Install log for 'GPTCM'

* installing *source* package ‘GPTCM’ ...
** this is package ‘GPTCM’ version ‘1.1.2’
** package ‘GPTCM’ successfully unpacked and MD5 sums checked
** using staged installation
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++17 accepts -g... yes
checking for g++ -std=gnu++17 option to enable C++11 features... none needed
checking whether CXX supports -std=c++17... yes
checking for g++ -std=gnu++17 option to support OpenMP... -fopenmp
checking whether OpenMP will actually work in a package... yes
configure: creating ./config.status
config.status: creating src/Makevars
** libs
using C compiler: ‘gcc (GCC) 15.1.1 20250521 (Red Hat 15.1.1-2)’
using C++ compiler: ‘g++ (GCC) 15.1.1 20250521 (Red Hat 15.1.1-2)’
using C++17
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-devel/GPTCM/src'
g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I../inst/include -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include   -fopenmp -DARMA_USE_CURRENT -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 BVS.cpp -o BVS.o
g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I../inst/include -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include   -fopenmp -DARMA_USE_CURRENT -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 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I../inst/include -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include   -fopenmp -DARMA_USE_CURRENT -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 arms.cpp -o arms.o
g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I../inst/include -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include   -fopenmp -DARMA_USE_CURRENT -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 arms_gibbs.cpp -o arms_gibbs.o
g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I../inst/include -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include   -fopenmp -DARMA_USE_CURRENT -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 drive.cpp -o drive.o
g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I../inst/include -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include   -fopenmp -DARMA_USE_CURRENT -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 eval_func.cpp -o eval_func.o
arms_gibbs.cpp: In static member function ‘static void ARMS_Gibbs::arms_gibbs_xi(armsParmClass, arma::vec&, double, double, arma::mat, arma::mat, const DataClass&)’:
arms_gibbs.cpp:47:36: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘const int’ [-Wsign-compare]
   47 |         for (unsigned int i = 0; i < armsPar.ninit; ++i)
      |                                  ~~^~~~~~~~~~~~~~~
arms_gibbs.cpp: In static member function ‘static void ARMS_Gibbs::arms_gibbs_beta(armsParmClass, arma::mat&, arma::vec&, double&, double, double, double, double, arma::umat, double, arma::vec&, arma::mat, arma::mat&, arma::mat, const DataClass&, double&)’:
arms_gibbs.cpp:221:36: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘const int’ [-Wsign-compare]
  221 |         for (unsigned int i = 0; i < armsPar.ninit; ++i)
      |                                  ~~^~~~~~~~~~~~~~~
arms_gibbs.cpp: In static member function ‘static void ARMS_Gibbs::arms_gibbs_betaK(unsigned int, armsParmClass, arma::mat&, double, double, double, double, arma::umat, double, arma::vec&, arma::mat, arma::mat&, arma::mat, const DataClass&, double&)’:
arms_gibbs.cpp:393:36: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘const int’ [-Wsign-compare]
  393 |         for (unsigned int i = 0; i < armsPar.ninit; ++i)
      |                                  ~~^~~~~~~~~~~~~~~
arms_gibbs.cpp: In static member function ‘static void ARMS_Gibbs::arms_gibbs_zeta(armsParmClass, arma::mat&, double&, arma::vec&, double, double, double, double, arma::umat, double, bool, arma::vec&, arma::mat, arma::mat, const DataClass&, double&)’:
arms_gibbs.cpp:535:36: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘const int’ [-Wsign-compare]
  535 |         for (unsigned int i = 0; i < armsPar.ninit; ++i)
      |                                  ~~^~~~~~~~~~~~~~~
arms_gibbs.cpp: In static member function ‘static void ARMS_Gibbs::arms_gibbs_zetaK(unsigned int, armsParmClass, arma::mat&, double, double, double, double, arma::umat, double, bool, arma::vec&, arma::mat, arma::mat, const DataClass&, double&)’:
arms_gibbs.cpp:691:36: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘const int’ [-Wsign-compare]
  691 |         for (unsigned int i = 0; i < armsPar.ninit; ++i)
      |                                  ~~^~~~~~~~~~~~~~~
arms_gibbs.cpp: In static member function ‘static void ARMS_Gibbs::arms_kappa(armsParmClass, double&, double, double, bool, arma::vec, arma::mat, arma::mat, const DataClass&)’:
arms_gibbs.cpp:807:36: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘const int’ [-Wsign-compare]
  807 |         for (unsigned int i = 0; i < armsPar.ninit; ++i)
      |                                  ~~^~~~~~~~~~~~~~~
gcc -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I../inst/include -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/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 init.c -o init.o
g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I../inst/include -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include   -fopenmp -DARMA_USE_CURRENT -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 simple_gibbs.cpp -o simple_gibbs.o
g++ -std=gnu++17 -shared -L/usr/local/lib64 -o GPTCM.so BVS.o RcppExports.o arms.o arms_gibbs.o drive.o eval_func.o init.o simple_gibbs.o -fopenmp -llapack -L/data/gannet/ripley/R/R-devel/lib -lRblas -lgfortran -lm -lquadmath
make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-devel/GPTCM/src'
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-devel/GPTCM/src'
make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-devel/GPTCM/src'
installing to /data/gannet/ripley/R/packages/tests-devel/GPTCM.Rcheck/00LOCK-GPTCM/00new/GPTCM/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 (GPTCM)