* installing *source* package ‘vcpen’ ...
** package ‘vcpen’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C++ compiler: ‘g++-13 (GCC) 13.2.0’
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-devel/vcpen/src'
g++-13 -std=gnu++17 -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/usr/local/include -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++-13 -std=gnu++17 -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/usr/local/include -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 minque_Rcpp.cpp -o minque_Rcpp.o
minque_Rcpp.cpp: In function 'Rcpp::List minque_Rcpp(arma::vec&, arma::mat&, const Rcpp::List&, arma::vec)':
minque_Rcpp.cpp:12:7: warning: unused variable 'n_beta' [-Wunused-variable]
12 | int n_beta = X.n_cols;
| ^~~~~~
g++-13 -std=gnu++17 -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/usr/local/include -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 vcpen.cpp -o vcpen.o
vcpen.cpp: In function 'Rcpp::List vcpen_Rcpp(arma::vec&, arma::mat&, const Rcpp::List&, arma::vec, arma::vec, double, arma::vec, int, bool)':
vcpen.cpp:116:20: warning: comparison of integer expressions of different signedness: 'int' and 'arma::uword' {aka 'unsigned int'} [-Wsign-compare]
116 | for(int i = 0; i < sigma2.size(); i ++){
| ~~^~~~~~~~~~~~~~~
vcpen.cpp:178:22: warning: comparison of integer expressions of different signedness: 'int' and 'arma::uword' {aka 'unsigned int'} [-Wsign-compare]
178 | for(int i = 0; i < sigma2.size(); i ++){
| ~~^~~~~~~~~~~~~~~
vcpen.cpp:187:24: warning: comparison of integer expressions of different signedness: 'int' and 'arma::uword' {aka 'unsigned int'} [-Wsign-compare]
187 | for(int i = 0; i < sigma2.size(); i++){
| ~~^~~~~~~~~~~~~~~
vcpen.cpp:303:26: warning: comparison of integer expressions of different signedness: 'int' and 'arma::uword' {aka 'unsigned int'} [-Wsign-compare]
303 | for(int i = 0; i < sigma2.size(); i++){
| ~~^~~~~~~~~~~~~~~
vcpen.cpp:154:10: warning: unused variable 'quad' [-Wunused-variable]
154 | double quad = 0.0;
| ^~~~
vcpen.cpp: In function 'arma::vec sqrt_vec(arma::vec)':
vcpen.cpp:370:19: warning: comparison of integer expressions of different signedness: 'int' and 'arma::uword' {aka 'unsigned int'} [-Wsign-compare]
370 | for(int i =0; i < x2.size(); i++){
| ~~^~~~~~~~~~~
vcpen.cpp: In function 'double min_root(double, double, double, int, const Rcpp::List&, arma::vec, arma::mat, double, double, arma::vec)':
vcpen.cpp:412:20: warning: comparison of integer expressions of different signedness: 'int' and 'arma::uword' {aka 'unsigned int'} [-Wsign-compare]
412 | for(int i = 0; i < roots.size();i++){
| ~~^~~~~~~~~~~~~~
vcpen.cpp: In function 'arma::vec real_polyroots2(arma::vec)':
vcpen.cpp:481:22: warning: comparison of integer expressions of different signedness: 'int' and 'arma::uword' {aka 'unsigned int'} [-Wsign-compare]
481 | for(int i = 0; i < roots.size(); i++){
| ~~^~~~~~~~~~~~~~
vcpen.cpp: In function 'double SolveP5_1(double, double, double, double, double)':
vcpen.cpp:851:21: warning: 'dx' may be used uninitialized [-Wmaybe-uninitialized]
851 | } while(fabs(dx)> ceps);
| ~~~~^~~~
vcpen.cpp:816:16: note: 'dx' was declared here
816 | double dx;
| ^~
vcpen.cpp: In function 'Rcpp::List vcpen_Rcpp(arma::vec&, arma::mat&, const Rcpp::List&, arma::vec, arma::vec, double, arma::vec, int, bool)':
vcpen.cpp:320:50: warning: 'logllasso_final' may be used uninitialized [-Wmaybe-uninitialized]
320 | logllasso_grid(index_grid) = logllasso_final * double(n_subj);
| ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~
vcpen.cpp:104:10: note: 'logllasso_final' was declared here
104 | double logllasso_final;
| ^~~~~~~~~~~~~~~
vcpen.cpp:319:40: warning: 'logl_final' may be used uninitialized [-Wmaybe-uninitialized]
319 | logl_grid(index_grid) = logl_final * double(n_subj);
| ~~~~~~~~~~~^~~~~~~~~~~~~~~~
vcpen.cpp:105:10: note: 'logl_final' was declared here
105 | double logl_final;
| ^~~~~~~~~~
vcpen.cpp:318:27: warning: 'iter_final' may be used uninitialized [-Wmaybe-uninitialized]
318 | iter_grid(index_grid) = iter_final;
| ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
vcpen.cpp:106:7: note: 'iter_final' was declared here
106 | int iter_final;
| ^~~~~~~~~~
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 vcpen.so RcppExports.o minque_Rcpp.o vcpen.o -llapack -L/data/gannet/ripley/R/R-devel/lib -lRblas -lgfortran -lm -lquadmath
make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-devel/vcpen/src'
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-devel/vcpen/src'
make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-devel/vcpen/src'
installing to /data/gannet/ripley/R/packages/tests-devel/vcpen.Rcheck/00LOCK-vcpen/00new/vcpen/libs
** R
** data
** 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 (vcpen)