* installing *source* package ‘spCP’ ... ** package ‘spCP’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C++ compiler: ‘g++-14 (GCC) 14.2.0’ make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-devel/spCP/src' g++-14 -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 CovarianceFunctions.cpp -o CovarianceFunctions.o g++-14 -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 DIAG_Conversion.cpp -o DIAG_Conversion.o g++-14 -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 DIAG_GetLogLik.cpp -o DIAG_GetLogLik.o DIAG_GetLogLik.cpp: In function 'double GetLogLikMean(Rcpp::List, Rcpp::List)': DIAG_GetLogLik.cpp:53:10: warning: 'LogLikMean' may be used uninitialized [-Wmaybe-uninitialized] 53 | return LogLikMean; | ^~~~~~~~~~ DIAG_GetLogLik.cpp:47:10: note: 'LogLikMean' was declared here 47 | double LogLikMean; | ^~~~~~~~~~ g++-14 -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 DIAG_NormalLogLik.cpp -o DIAG_NormalLogLik.o g++-14 -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 DIAG_ProbitLogLik.cpp -o DIAG_ProbitLogLik.o g++-14 -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 DIAG_SamplePPD.cpp -o DIAG_SamplePPD.o g++-14 -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 DIAG_TobitLogLik.cpp -o DIAG_TobitLogLik.o g++-14 -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 DistributionFunctions.cpp -o DistributionFunctions.o g++-14 -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 MCMC_Conversion.cpp -o MCMC_Conversion.o g++-14 -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 MCMC_Samplers.cpp -o MCMC_Samplers.o g++-14 -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 MCMC_Utilities.cpp -o MCMC_Utilities.o g++-14 -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 MCMC_spCP.cpp -o MCMC_spCP.o g++-14 -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 PRED_Conversion.cpp -o PRED_Conversion.o g++-14 -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 PRED_PredictFuture.cpp -o PRED_PredictFuture.o g++-14 -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 Play.cpp -o Play.o PRED_PredictFuture.cpp: In function 'arma::cube PredictFuture(Rcpp::List, Rcpp::List, int)': PRED_PredictFuture.cpp:44:29: warning: comparison of integer expressions of different signedness: 'arma::uword' {aka 'unsigned int'} and 'int' [-Wsign-compare] 44 | for (arma::uword i = 0; i < NKeep; i++) { | ~~^~~~~~~ PRED_PredictFuture.cpp:55:31: warning: comparison of integer expressions of different signedness: 'arma::uword' {aka 'unsigned int'} and 'int' [-Wsign-compare] 55 | for (arma::uword t = 0; t < NNewTimes; t++) { | ~~^~~~~~~~~~~ PRED_PredictFuture.cpp:56:33: warning: comparison of integer expressions of different signedness: 'arma::uword' {aka 'unsigned int'} and 'int' [-Wsign-compare] 56 | for (arma::uword s = 0; s < M; s++) { | ~~^~~ PRED_PredictFuture.cpp:63:76: warning: 'Sigma' may be used uninitialized [-Wmaybe-uninitialized] 63 | YPred.subcube(i, s, t, i, s, t) = fmax(0, arma::as_scalar(rnormRcpp(1, Mu, Sigma))); | ~~~~~~~~~^~~~~~~~~~~~~~ PRED_PredictFuture.cpp:41:27: note: 'Sigma' was declared here 41 | double NewTime, CP, Mu, Sigma; | ^~~~~ PRED_PredictFuture.cpp:63:76: warning: 'Mu' may be used uninitialized [-Wmaybe-uninitialized] 63 | YPred.subcube(i, s, t, i, s, t) = fmax(0, arma::as_scalar(rnormRcpp(1, Mu, Sigma))); | ~~~~~~~~~^~~~~~~~~~~~~~ PRED_PredictFuture.cpp:41:23: note: 'Mu' was declared here 41 | double NewTime, CP, Mu, Sigma; | ^~ MCMC_Samplers.cpp: In function 'std::pair<para, metrobj> SampleEta(datobj, para, metrobj)': MCMC_Samplers.cpp:611:18: warning: 'ThetaLocProposal' may be used uninitialized [-Wmaybe-uninitialized] 611 | Theta(Loc) = ThetaLocProposal; | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ MCMC_Samplers.cpp:547:42: note: 'ThetaLocProposal' was declared here 547 | double TuningSD, LogR, EtaLocProposal, ThetaLocProposal; | ^~~~~~~~~~~~~~~~ g++-14 -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++-14 -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 UtilityFunctions.cpp -o UtilityFunctions.o g++-14 -std=gnu++17 -shared -L/usr/local/gcc14/lib64 -L/usr/local/lib64 -o spCP.so CovarianceFunctions.o DIAG_Conversion.o DIAG_GetLogLik.o DIAG_NormalLogLik.o DIAG_ProbitLogLik.o DIAG_SamplePPD.o DIAG_TobitLogLik.o DistributionFunctions.o MCMC_Conversion.o MCMC_Samplers.o MCMC_Utilities.o MCMC_spCP.o PRED_Conversion.o PRED_PredictFuture.o Play.o RcppExports.o UtilityFunctions.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/spCP/src' make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-devel/spCP/src' make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-devel/spCP/src' installing to /data/gannet/ripley/R/packages/tests-devel/spCP.Rcheck/00LOCK-spCP/00new/spCP/libs ** R ** data *** moving datasets to lazyload DB ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** 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 (spCP)