Install log for 'xbioclim'

* installing *source* package ‘xbioclim’ ...
** this is package ‘xbioclim’ version ‘1.0.3’
** package ‘xbioclim’ successfully unpacked and MD5 sums checked
** using staged installation
checking for gdal-config... /usr/sbin/gdal-config
checking GDAL version >= 2.0.1... yes (3.12.4)
checking whether GDAL links correctly... checking whether the C++ compiler works... yes
checking for C++ compiler default output file name... a.out
checking for suffix of executables... 
checking whether we are cross compiling... no
checking for suffix of object files... o
checking whether the compiler supports GNU C++... yes
checking whether g++ -std=gnu++20 accepts -g... yes
checking for g++ -std=gnu++20 option to enable C++11 features... -std=gnu++11
yes
checking for nvcc... not-found
configure: Building without CUDA support (GPU acceleration disabled)
configure: creating ./config.status
config.status: creating src/Makevars
** libs
specified C++17
using C++ compiler: ‘g++ (GCC) 16.2.1 20260819 (Red Hat 16.2.1-2)’
using C++17
make[1]: Entering directory '/data/localhost/ripley/R/packages/tests-devel/xbioclim/src'
g++ -std=gnu++17 -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -I/usr/include/gdal -DHAVE_GDAL  -I'/data/localhost/ripley/R/test-dev/Rcpp/include' -I/usr/local/include   -fopenmp -pthread -O2 -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 bioclim.cpp -o bioclim.o
g++ -std=gnu++17 -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -I/usr/include/gdal -DHAVE_GDAL  -I'/data/localhost/ripley/R/test-dev/Rcpp/include' -I/usr/local/include   -fopenmp -pthread -O2 -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 bioclim_cuda.cpp -o bioclim_cuda.o
g++ -std=gnu++17 -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -I/usr/include/gdal -DHAVE_GDAL  -I'/data/localhost/ripley/R/test-dev/Rcpp/include' -I/usr/local/include   -fopenmp -pthread -O2 -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 bioclim_model.cpp -o bioclim_model.o
g++ -std=gnu++17 -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -I/usr/include/gdal -DHAVE_GDAL  -I'/data/localhost/ripley/R/test-dev/Rcpp/include' -I/usr/local/include   -fopenmp -pthread -O2 -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 bioclim_xt.cpp -o bioclim_xt.o
bioclim_xt.cpp: In function ‘Rcpp::NumericMatrix bioclim_xt(Rcpp::NumericMatrix, Rcpp::NumericMatrix, Rcpp::NumericMatrix, Rcpp::NumericMatrix, int)’:
bioclim_xt.cpp:170:25: warning: variable ‘t_sumsq’ set but not used [-Wunused-but-set-variable=]
  170 |     double t_sum = 0.0, t_sumsq = 0.0;
      |                         ^~~~~~~
g++ -std=gnu++17 -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -I/usr/include/gdal -DHAVE_GDAL  -I'/data/localhost/ripley/R/test-dev/Rcpp/include' -I/usr/local/include   -fopenmp -pthread -O2 -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 BioclimEngine.cpp -o BioclimEngine.o
g++ -std=gnu++17 -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -I/usr/include/gdal -DHAVE_GDAL  -I'/data/localhost/ripley/R/test-dev/Rcpp/include' -I/usr/local/include   -fopenmp -pthread -O2 -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 cuda_utils.cpp -o cuda_utils.o
g++ -std=gnu++17 -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -I/usr/include/gdal -DHAVE_GDAL  -I'/data/localhost/ripley/R/test-dev/Rcpp/include' -I/usr/local/include   -fopenmp -pthread -O2 -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 era5_monthly.cpp -o era5_monthly.o
g++ -std=gnu++17 -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -I/usr/include/gdal -DHAVE_GDAL  -I'/data/localhost/ripley/R/test-dev/Rcpp/include' -I/usr/local/include   -fopenmp -pthread -O2 -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 gdal_io.cpp -o gdal_io.o
BioclimEngine.cpp: In member function ‘std::string xbioclim::BioclimEngine::compute_pipelined()’:
BioclimEngine.cpp:992:10: warning: unused variable ‘use_gpu’ [-Wunused-variable]
  992 |     bool use_gpu = false;
      |          ^~~~~~~
g++ -std=gnu++17 -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -I/usr/include/gdal -DHAVE_GDAL  -I'/data/localhost/ripley/R/test-dev/Rcpp/include' -I/usr/local/include   -fopenmp -pthread -O2 -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 gdal_io_rcpp.cpp -o gdal_io_rcpp.o
g++ -std=gnu++17 -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -I/usr/include/gdal -DHAVE_GDAL  -I'/data/localhost/ripley/R/test-dev/Rcpp/include' -I/usr/local/include   -fopenmp -pthread -O2 -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 gdal_mask.cpp -o gdal_mask.o
g++ -std=gnu++17 -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -I/usr/include/gdal -DHAVE_GDAL  -I'/data/localhost/ripley/R/test-dev/Rcpp/include' -I/usr/local/include   -fopenmp -pthread -O2 -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 gdal_mask_rcpp.cpp -o gdal_mask_rcpp.o
g++ -std=gnu++17 -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -I/usr/include/gdal -DHAVE_GDAL  -I'/data/localhost/ripley/R/test-dev/Rcpp/include' -I/usr/local/include   -fopenmp -pthread -O2 -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 rcpp_bioclim_mod.cpp -o rcpp_bioclim_mod.o
g++ -std=gnu++17 -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -I/usr/include/gdal -DHAVE_GDAL  -I'/data/localhost/ripley/R/test-dev/Rcpp/include' -I/usr/local/include   -fopenmp -pthread -O2 -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
g++ -std=gnu++17 -shared -L/usr/local/lib64 -o xbioclim.so bioclim.o bioclim_cuda.o bioclim_model.o bioclim_xt.o BioclimEngine.o cuda_utils.o era5_monthly.o gdal_io.o gdal_io_rcpp.o gdal_mask.o gdal_mask_rcpp.o rcpp_bioclim_mod.o RcppExports.o -L/usr/lib64 -lgdal -fopenmp -pthread
make[1]: Leaving directory '/data/localhost/ripley/R/packages/tests-devel/xbioclim/src'
make[1]: Entering directory '/data/localhost/ripley/R/packages/tests-devel/xbioclim/src'
make[1]: Leaving directory '/data/localhost/ripley/R/packages/tests-devel/xbioclim/src'
installing to /data/localhost/ripley/R/packages/tests-devel/xbioclim.Rcheck/00LOCK-xbioclim/00new/xbioclim/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 (xbioclim)