* installing *source* package ‘MABOUST’ ...
** package ‘MABOUST’ 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/MABOUST/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 MABOUST.cpp -o MABOUST.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 RcppExports.cpp -o RcppExports.o
MABOUST.cpp: In function 'int Sample2(arma::vec)':
MABOUST.cpp:31:12: warning: comparison of integer expressions of different signedness: 'int' and 'const arma::uword' {aka 'const unsigned int'} [-Wsign-compare]
31 | for(m=1;m<groupprob.n_rows;m++){
| ~^~~~~~~~~~~~~~~~~
MABOUST.cpp:44:14: warning: comparison of integer expressions of different signedness: 'int' and 'unsigned int' [-Wsign-compare]
44 | for(m=0;m<(groupprob.n_rows-2);m++){
| ~^~~~~~~~~~~~~~~~~~~~~
MABOUST.cpp: In function 'int IsAdmissable(arma::mat, arma::mat)':
MABOUST.cpp:71:12: warning: comparison of integer expressions of different signedness: 'int' and 'const arma::uword' {aka 'const unsigned int'} [-Wsign-compare]
71 | for(k=0;k<gamma1.n_rows;k++){
| ~^~~~~~~~~~~~~~
MABOUST.cpp:72:16: warning: comparison of integer expressions of different signedness: 'int' and 'unsigned int' [-Wsign-compare]
72 | for(m1=0;m1<(gamma1.n_cols-1);m1++){
| ~~^~~~~~~~~~~~~~~~~~
MABOUST.cpp: In function 'int Sample1(int)':
MABOUST.cpp:90:7: warning: unused variable 'm' [-Wunused-variable]
90 | int m=0;
| ^
MABOUST.cpp: In function 'int SampleSpike(arma::vec, int)':
MABOUST.cpp:107:17: warning: comparison of integer expressions of different signedness: 'int' and 'const arma::uword' {aka 'const unsigned int'} [-Wsign-compare]
107 | for(m1 =0 ; m1<SPIKEHOLD.n_rows;m1++){
| ~~^~~~~~~~~~~~~~~~~
MABOUST.cpp:122:16: warning: comparison of integer expressions of different signedness: 'int' and 'const arma::uword' {aka 'const unsigned int'} [-Wsign-compare]
122 | for(m1=0;m1<SPIKEHOLD.n_rows;m1++){
| ~~^~~~~~~~~~~~~~~~~
MABOUST.cpp: In function 'arma::vec GetBoundariesALPHA(int, arma::vec)':
MABOUST.cpp:209:9: warning: comparison of integer expressions of different signedness: 'int' and 'unsigned int' [-Wsign-compare]
209 | if(m==(beta.n_rows-1)){
| ~^~~~~~~~~~~~~~~~~
MABOUST.cpp: In function 'arma::vec GetBoundariesBETA(int, arma::vec)':
MABOUST.cpp:267:9: warning: comparison of integer expressions of different signedness: 'int' and 'unsigned int' [-Wsign-compare]
267 | if(m==(alpha.n_rows-1)){
| ~^~~~~~~~~~~~~~~~~~
MABOUST.cpp: In function 'double LIKECOV(arma::vec, arma::vec, arma::mat, arma::mat, arma::vec)':
MABOUST.cpp:405:12: warning: comparison of integer expressions of different signedness: 'int' and 'const arma::uword' {aka 'const unsigned int'} [-Wsign-compare]
405 | for(m=0;m<eta.n_rows;m++){
| ~^~~~~~~~~~~
MABOUST.cpp:397:7: warning: unused variable 'k' [-Wunused-variable]
397 | int k=1;
| ^
MABOUST.cpp:398:7: warning: unused variable 'j' [-Wunused-variable]
398 | int j=0;
| ^
MABOUST.cpp: In function 'Rcpp::List MCMC_MABOUST(arma::vec, arma::vec, arma::mat, double, double, double, double, int)':
MABOUST.cpp:522:13: warning: comparison of integer expressions of different signedness: 'int' and 'const arma::uword' {aka 'const unsigned int'} [-Wsign-compare]
522 | for(j =0;j<thetavec.n_cols;j++){
| ~^~~~~~~~~~~~~~~~
MABOUST.cpp:564:12: warning: comparison of integer expressions of different signedness: 'int' and 'const arma::uword' {aka 'const unsigned int'} [-Wsign-compare]
564 | for(m=0;m<SPIKEHOLD.n_rows;m++){
| ~^~~~~~~~~~~~~~~~~
MABOUST.cpp:592:20: warning: comparison of integer expressions of different signedness: 'int' and 'const arma::uword' {aka 'const unsigned int'} [-Wsign-compare]
592 | for(k=0;k<thetavec.n_rows;k++){
| ~^~~~~~~~~~~~~~~~
MABOUST.cpp:593:24: warning: comparison of integer expressions of different signedness: 'int' and 'const arma::uword' {aka 'const unsigned int'} [-Wsign-compare]
