* installing *source* package ‘rxylib’ ...
** package ‘rxylib’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C++ compiler: ‘clang version 19.1.3’
using C++17
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-clang/rxylib/src'
/usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include   -I../inst/include/ -I../inst/include/xylib/ -DDISABLE_STDERR_WARNINGS  -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3  -DR_NO_REMAP -c read_data.cpp -o read_data.o
/usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include   -I../inst/include/ -I../inst/include/xylib/ -DDISABLE_STDERR_WARNINGS  -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3  -DR_NO_REMAP -c get_supportedFormats.cpp -o get_supportedFormats.o
/usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include   -I../inst/include/ -I../inst/include/xylib/ -DDISABLE_STDERR_WARNINGS  -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3  -DR_NO_REMAP -c get_version.cpp -o get_version.o
/usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include   -I../inst/include/ -I../inst/include/xylib/ -DDISABLE_STDERR_WARNINGS  -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3  -DR_NO_REMAP -c get_meta_DataSet.cpp -o get_meta_DataSet.o
/usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include   -I../inst/include/ -I../inst/include/xylib/ -DDISABLE_STDERR_WARNINGS  -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3  -DR_NO_REMAP -c get_block_names.cpp -o get_block_names.o
/usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include   -I../inst/include/ -I../inst/include/xylib/ -DDISABLE_STDERR_WARNINGS  -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3  -DR_NO_REMAP -c RcppExports.cpp -o RcppExports.o
/usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include   -I../inst/include/ -I../inst/include/xylib/ -DDISABLE_STDERR_WARNINGS  -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3  -DR_NO_REMAP -c xylib/bruker_raw.cpp -o xylib/bruker_raw.o
/usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include   -I../inst/include/ -I../inst/include/xylib/ -DDISABLE_STDERR_WARNINGS  -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3  -DR_NO_REMAP -c xylib/bruker_spc.cpp -o xylib/bruker_spc.o
/usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include   -I../inst/include/ -I../inst/include/xylib/ -DDISABLE_STDERR_WARNINGS  -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3  -DR_NO_REMAP -c xylib/cache.cpp -o xylib/cache.o
/usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include   -I../inst/include/ -I../inst/include/xylib/ -DDISABLE_STDERR_WARNINGS  -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3  -DR_NO_REMAP -c xylib/canberra_cnf.cpp -o xylib/canberra_cnf.o
/usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include   -I../inst/include/ -I../inst/include/xylib/ -DDISABLE_STDERR_WARNINGS  -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3  -DR_NO_REMAP -c xylib/canberra_mca.cpp -o xylib/canberra_mca.o
/usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include   -I../inst/include/ -I../inst/include/xylib/ -DDISABLE_STDERR_WARNINGS  -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3  -DR_NO_REMAP -c xylib/chiplot.cpp -o xylib/chiplot.o
/usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include   -I../inst/include/ -I../inst/include/xylib/ -DDISABLE_STDERR_WARNINGS  -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3  -DR_NO_REMAP -c xylib/cpi.cpp -o xylib/cpi.o
/usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include   -I../inst/include/ -I../inst/include/xylib/ -DDISABLE_STDERR_WARNINGS  -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3  -DR_NO_REMAP -c xylib/csv.cpp -o xylib/csv.o
/usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include   -I../inst/include/ -I../inst/include/xylib/ -DDISABLE_STDERR_WARNINGS  -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3  -DR_NO_REMAP -c xylib/dbws.cpp -o xylib/dbws.o
/usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include   -I../inst/include/ -I../inst/include/xylib/ -DDISABLE_STDERR_WARNINGS  -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3  -DR_NO_REMAP -c xylib/pdcif.cpp -o xylib/pdcif.o
/usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include   -I../inst/include/ -I../inst/include/xylib/ -DDISABLE_STDERR_WARNINGS  -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3  -DR_NO_REMAP -c xylib/philips_raw.cpp -o xylib/philips_raw.o
/usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include   -I../inst/include/ -I../inst/include/xylib/ -DDISABLE_STDERR_WARNINGS  -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3  -DR_NO_REMAP -c xylib/philips_udf.cpp -o xylib/philips_udf.o
/usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include   -I../inst/include/ -I../inst/include/xylib/ -DDISABLE_STDERR_WARNINGS  -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3  -DR_NO_REMAP -c xylib/riet7.cpp -o xylib/riet7.o
/usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include   -I../inst/include/ -I../inst/include/xylib/ -DDISABLE_STDERR_WARNINGS  -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3  -DR_NO_REMAP -c xylib/rigaku_dat.cpp -o xylib/rigaku_dat.o
/usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include   -I../inst/include/ -I../inst/include/xylib/ -DDISABLE_STDERR_WARNINGS  -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3  -DR_NO_REMAP -c xylib/specsxy.cpp -o xylib/specsxy.o
/usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include   -I../inst/include/ -I../inst/include/xylib/ -DDISABLE_STDERR_WARNINGS  -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3  -DR_NO_REMAP -c xylib/spectra.cpp -o xylib/spectra.o
/usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include   -I../inst/include/ -I../inst/include/xylib/ -DDISABLE_STDERR_WARNINGS  -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3  -DR_NO_REMAP -c xylib/text.cpp -o xylib/text.o
/usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include   -I../inst/include/ -I../inst/include/xylib/ -DDISABLE_STDERR_WARNINGS  -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3  -DR_NO_REMAP -c xylib/util.cpp -o xylib/util.o
/usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include   -I../inst/include/ -I../inst/include/xylib/ -DDISABLE_STDERR_WARNINGS  -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3  -DR_NO_REMAP -c xylib/uxd.cpp -o xylib/uxd.o
/usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include   -I../inst/include/ -I../inst/include/xylib/ -DDISABLE_STDERR_WARNINGS  -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3  -DR_NO_REMAP -c xylib/vamas.cpp -o xylib/vamas.o
/usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include   -I../inst/include/ -I../inst/include/xylib/ -DDISABLE_STDERR_WARNINGS  -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3  -DR_NO_REMAP -c xylib/winspec_spe.cpp -o xylib/winspec_spe.o
/usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include   -I../inst/include/ -I../inst/include/xylib/ -DDISABLE_STDERR_WARNINGS  -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3  -DR_NO_REMAP -c xylib/xfit_xdd.cpp -o xylib/xfit_xdd.o
/usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include   -I../inst/include/ -I../inst/include/xylib/ -DDISABLE_STDERR_WARNINGS  -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3  -DR_NO_REMAP -c xylib/xrdml.cpp -o xylib/xrdml.o
/usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include   -I../inst/include/ -I../inst/include/xylib/ -DDISABLE_STDERR_WARNINGS  -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3  -DR_NO_REMAP -c xylib/xsyg.cpp -o xylib/xsyg.o
/usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++17 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -I'/data/gannet/ripley/R/test-clang/BH/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include   -I../inst/include/ -I../inst/include/xylib/ -DDISABLE_STDERR_WARNINGS  -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3  -DR_NO_REMAP -c xylib/xylib.cpp -o xylib/xylib.o
/usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++17 -shared -L/usr/local/clang/lib64 -L/usr/local/clang19/lib -L/usr/local/clang19/lib/x86_64-unknown-linux-gnu -L/usr/local/gcc14/lib64 -L/usr/local/lib64 -o rxylib.so read_data.o get_supportedFormats.o get_version.o get_meta_DataSet.o get_block_names.o RcppExports.o ./xylib/bruker_raw.o ./xylib/bruker_spc.o ./xylib/cache.o ./xylib/canberra_cnf.o ./xylib/canberra_mca.o ./xylib/chiplot.o ./xylib/cpi.o ./xylib/csv.o ./xylib/dbws.o ./xylib/pdcif.o ./xylib/philips_raw.o ./xylib/philips_udf.o ./xylib/riet7.o ./xylib/rigaku_dat.o ./xylib/specsxy.o ./xylib/spectra.o ./xylib/text.o ./xylib/util.o ./xylib/uxd.o ./xylib/vamas.o ./xylib/winspec_spe.o ./xylib/xfit_xdd.o ./xylib/xrdml.o ./xylib/xsyg.o ./xylib/xylib.o
make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-clang/rxylib/src'
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-clang/rxylib/src'
make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-clang/rxylib/src'
installing to /data/gannet/ripley/R/packages/tests-clang/rxylib.Rcheck/00LOCK-rxylib/00new/rxylib/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 (rxylib)