* installing *source* package ‘lvmcomp’ ...
** package ‘lvmcomp’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C compiler: ‘gcc-13 (GCC) 13.2.0’
using C++ compiler: ‘g++-13 (GCC) 13.2.0’
using C++11
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-devel/lvmcomp/src'
g++-13 -std=gnu++11 -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 -fopenmp -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++11 -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 -fopenmp -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 calcu_sigma_cmle.cpp -o calcu_sigma_cmle.o
g++-13 -std=gnu++11 -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 -fopenmp -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 depend_funcs.cpp -o depend_funcs.o
depend_funcs.cpp: In function 'double deriv_based_ARS(arma::vec, arma::vec, int, arma::vec, arma::mat, arma::mat, arma::vec)':
depend_funcs.cpp:93:18: warning: comparison of integer expressions of different signedness: 'int' and 'const arma::uword' {aka 'const unsigned int'} [-Wsign-compare]
93 | for(int ii=0;ii<z.n_elem;++ii){
| ~~^~~~~~~~~
depend_funcs.cpp:113:22: warning: comparison of integer expressions of different signedness: 'int' and 'unsigned int' [-Wsign-compare]
113 | for(int ii=1;ii<areas.n_elem-1;++ii){
| ~~^~~~~~~~~~~~~~~
depend_funcs.cpp:176:22: warning: comparison of integer expressions of different signedness: 'int' and 'const arma::uword' {aka 'const unsigned int'} [-Wsign-compare]
176 | for(int ii=0;ii<z.n_elem;++ii){
| ~~^~~~~~~~~
depend_funcs.cpp: In function 'arma::vec F_prime_theta_y_eta_cpp_partial_credit1(arma::vec, arma::vec, int, arma::vec, arma::mat, arma::mat, arma::mat)':
depend_funcs.cpp:194:18: warning: comparison of integer expressions of different signedness: 'int' and 'const arma::uword' {aka 'const unsigned int'} [-Wsign-compare]
194 | for(int ii=0;ii<x.n_elem;++ii){
| ~~^~~~~~~~~
depend_funcs.cpp: In function 'arma::vec F_theta_y_eta_cpp_partial_credit1(arma::vec, arma::vec, int, arma::vec, arma::mat, arma::mat, arma::mat)':
depend_funcs.cpp:226:18: warning: comparison of integer expressions of different signedness: 'int' and 'const arma::uword' {aka 'const unsigned int'} [-Wsign-compare]
226 | for(int ii=0;ii<x.n_elem;++ii){
| ~~^~~~~~~~~
depend_funcs.cpp: In function 'double deriv_based_ARS_partial_credit(arma::vec, arma::vec, int, arma::vec, arma::mat, arma::mat, arma::mat)':
depend_funcs.cpp:296:18: warning: comparison of integer expressions of different signedness: 'int' and 'const arma::uword' {aka 'const unsigned int'} [-Wsign-compare]
296 | for(int ii=0;ii<z.n_elem;++ii){
| ~~^~~~~~~~~
depend_funcs.cpp:327:22: warning: comparison of integer expressions of different signedness: 'int' and 'unsigned int' [-Wsign-compare]
327 | for(int ii=1;ii<areas.n_elem-1;++ii){
| ~~^~~~~~~~~~~~~~~
depend_funcs.cpp:363:22: warning: comparison of integer expressions of different signedness: 'int' and 'const arma::uword' {aka 'const unsigned int'} [-Wsign-compare]
363 | for(int ii=0;ii<initial_x.n_elem;++ii){
| ~~^~~~~~~~~~~~~~~~~
depend_funcs.cpp:367:22: warning: comparison of integer expressions of different signedness: 'int' and 'const arma::uword' {aka 'const unsigned int'} [-Wsign-compare]
367 | for(int ii=0;ii<x.n_elem;++ii){
| ~~^~~~~~~~~
depend_funcs.cpp:371:22: warning: comparison of integer expressions of different signedness: 'int' and 'const arma::uword' {aka 'const unsigned int'} [-Wsign-compare]
371 | for(int ii=0;ii<log_fn.n_elem;++ii){
| ~~^~~~~~~~~~~~~~
depend_funcs.cpp:375:22: warning: comparison of integer expressions of different signedness: 'int' and 'const arma::uword' {aka 'const unsigned int'} [-Wsign-compare]
375 | for(int ii=0;ii<s_a.n_elem;++ii){
| ~~^~~~~~~~~~~
depend_funcs.cpp:379:22: warning: comparison of integer expressions of different signedness: 'int' and 'const arma::uword' {aka 'const unsigned int'} [-Wsign-compare]
379 | for(int ii=0;ii<z.n_elem;++ii){
| ~~^~~~~~~~~
depend_funcs.cpp:383:22: warning: comparison of integer expressions of different signedness: 'int' and 'const arma::uword' {aka 'const unsigned int'} [-Wsign-compare]
383 | for(int ii=0;ii<areas.n_elem;++ii){
| ~~^~~~~~~~~~~~~
depend_funcs.cpp:437:22: warning: comparison of integer expressions of different signedness: 'int' and 'const arma::uword' {aka 'const unsigned int'} [-Wsign-compare]
437 | for(int ii=0;ii<z.n_elem;++ii){
| ~~^~~~~~~~~
gcc-13 -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 -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -Werror=implicit-function-declaration -Wstrict-prototypes -c lbfgs.c -o lbfgs.o
g++-13 -std=gnu++11 -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 -fopenmp -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 my_Logistic.cpp -o my_Logistic.o
g++-13 -std=gnu++11 -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 -fopenmp -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 stem_mirt.cpp -o stem_mirt.o
my_Logistic.cpp: In function 'arma::vec my_Logistic_cpp(arma::mat, arma::vec, arma::vec, double)':
my_Logistic.cpp:150:10: warning: variable 'ret' set but not used [-Wunused-but-set-variable]
150 | double ret = 0;
| ^~~
my_Logistic.cpp: In function 'arma::vec my_Logistic_cpp_partial(arma::mat, arma::vec, arma::vec, arma::vec)':
my_Logistic.cpp:197:10: warning: variable 'ret' set but not used [-Wunused-but-set-variable]
197 | double ret = 0;
| ^~~
g++-13 -std=gnu++11 -shared -L/usr/local/gcc13/lib64 -L/usr/local/lib64 -L/usr/local/clang18/lib/x86_64-unknown-linux-gnu -o lvmcomp.so RcppExports.o calcu_sigma_cmle.o depend_funcs.o lbfgs.o my_Logistic.o stem_mirt.o -llapack -L/data/gannet/ripley/R/R-devel/lib -lRblas -lgfortran -lm -lquadmath -fopenmp
make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-devel/lvmcomp/src'
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-devel/lvmcomp/src'
make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-devel/lvmcomp/src'
installing to /data/gannet/ripley/R/packages/tests-devel/lvmcomp.Rcheck/00LOCK-lvmcomp/00new/lvmcomp/libs
** R
** data
*** moving datasets to lazyload DB
** 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 (lvmcomp)