* installing *source* package ‘stLMM’ ... ** this is package ‘stLMM’ version ‘0.0.3’ ** package ‘stLMM’ successfully unpacked and MD5 sums checked ** using staged installation ** libs specified C++17 using C compiler: ‘gcc (GCC) 16.2.1 20260819 (Red Hat 16.2.1-2)’ using C++ compiler: ‘g++ (GCC) 16.2.1 20260819 (Red Hat 16.2.1-2)’ using C++17 make[1]: Entering directory '/data/localhost/ripley/R/packages/tests-devel/stLMM/src' gcc -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -I'/data/localhost/ripley/R/test-dev/BayesLogit/include' -I'/data/localhost/ripley/R/R-devel/library/Matrix/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 Matrix_stubs.c -o Matrix_stubs.o g++ -std=gnu++17 -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -I'/data/localhost/ripley/R/test-dev/BayesLogit/include' -I'/data/localhost/ripley/R/R-devel/library/Matrix/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 corModels.cpp -o corModels.o gcc -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -I'/data/localhost/ripley/R/test-dev/BayesLogit/include' -I'/data/localhost/ripley/R/R-devel/library/Matrix/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 init.c -o init.o g++ -std=gnu++17 -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -I'/data/localhost/ripley/R/test-dev/BayesLogit/include' -I'/data/localhost/ripley/R/R-devel/library/Matrix/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 nn.cpp -o nn.o g++ -std=gnu++17 -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -I'/data/localhost/ripley/R/test-dev/BayesLogit/include' -I'/data/localhost/ripley/R/R-devel/library/Matrix/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 stLMM_common.cpp -o stLMM_common.o stLMM_common.cpp: In function ‘double logDetFactor(cholmod_factor*)’: stLMM_common.cpp:308:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 308 | for(i = 0; i < L->nsuper; i++){ | ~~^~~~~~~~~~~ g++ -std=gnu++17 -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -I'/data/localhost/ripley/R/test-dev/BayesLogit/include' -I'/data/localhost/ripley/R/R-devel/library/Matrix/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 stLMM_covariance.cpp -o stLMM_covariance.o g++ -std=gnu++17 -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -I'/data/localhost/ripley/R/test-dev/BayesLogit/include' -I'/data/localhost/ripley/R/R-devel/library/Matrix/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 stLMM_precision.cpp -o stLMM_precision.o g++ -std=gnu++17 -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -I'/data/localhost/ripley/R/test-dev/BayesLogit/include' -I'/data/localhost/ripley/R/R-devel/library/Matrix/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 stLMM_predict.cpp -o stLMM_predict.o g++ -std=gnu++17 -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -I'/data/localhost/ripley/R/test-dev/BayesLogit/include' -I'/data/localhost/ripley/R/R-devel/library/Matrix/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 stLMM_recover.cpp -o stLMM_recover.o g++ -std=gnu++17 -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -I'/data/localhost/ripley/R/test-dev/BayesLogit/include' -I'/data/localhost/ripley/R/R-devel/library/Matrix/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 stLMM_sampler.cpp -o stLMM_sampler.o g++ -std=gnu++17 -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -I'/data/localhost/ripley/R/test-dev/BayesLogit/include' -I'/data/localhost/ripley/R/R-devel/library/Matrix/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 stLMM_state.cpp -o stLMM_state.o g++ -std=gnu++17 -I"/data/localhost/ripley/R/R-devel/include" -DNDEBUG -I'/data/localhost/ripley/R/test-dev/BayesLogit/include' -I'/data/localhost/ripley/R/R-devel/library/Matrix/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 utils.cpp -o utils.o g++ -std=gnu++17 -shared -L/usr/local/lib64 -o stLMM.so Matrix_stubs.o corModels.o init.o nn.o stLMM_common.o stLMM_covariance.o stLMM_precision.o stLMM_predict.o stLMM_recover.o stLMM_sampler.o stLMM_state.o utils.o -fopenmp -llapack -L/data/localhost/ripley/R/R-devel/lib -lRblas -lgfortran -lm -latomic_asneeded -lquadmath make[1]: Leaving directory '/data/localhost/ripley/R/packages/tests-devel/stLMM/src' make[1]: Entering directory '/data/localhost/ripley/R/packages/tests-devel/stLMM/src' make[1]: Leaving directory '/data/localhost/ripley/R/packages/tests-devel/stLMM/src' installing to /data/localhost/ripley/R/packages/tests-devel/stLMM.Rcheck/00LOCK-stLMM/00new/stLMM/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 (stLMM)