593 | for(m1=0;m1<thetavec.n_cols;m1++){
| ~~^~~~~~~~~~~~~~~~
MABOUST.cpp:611:20: warning: comparison of integer expressions of different signedness: 'int' and 'const arma::uword' {aka 'const unsigned int'} [-Wsign-compare]
611 | for(k=0;k<Beta.n_rows;k++){
| ~^~~~~~~~~~~~
MABOUST.cpp:632:16: warning: comparison of integer expressions of different signedness: 'int' and 'const arma::uword' {aka 'const unsigned int'} [-Wsign-compare]
632 | for(k=0;k<thetavec.n_rows;k++){
| ~^~~~~~~~~~~~~~~~
MABOUST.cpp:637:22: warning: comparison of integer expressions of different signedness: 'int' and 'const arma::uword' {aka 'const unsigned int'} [-Wsign-compare]
637 | for(m1=0;m1<thetavec.n_cols;m1++){
| ~~^~~~~~~~~~~~~~~~
MABOUST.cpp:644:22: warning: comparison of integer expressions of different signedness: 'int' and 'const arma::uword' {aka 'const unsigned int'} [-Wsign-compare]
644 | for(j=0;j<SPIKEHOLD.n_rows;j++){
| ~^~~~~~~~~~~~~~~~~
MABOUST.cpp:714:18: warning: comparison of integer expressions of different signedness: 'int' and 'const arma::uword' {aka 'const unsigned int'} [-Wsign-compare]
714 | for(j=0;j<thetavecprop.n_cols;j++){
| ~^~~~~~~~~~~~~~~~~~~~
MABOUST.cpp:725:18: warning: comparison of integer expressions of different signedness: 'int' and 'const arma::uword' {aka 'const unsigned int'} [-Wsign-compare]
725 | for(j=0;j<SPIKEHOLD.n_rows;j++){
| ~^~~~~~~~~~~~~~~~~
MABOUST.cpp:729:24: warning: comparison of integer expressions of different signedness: 'int' and 'const arma::uword' {aka 'const unsigned int'} [-Wsign-compare]
729 | for(m2=0;m2<thetavecprop.n_cols;m2++){
| ~~^~~~~~~~~~~~~~~~~~~~
MABOUST.cpp:803:16: warning: comparison of integer expressions of different signedness: 'int' and 'const arma::uword' {aka 'const unsigned int'} [-Wsign-compare]
803 | for(k=0;k<Beta.n_rows;k++){
| ~^~~~~~~~~~~~
MABOUST.cpp:843:16: warning: comparison of integer expressions of different signedness: 'int' and 'const arma::uword' {aka 'const unsigned int'} [-Wsign-compare]
843 | for(j=0;j<thetavec.n_rows;j++){
| ~^~~~~~~~~~~~~~~~
MABOUST.cpp:844:20: warning: comparison of integer expressions of different signedness: 'int' and 'const arma::uword' {aka 'const unsigned int'} [-Wsign-compare]
844 | for(m1=0;m1<thetavec.n_cols;m1++){
| ~~^~~~~~~~~~~~~~~~
MABOUST.cpp:850:16: warning: comparison of integer expressions of different signedness: 'int' and 'const arma::uword' {aka 'const unsigned int'} [-Wsign-compare]
850 | for(k=0;k<Beta.n_rows;k++){
| ~^~~~~~~~~~~~
MABOUST.cpp:854:16: warning: comparison of integer expressions of different signedness: 'int' and 'const arma::uword' {aka 'const unsigned int'} [-Wsign-compare]
854 | for(k=0;k<SPIKEHOLD.n_rows;k++){
| ~^~~~~~~~~~~~~~~~~
MABOUST.cpp:878:20: warning: comparison of integer expressions of different signedness: 'int' and 'const arma::uword' {aka 'const unsigned int'} [-Wsign-compare]
878 | for(k=0;k<thetavec.n_rows;k++){
| ~^~~~~~~~~~~~~~~~
MABOUST.cpp:879:24: warning: comparison of integer expressions of different signedness: 'int' and 'const arma::uword' {aka 'const unsigned int'} [-Wsign-compare]
879 | for(m1=0;m1<thetavec.n_cols;m1++){
| ~~^~~~~~~~~~~~~~~~
MABOUST.cpp:897:20: warning: comparison of integer expressions of different signedness: 'int' and 'const arma::uword' {aka 'const unsigned int'} [-Wsign-compare]
897 | for(k=0;k<Beta.n_rows;k++){
| ~^~~~~~~~~~~~
MABOUST.cpp:918:16: warning: comparison of integer expressions of different signedness: 'int' and 'const arma::uword' {aka 'const unsigned int'} [-Wsign-compare]
918 | for(k=0;k<thetavec.n_rows;k++){
| ~^~~~~~~~~~~~~~~~
MABOUST.cpp:923:22: warning: comparison of integer expressions of different signedness: 'int' and 'const arma::uword' {aka 'const unsigned int'} [-Wsign-compare]
