* installing *source* package ‘gamselBayes’ ...
** package ‘gamselBayes’ 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/gamselBayes/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 approxLogML.cpp -o approxLogML.o
approxLogML.cpp: In function 'double approxLogML(double, double, double, arma::vec, double, arma::vec, arma::vec, arma::mat, double, double, double, double, double, arma::vec, arma::vec, arma::vec, arma::mat, arma::mat, arma::vec, arma::vec, double, arma::vec, double, double, double, double, double, int, arma::uvec, int, arma::vec, arma::vec)':
approxLogML.cpp:71:22: warning: comparison of integer expressions of different signedness: 'int' and 'unsigned int' [-Wsign-compare]
71 | for (int k=0; k<ncZvec(j); k++)
| ~^~~~~~~~~~
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 drawInvGaussVec.cpp -o drawInvGaussVec.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 gamselBayesMCMCinner.cpp -o gamselBayesMCMCinner.o
gamselBayesMCMCinner.cpp: In function 'Rcpp::List gamselBayesMCMCinner(arma::vec, arma::mat, arma::mat, int, arma::uvec, int, int, arma::uvec, arma::uvec, arma::vec, arma::mat, arma::vec, arma::mat, arma::mat, double, double, double, double, double, double, int, int)':
gamselBayesMCMCinner.cpp:125:25: warning: comparison of integer expressions of different signedness: 'int' and 'unsigned int' [-Wsign-compare]
125 | for (int k=0; k<ncZvec(j); k++)
| ~^~~~~~~~~~
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 gamselBayesMFVBinner.cpp -o gamselBayesMFVBinner.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 logPhi.cpp -o logPhi.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 omitMatCol.cpp -o omitMatCol.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 omitVecEnt.cpp -o omitVecEnt.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 printPercMsgs.cpp -o printPercMsgs.o
gamselBayesMFVBinner.cpp: In function 'Rcpp::List gamselBayesMFVBinner(arma::vec, arma::mat, arma::mat, int, arma::uvec, int, int, arma::uvec, arma::uvec, arma::vec, arma::mat, arma::vec, arma::mat, arma::mat, double, double, double, double, double, double, int, double, int)':
gamselBayesMFVBinner.cpp:150:25: warning: comparison of integer expressions of different signedness: 'int' and 'unsigned int' [-Wsign-compare]
150 | for (int k=0; k<ncZvec(j); k++)
| ~^~~~~~~~~~
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 rTruncNormPos.cpp -o rTruncNormPos.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 zetad.cpp -o zetad.o
gamselBayesMFVBinner.cpp:373:40: warning: 'lambdaqaEps' may be used uninitialized [-Wmaybe-uninitialized]
373 | logMargLik(itNum-1) = approxLogML(muqBeta0,sigsqqBeta0,logitBeta,muqgammaBeta,
| ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
374 | muqrecipSigsqBeta,muqbBeta,muqBetaTilde,SigmaqBetaTilde,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
375 | muqrecipaBeta,lambdaqSigsqBeta,sBetaHYP,lambdaqaBeta,logitU,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
376 | muqgammaU,muqrecipSigsqU,muqbU,muqUtilde,sigsqqUtilde,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
377 | muqrecipaU,lambdaqSigsqU,sUHYP,lambdaqaU,muqrecipaEps,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
378 | muqrecipSigsqEps,lambdaqaEps,lambdaqSigsqEps,sEpsHYP,n,ncZvec,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
379 | familyNum,ySign,omega20);
| ~~~~~~~~~~~~~~~~~~~~~~~~
gamselBayesMFVBinner.cpp:65:11: note: 'lambdaqaEps' was declared here
65 | double lambdaqaEps;
| ^~~~~~~~~~~
rTruncNormPos.cpp: In function 'double rTruncNormPos(double)':
rTruncNormPos.cpp:59:13: warning: 'x' may be used uninitialized [-Wmaybe-uninitialized]
59 | return (x);
| ^
rTruncNormPos.cpp:25:11: note: 'x' was declared here
25 | double x;
| ^
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 gamselBayes.so RcppExports.o approxLogML.o drawInvGaussVec.o gamselBayesMCMCinner.o gamselBayesMFVBinner.o logPhi.o omitMatCol.o omitVecEnt.o printPercMsgs.o rTruncNormPos.o zetad.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/gamselBayes/src'
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-devel/gamselBayes/src'
make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-devel/gamselBayes/src'
installing to /data/gannet/ripley/R/packages/tests-devel/gamselBayes.Rcheck/00LOCK-gamselBayes/00new/gamselBayes/libs
** R
** 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 (gamselBayes)