Install log for 'IsoSpecR'

* installing *source* package ‘IsoSpecR’ ...
** package ‘IsoSpecR’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C compiler: ‘clang version 19.1.3’
using C++ compiler: ‘clang version 19.1.3’
using C++14
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-clang/IsoSpecR/src'
/usr/local/clang19/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include    -fpic  -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3  -c IsoSpecR_init.c -o IsoSpecR_init.o
/usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++14 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include    -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3   -c RcppExports.cpp -o RcppExports.o
/usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++14 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include    -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3   -c Rinterface.cpp -o Rinterface.o
/usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++14 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include    -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3   -c allocator.cpp -o allocator.o
/usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++14 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include    -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3   -c cwrapper.cpp -o cwrapper.o
/usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++14 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include    -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3   -c dirtyAllocator.cpp -o dirtyAllocator.o
/usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++14 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include    -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3   -c element_tables.cpp -o element_tables.o
/usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++14 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include    -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3   -c fasta.cpp -o fasta.o
/usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++14 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include    -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3   -c fixedEnvelopes.cpp -o fixedEnvelopes.o
/usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++14 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include    -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3   -c isoMath.cpp -o isoMath.o
/usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++14 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include    -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3   -c isoSpec++.cpp -o isoSpec++.o
/usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++14 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include    -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3   -c marginalTrek++.cpp -o marginalTrek++.o
/usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++14 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include    -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3   -c misc.cpp -o misc.o
/usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++14 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include    -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3   -c mman.cpp -o mman.o
/usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++14 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include    -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3   -c operators.cpp -o operators.o
/usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++14 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-clang/Rcpp/include' -isystem /usr/local/clang19/include -I/usr/local/clang/include    -fpic  -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3   -c unity-build.cpp -o unity-build.o
/usr/local/clang19/bin/clang++ -stdlib=libc++ -std=gnu++14 -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 IsoSpecR.so IsoSpecR_init.o RcppExports.o Rinterface.o allocator.o cwrapper.o dirtyAllocator.o element_tables.o fasta.o fixedEnvelopes.o isoMath.o isoSpec++.o marginalTrek++.o misc.o mman.o operators.o unity-build.o
make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-clang/IsoSpecR/src'
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-clang/IsoSpecR/src'
make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-clang/IsoSpecR/src'
installing to /data/gannet/ripley/R/packages/tests-clang/IsoSpecR.Rcheck/00LOCK-IsoSpecR/00new/IsoSpecR/libs
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** testing if installed package can be loaded from temporary location
** 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 (IsoSpecR)