE_NAME'
369 | # define INTERNAL_CATCH_UNIQUE_NAME( name ) INTERNAL_CATCH_UNIQUE_NAME_LINE( name, __COUNTER__ )
| ^
13 warnings generated.
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../inst/include -DCOMPILING_TESTTHAT -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c test-example.cpp -o test-example.o
clang++-22 -stdlib=libc++ -std=gnu++20 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -I../inst/include -DCOMPILING_TESTTHAT -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -Wno-missing-template-arg-list-after-template-kw -c test-runner.cpp -o test-runner.o
test-example.cpp:25:1: warning: '__COUNTER__' is a C2y extension [-Wc2y-extensions]
25 | context("Sample unit tests") {
| ^
../inst/include/testthat/testthat.h:180:25: note: expanded from macro 'context'
180 | # define context(__X__) CATCH_TEST_CASE(__X__ " | " __FILE__)
| ^
../inst/include/testthat/vendor/catch.h:11403:36: note: expanded from macro 'CATCH_TEST_CASE'
11403 | #define CATCH_TEST_CASE( ... ) INTERNAL_CATCH_TESTCASE( __VA_ARGS__ )
| ^
../inst/include/testthat/vendor/catch.h:787:35: note: expanded from macro 'INTERNAL_CATCH_TESTCASE'
787 | INTERNAL_CATCH_TESTCASE2( INTERNAL_CATCH_UNIQUE_NAME( ____C_A_T_C_H____T_E_S_T____ ), __VA_ARGS__ )
| ^
../inst/include/testthat/vendor/catch.h:369:85: note: expanded from macro 'INTERNAL_CATCH_UNIQUE_NAME'
369 | # define INTERNAL_CATCH_UNIQUE_NAME( name ) INTERNAL_CATCH_UNIQUE_NAME_LINE( name, __COUNTER__ )
| ^
test-example.cpp:25:1: warning: '__COUNTER__' is a C2y extension [-Wc2y-extensions]
../inst/include/testthat/testthat.h:180:25: note: expanded from macro 'context'
180 | # define context(__X__) CATCH_TEST_CASE(__X__ " | " __FILE__)
| ^
../inst/include/testthat/vendor/catch.h:11403:36: note: expanded from macro 'CATCH_TEST_CASE'
11403 | #define CATCH_TEST_CASE( ... ) INTERNAL_CATCH_TESTCASE( __VA_ARGS__ )
| ^
../inst/include/testthat/vendor/catch.h:787:9: note: expanded from macro 'INTERNAL_CATCH_TESTCASE'
787 | INTERNAL_CATCH_TESTCASE2( INTERNAL_CATCH_UNIQUE_NAME( ____C_A_T_C_H____T_E_S_T____ ), __VA_ARGS__ )
| ^
../inst/include/testthat/vendor/catch.h:783:35: note: expanded from macro 'INTERNAL_CATCH_TESTCASE2'
783 | namespace{ Catch::AutoReg INTERNAL_CATCH_UNIQUE_NAME( autoRegistrar )( &TestName, CATCH_INTERNAL_LINEINFO, Catch::NameAndDesc( __VA_ARGS__ ) ); } \
| ^
../inst/include/testthat/vendor/catch.h:369:85: note: expanded from macro 'INTERNAL_CATCH_UNIQUE_NAME'
369 | # define INTERNAL_CATCH_UNIQUE_NAME( name ) INTERNAL_CATCH_UNIQUE_NAME_LINE( name, __COUNTER__ )
| ^
test-example.cpp:31:3: warning: '__COUNTER__' is a C2y extension [-Wc2y-extensions]
31 | test_that("two plus two equals four") {
| ^
../inst/include/testthat/testthat.h:181:20: note: expanded from macro 'test_that'
181 | # define test_that CATCH_SECTION
| ^
../inst/include/testthat/vendor/catch.h:11407:34: note: expanded from macro 'CATCH_SECTION'
11407 | #define CATCH_SECTION( ... ) INTERNAL_CATCH_SECTION( __VA_ARGS__ )
| ^
../inst/include/testthat/vendor/catch.h:2479:35: note: expanded from macro 'INTERNAL_CATCH_SECTION'
2479 | if( Catch::Section const& INTERNAL_CATCH_UNIQUE_NAME( catch_internal_Section ) = Catch::SectionInfo( CATCH_INTERNAL_LINEINFO, __VA_ARGS__ ) )
| ^
../inst/include/testthat/vendor/catch.h:369:85: note: expanded from macro 'INTERNAL_CATCH_UNIQUE_NAME'
369 | # define INTERNAL_CATCH_UNIQUE_NAME( name ) INTERNAL_CATCH_UNIQUE_NAME_LINE( name, __COUNTER__ )
| ^
3 warnings generated.
clang++-22 -stdlib=libc++ -std=gnu++20 -shared -L/usr/local/clang/lib64 -L/usr/local/clang22/lib -L/usr/local/clang22/lib/x86_64-unknown-linux-gnu -L/usr/local/lib64 -o testthat.so init.o test-catch.o test-example.o test-runner.o
make[1]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/RtmpW26Ew3/R.INSTALL1c1a983bda7a75/testthat/src'
make[1]: Entering directory '/tmp/RtmpokSdMQ/working_dir/RtmpW26Ew3/R.INSTALL1c1a983bda7a75/testthat/src'
make[1]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/RtmpW26Ew3/R.INSTALL1c1a983bda7a75/testthat/src'
installing to /tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/00LOCK-testthat/00new/testthat/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 (testthat)
* installing *source* package ‘usethis’ ...
** this is package ‘usethis’ version ‘3.2.1’
** package ‘usethis’ 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 (usethis)
* installing *source* package ‘profvis’ ...
** this is package ‘profvis’ version ‘0.4.0’
** package ‘profvis’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C compiler: ‘clang version 22.1.2 (https://github.com/llvm/llvm-project 1ab49a973e210e97d61e5db6557180dcb92c3e98)’
make[1]: Entering directory '/tmp/RtmpokSdMQ/working_dir/Rtmp02cHrH/R.INSTALL1c5a34b709c05/profvis/src'
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c pause.c -o pause.o
clang-22 -std=gnu23 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang22/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c profvis-init.c -o profvis-init.o
clang-22 -std=gnu23 -shared -L/usr/local/clang/lib64 -L/usr/local/clang22/lib -L/usr/local/clang22/lib/x86_64-unknown-linux-gnu -L/usr/local/lib64 -o profvis.so pause.o profvis-init.o
make[1]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/Rtmp02cHrH/R.INSTALL1c5a34b709c05/profvis/src'
make[1]: Entering directory '/tmp/RtmpokSdMQ/working_dir/Rtmp02cHrH/R.INSTALL1c5a34b709c05/profvis/src'
make[1]: Leaving directory '/tmp/RtmpokSdMQ/working_dir/Rtmp02cHrH/R.INSTALL1c5a34b709c05/profvis/src'
installing to /tmp/RtmpokSdMQ/working_dir/RtmpCFp3yO/RLIBS_16928a6b20a82e/00LOCK-profvis/00new/profvis/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 (profvis)
* installing *source* package ‘devtools’ ...
** this is package ‘devtools’ version ‘2.5.0’
** package ‘devtools’ 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 (devtools)
** 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 (LABTNSCPSS)