* installing *source* package ‘multilink’ ...
** package ‘multilink’ 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/multilink/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 -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++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 -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 compute_log_like.cpp -o compute_log_like.o
compute_log_like.cpp: In function 'arma::vec compute_log_like_rcpp(arma::vec, arma::vec, int, int, int, arma::mat, arma::mat)':
compute_log_like.cpp:20:26: warning: comparison of integer expressions of different signedness: 'int' and 'arma::uword' {aka 'unsigned int'} [-Wsign-compare]
20 | for(int i = 0; i < ids.size(); i++){
| ~~^~~~~~~~~~~~
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 -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 get_posterior_loss.cpp -o get_posterior_loss.o
get_posterior_loss.cpp: In function 'arma::vec get_same_part(int, int, const arma::mat&)':
get_posterior_loss.cpp:12:60: warning: comparison of integer expressions of different signedness: 'arma::enable_if2<true, unsigned int>::result' {aka 'unsigned int'} and 'int' [-Wsign-compare]
12 | if(sum(partitions.col(t) == partitions.col(l)) == r){
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~
get_posterior_loss.cpp: In function 'arma::rowvec get_posterior_loss_abstain_cpp(int, int, const arma::mat&, double, double, double, double, const arma::mat&)':
get_posterior_loss.cpp:269:22: warning: comparison of integer expressions of different signedness: 'int' and 'const arma::uword' {aka 'const unsigned int'} [-Wsign-compare]
269 | for(int j = 1; j < power.n_rows; j++){
| ~~^~~~~~~~~~~~~~
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 -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 gibbs_loop.cpp -o gibbs_loop.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 -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 sample_Z.cpp -o sample_Z.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 -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 sample_phi.cpp -o sample_phi.o
sample_Z.cpp: In function 'Rcpp::List sample_Z_rcpp(arma::vec, arma::mat, int, arma::vec, const arma::vec&, const arma::vec&, int, const arma::vec&, Rcpp::List, const arma::vec&, int, int, const arma::mat&, const arma::vec&, const arma::mat&, const arma::vec&, const arma::vec&, int, int, int, arma::umat, arma::vec, int)':
sample_Z.cpp:150:38: warning: comparison of integer expressions of different signedness: 'int' and 'arma::uword' {aka 'unsigned int'} [-Wsign-compare]
150 | for(int i = 0; i < possible_c.size(); i++){
| ~~^~~~~~~~~~~~~~~~~~~
sample_Z.cpp:170:38: warning: comparison of integer expressions of different signedness: 'int' and 'arma::uword' {aka 'unsigned int'} [-Wsign-compare]
170 | for(int i = 0; i < valid_c.size(); i++){
| ~~^~~~~~~~~~~~~~~~
sample_Z.cpp:225:34: warning: comparison of integer expressions of different signedness: 'int' and 'arma::uword' {aka 'unsigned int'} [-Wsign-compare]
225 | for(int i = 0; i < possible_c.size(); i++){
| ~~^~~~~~~~~~~~~~~~~~~
sample_Z.cpp:248:34: warning: comparison of integer expressions of different signedness: 'int' and 'arma::uword' {aka 'unsigned int'} [-Wsign-compare]
248 | for(int i = 0; i < possible_c.size(); i++){
| ~~^~~~~~~~~~~~~~~~~~~
sample_Z.cpp:263:38: warning: comparison of integer expressions of different signedness: 'int' and 'arma::uword' {aka 'unsigned int'} [-Wsign-compare]
263 | for(int c_index = 0; c_index < valid_c.size(); c_index++){
| ~~~~~~~~^~~~~~~~~~~~~~~~
sample_Z.cpp: In function 'Rcpp::List sample_Z_rcpp_chaperones(arma::vec, arma::mat, int, arma::vec, const arma::vec&, const arma::vec&, int, const arma::vec&, Rcpp::List, const arma::vec&, int, int, const arma::mat&, const arma::vec&, const arma::mat&, const arma::vec&, const arma::vec&, int, int, int, arma::umat, arma::vec, int, int, int, int, const arma::vec&, const arma::umat&, const arma::vec&, const arma::umat&, Rcpp::List, int, int, int, const arma::umat&, int, const arma::vec&)':
sample_Z.cpp:458:34: warning: comparison of integer expressions of different signedness: 'int' and 'arma::uword' {aka 'unsigned int'} [-Wsign-compare]
458 | for(int ind = 0; ind < records.size(); ind++){
| ~~~~^~~~~~~~~~~~~~~~
sample_Z.cpp:612:50: warning: comparison of integer expressions of different signedness: 'int' and 'arma::uword' {aka 'unsigned int'} [-Wsign-compare]
612 | for(int c_index = 0; c_index < valid_c.size(); c_index++){
| ~~~~~~~~^~~~~~~~~~~~~~~~
sample_phi.cpp: In function 'Rcpp::List sample_phi_rcpp(const arma::vec&, const arma::mat&, const arma::vec&, const arma::vec&, const arma::vec&, int, int, int, int, const arma::mat&, const arma::vec&, const arma::vec&, int, const arma::vec&, const arma::vec&)':
sample_phi.cpp:38:36: warning: comparison of integer expressions of different signedness: 'int' and 'arma::uword' {aka 'unsigned int'} [-Wsign-compare]
38 | for(int fp_ind = 0; fp_ind < valid_fp.size(); fp_ind++){
| ~~~~~~~^~~~~~~~~~~~~~~~~
sample_phi.cpp:62:30: warning: comparison of integer expressions of different signedness: 'int' and 'arma::uword' {aka 'unsigned int'} [-Wsign-compare]
62 | for(int i = 0; i < ids.size(); i++){
| ~~^~~~~~~~~~~~
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 multilink.so RcppExports.o compute_log_like.o get_posterior_loss.o gibbs_loop.o sample_Z.o sample_phi.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/multilink/src'
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-devel/multilink/src'
make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-devel/multilink/src'
installing to /data/gannet/ripley/R/packages/tests-devel/multilink.Rcheck/00LOCK-multilink/00new/multilink/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 (multilink)