* installing *source* package ‘lvmcomp’ ...
** this is package ‘lvmcomp’ version ‘1.2’
** package ‘lvmcomp’ successfully unpacked and MD5 sums checked
** using staged installation
** 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++11
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-devel/lvmcomp/src'
g++ -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++ -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++ -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
gcc -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
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){
      |                    ~~^~~~~~~~~
g++ -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
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++ -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
g++ -std=gnu++11 -shared -L/usr/local/lib64 -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)