* installing *source* package ‘glmnet’ ...
** package ‘glmnet’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C compiler: ‘gcc-13 (GCC) 13.2.0’
using Fortran compiler: ‘GNU Fortran (GCC) 13.2.0’
using C++ compiler: ‘g++-13 (GCC) 13.2.0’
using C++17
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-devel/glmnet/src'
g++-13 -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-dev/RcppEigen/include' -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I/usr/local/include   -Iglmnetpp/include -Iglmnetpp/src -Iglmnetpp/test -DEIGEN_PERMANENTLY_DISABLE_STUPID_WARNINGS -fpic  -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection   -c RcppExports.cpp -o RcppExports.o
gfortran-13  -fpic  -g -O2 -mtune=native -Wall -pedantic  -c coxnet5dpclean.f -o coxnet5dpclean.o
g++-13 -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-dev/RcppEigen/include' -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I/usr/local/include   -Iglmnetpp/include -Iglmnetpp/src -Iglmnetpp/test -DEIGEN_PERMANENTLY_DISABLE_STUPID_WARNINGS -fpic  -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection   -c elnet_exp.cpp -o elnet_exp.o
g++-13 -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-dev/RcppEigen/include' -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I/usr/local/include   -Iglmnetpp/include -Iglmnetpp/src -Iglmnetpp/test -DEIGEN_PERMANENTLY_DISABLE_STUPID_WARNINGS -fpic  -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection   -c glmnet_init.cpp -o glmnet_init.o
g++-13 -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-dev/RcppEigen/include' -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I/usr/local/include   -Iglmnetpp/include -Iglmnetpp/src -Iglmnetpp/test -DEIGEN_PERMANENTLY_DISABLE_STUPID_WARNINGS -fpic  -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection   -c internal.cpp -o internal.o
gcc-13 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-dev/RcppEigen/include' -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I/usr/local/include    -fpic  -g -O2 -Wall -pedantic -mtune=native -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -Werror=implicit-function-declaration -Wstrict-prototypes  -c pb.c -o pb.o
g++-13 -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-dev/RcppEigen/include' -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I/usr/local/include   -Iglmnetpp/include -Iglmnetpp/src -Iglmnetpp/test -DEIGEN_PERMANENTLY_DISABLE_STUPID_WARNINGS -fpic  -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection   -c pb_exp.cpp -o pb_exp.o
g++-13 -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-dev/RcppEigen/include' -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I/usr/local/include   -Iglmnetpp/include -Iglmnetpp/src -Iglmnetpp/test -DEIGEN_PERMANENTLY_DISABLE_STUPID_WARNINGS -fpic  -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection   -c wls_exp.cpp -o wls_exp.o
g++-13 -std=gnu++17 -shared -L/usr/local/gcc13/lib64 -L/usr/local/lib64 -L/usr/local/clang18/lib/x86_64-unknown-linux-gnu -o glmnet.so RcppExports.o coxnet5dpclean.o elnet_exp.o glmnet_init.o internal.o pb.o pb_exp.o wls_exp.o -lgfortran -lm -lquadmath
make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-devel/glmnet/src'
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-devel/glmnet/src'
make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-devel/glmnet/src'
installing to /data/gannet/ripley/R/packages/tests-devel/glmnet.Rcheck/00LOCK-glmnet/00new/glmnet/libs
** R
** data
** 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 (glmnet)