Install log for 'sleev'

* installing *source* package ‘sleev’ ...
** this is package ‘sleev’ version ‘1.2.0’
** package ‘sleev’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C++ compiler: ‘g++ (GCC) 15.2.1 20260123 (Red Hat 15.2.1-7)’
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-devel/sleev/src'
g++ -std=gnu++20 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-dev/RcppEigen/include' -I/usr/local/include   -fopenmp -DARMA_64BIT_WORD=1 -DEIGEN_PERMANENTLY_DISABLE_STUPID_WARNINGS -DNDEBUG -DARMA_NO_DEBUG -DEIGEN_NO_DEBUG -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++20 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-dev/RcppEigen/include' -I/usr/local/include   -fopenmp -DARMA_64BIT_WORD=1 -DEIGEN_PERMANENTLY_DISABLE_STUPID_WARNINGS -DNDEBUG -DARMA_NO_DEBUG -DEIGEN_NO_DEBUG -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 cv_linear2ph.cpp -o cv_linear2ph.o
g++ -std=gnu++20 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-dev/RcppEigen/include' -I/usr/local/include   -fopenmp -DARMA_64BIT_WORD=1 -DEIGEN_PERMANENTLY_DISABLE_STUPID_WARNINGS -DNDEBUG -DARMA_NO_DEBUG -DEIGEN_NO_DEBUG -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 linear2ph.cpp -o linear2ph.o
g++ -std=gnu++20 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-dev/RcppEigen/include' -I/usr/local/include   -fopenmp -DARMA_64BIT_WORD=1 -DEIGEN_PERMANENTLY_DISABLE_STUPID_WARNINGS -DNDEBUG -DARMA_NO_DEBUG -DEIGEN_NO_DEBUG -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 logistic2ph.cpp -o logistic2ph.o
g++ -std=gnu++20 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-dev/RcppEigen/include' -I/usr/local/include   -fopenmp -DARMA_64BIT_WORD=1 -DEIGEN_PERMANENTLY_DISABLE_STUPID_WARNINGS -DNDEBUG -DARMA_NO_DEBUG -DEIGEN_NO_DEBUG -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 logistic2ph_em_loop.cpp -o logistic2ph_em_loop.o
g++ -std=gnu++20 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-dev/RcppEigen/include' -I/usr/local/include   -fopenmp -DARMA_64BIT_WORD=1 -DEIGEN_PERMANENTLY_DISABLE_STUPID_WARNINGS -DNDEBUG -DARMA_NO_DEBUG -DEIGEN_NO_DEBUG -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 observed_data_loglik.cpp -o observed_data_loglik.o
g++ -std=gnu++20 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-dev/RcppEigen/include' -I/usr/local/include   -fopenmp -DARMA_64BIT_WORD=1 -DEIGEN_PERMANENTLY_DISABLE_STUPID_WARNINGS -DNDEBUG -DARMA_NO_DEBUG -DEIGEN_NO_DEBUG -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 profile_out_em.cpp -o profile_out_em.o
g++ -std=gnu++20 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG  -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-dev/RcppEigen/include' -I/usr/local/include   -fopenmp -DARMA_64BIT_WORD=1 -DEIGEN_PERMANENTLY_DISABLE_STUPID_WARNINGS -DNDEBUG -DARMA_NO_DEBUG -DEIGEN_NO_DEBUG -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 utility.cpp -o utility.o
profile_out_em.cpp: In function ‘Rcpp::List profile_out_em(const arma::mat&, const arma::vec&, const arma::mat&, int, const arma::mat&, const arma::vec&, int, const arma::mat&, const arma::uvec&, const arma::mat&, int, int, int, bool, double, int, bool)’:
profile_out_em.cpp:88:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
   88 |     for (int i = 0; i < bspline_data.n_rows; ++i)
      |                     ~~^~~~~~~~~~~~~~~~~~~~~
profile_out_em.cpp:238:25: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
  238 |       for (int i = 0; i < comp_dat_all.n_rows; ++i)
      |                       ~~^~~~~~~~~~~~~~~~~~~~~
profile_out_em.cpp:256:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
  256 |         for (int i = 0; i < new_gamma.n_elem; ++i)
      |                         ~~^~~~~~~~~~~~~~~~~~
profile_out_em.cpp:291:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
  291 |     for (int i = 0; i < u_t.n_rows; ++i)
      |                     ~~^~~~~~~~~~~~
profile_out_em.cpp:294:25: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
  294 |       for (int j = 0; j < u_t.n_cols; ++j)
      |                       ~~^~~~~~~~~~~~
profile_out_em.cpp:306:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare]
  306 |     for (int j = 0; j < new_p.n_cols; ++j)
      |                     ~~^~~~~~~~~~~~~~
g++ -std=gnu++20 -shared -L/usr/local/lib64 -o sleev.so RcppExports.o cv_linear2ph.o linear2ph.o logistic2ph.o logistic2ph_em_loop.o observed_data_loglik.o profile_out_em.o utility.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/sleev/src'
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-devel/sleev/src'
make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-devel/sleev/src'
installing to /data/gannet/ripley/R/packages/tests-devel/sleev.Rcheck/00LOCK-sleev/00new/sleev/libs
** R
** data
*** moving datasets to lazyload DB
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** 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 (sleev)