923 | for(m1=0;m1<thetavec.n_cols;m1++){
| ~~^~~~~~~~~~~~~~~~
MABOUST.cpp:930:22: warning: comparison of integer expressions of different signedness: 'int' and 'const arma::uword' {aka 'const unsigned int'} [-Wsign-compare]
930 | for(j=0;j<SPIKEHOLD.n_rows;j++){
| ~^~~~~~~~~~~~~~~~~
MABOUST.cpp:1000:18: warning: comparison of integer expressions of different signedness: 'int' and 'const arma::uword' {aka 'const unsigned int'} [-Wsign-compare]
1000 | for(j=0;j<thetavecprop.n_cols;j++){
| ~^~~~~~~~~~~~~~~~~~~~
MABOUST.cpp:1011:18: warning: comparison of integer expressions of different signedness: 'int' and 'const arma::uword' {aka 'const unsigned int'} [-Wsign-compare]
1011 | for(j=0;j<SPIKEHOLD.n_rows;j++){
| ~^~~~~~~~~~~~~~~~~
MABOUST.cpp:1015:24: warning: comparison of integer expressions of different signedness: 'int' and 'const arma::uword' {aka 'const unsigned int'} [-Wsign-compare]
1015 | for(m2=0;m2<thetavecprop.n_cols;m2++){
| ~~^~~~~~~~~~~~~~~~~~~~
MABOUST.cpp:1096:16: warning: comparison of integer expressions of different signedness: 'int' and 'const arma::uword' {aka 'const unsigned int'} [-Wsign-compare]
1096 | for(j=0;j<thetavec.n_rows;j++){
| ~^~~~~~~~~~~~~~~~
MABOUST.cpp:1097:20: warning: comparison of integer expressions of different signedness: 'int' and 'const arma::uword' {aka 'const unsigned int'} [-Wsign-compare]
1097 | for(m1=0;m1<thetavec.n_cols;m1++){
| ~~^~~~~~~~~~~~~~~~
MABOUST.cpp:1103:16: warning: comparison of integer expressions of different signedness: 'int' and 'const arma::uword' {aka 'const unsigned int'} [-Wsign-compare]
1103 | for(k=0;k<Beta.n_rows;k++){
| ~^~~~~~~~~~~~
MABOUST.cpp:1107:16: warning: comparison of integer expressions of different signedness: 'int' and 'const arma::uword' {aka 'const unsigned int'} [-Wsign-compare]
1107 | for(k=0;k<SPIKEHOLD.n_rows;k++){
| ~^~~~~~~~~~~~~~~~~
MABOUST.cpp:462:10: warning: unused variable 'PNPO' [-Wunused-variable]
462 | double PNPO = .5; //Probability of npo
| ^~~~
MABOUST.cpp:464:7: warning: unused variable 'g' [-Wunused-variable]
464 | int g=0;
| ^
MABOUST.cpp:470:7: warning: unused variable 'MEANS' [-Wunused-variable]
470 | int MEANS=0;
| ^~~~~
MABOUST.cpp:472:7: warning: unused variable 'IntIN' [-Wunused-variable]
472 | int IntIN=0;
| ^~~~~
MABOUST.cpp:473:7: warning: unused variable 'IntOUT' [-Wunused-variable]
473 | int IntOUT=0;
| ^~~~~~
MABOUST.cpp:481:7: warning: unused variable 'i' [-Wunused-variable]
481 | int i=0; //For the patient index
| ^
MABOUST.cpp:482:7: warning: unused variable 'rep' [-Wunused-variable]
482 | int rep=0; //For the simulation repetition.
| ^~~
MABOUST.cpp:493:10: warning: unused variable 'NewSlope' [-Wunused-variable]
493 | double NewSlope=0;
| ^~~~~~~~
MABOUST.cpp:494:7: warning: unused variable 'Which1' [-Wunused-variable]
494 | int Which1=0;
| ^~~~~~
MABOUST.cpp:500:10: warning: unused variable 'signew' [-Wunused-variable]
500 | double signew=0;
| ^~~~~~
MABOUST.cpp:501:10: warning: unused variable 'slopenew' [-Wunused-variable]
501 | double slopenew=0;
| ^~~~~~~~
MABOUST.cpp:502:10: warning: unused variable 'Munew' [-Wunused-variable]
502 | double Munew=0;
| ^~~~~
MABOUST.cpp:514:7: warning: unused variable 'count' [-Wunused-variable]
514 | int count=0;
| ^~~~~
MABOUST.cpp:537:7: warning: unused variable 'm3' [-Wunused-variable]
537 | int m3=0;
| ^~
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 MABOUST.so MABOUST.o RcppExports.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/MABOUST/src'
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-devel/MABOUST/src'
make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-devel/MABOUST/src'
installing to /data/gannet/ripley/R/packages/tests-devel/MABOUST.Rcheck/00LOCK-MABOUST/00new/MABOUST/libs
** R
** 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 (MABOUST)