* installing *source* package ‘BDgraph’ ... ** package ‘BDgraph’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C compiler: ‘clang version 18.1.4’ using C++ compiler: ‘clang version 18.1.4’ using C++11 make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-clang/BDgraph/src' /usr/local/clang18/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c BDgraph_init.c -o BDgraph_init.o /usr/local/clang18/bin/clang++ -std=gnu++11 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fopenmp -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c copula.cpp -o copula.o /usr/local/clang18/bin/clang++ -std=gnu++11 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fopenmp -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c gcgm_DMH.cpp -o gcgm_DMH.o /usr/local/clang18/bin/clang++ -std=gnu++11 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fopenmp -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c gcgm_bd.cpp -o gcgm_bd.o /usr/local/clang18/bin/clang++ -std=gnu++11 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fopenmp -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c gcgm_dw_bd.cpp -o gcgm_dw_bd.o /usr/local/clang18/bin/clang++ -std=gnu++11 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fopenmp -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c ggm_DMH.cpp -o ggm_DMH.o /usr/local/clang18/bin/clang++ -std=gnu++11 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fopenmp -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c ggm_bd.cpp -o ggm_bd.o /usr/local/clang18/bin/clang++ -std=gnu++11 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fopenmp -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c ggm_mpl_bd.cpp -o ggm_mpl_bd.o ggm_mpl_bd.cpp:363:9: warning: variable 'sum_weights' set but not used [-Wunused-but-set-variable] 363 | double sum_weights = 0.0, weight_C, sum_rates; | ^ ggm_mpl_bd.cpp:703:9: warning: variable 'sum_weights' set but not used [-Wunused-but-set-variable] 703 | double sum_weights = 0.0, weight_C, sum_rates; | ^ 2 warnings generated. /usr/local/clang18/bin/clang++ -std=gnu++11 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fopenmp -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c gm_mpl_Hill_Climb.cpp -o gm_mpl_Hill_Climb.o /usr/local/clang18/bin/clang++ -std=gnu++11 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fopenmp -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c gm_mpl_bd_dis.cpp -o gm_mpl_bd_dis.o gm_mpl_bd_dis.cpp:725:9: warning: variable 'sum_weights' set but not used [-Wunused-but-set-variable] 725 | double sum_weights = 0.0, weight_C, sum_rates; | ^ gm_mpl_bd_dis.cpp:1089:9: warning: variable 'sum_weights' set but not used [-Wunused-but-set-variable] 1089 | double sum_weights = 0.0, weight_C, sum_rates; | ^ gm_mpl_bd_dis.cpp:1621:9: warning: variable 'sum_weights' set but not used [-Wunused-but-set-variable] 1621 | double sum_weights = 0.0, weight_C, sum_rates; | ^ gm_mpl_bd_dis.cpp:1947:9: warning: variable 'sum_weights' set but not used [-Wunused-but-set-variable] 1947 | double sum_weights = 0.0, weight_C, sum_rates; | ^ /usr/local/clang18/bin/clang++ -std=gnu++11 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fopenmp -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c gm_rj.cpp -o gm_rj.o 4 warnings generated. /usr/local/clang18/bin/clang++ -std=gnu++11 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fopenmp -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c matrix.cpp -o matrix.o /usr/local/clang18/bin/clang++ -std=gnu++11 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fopenmp -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c omp_set_num_cores.cpp -o omp_set_num_cores.o /usr/local/clang18/bin/clang++ -std=gnu++11 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fopenmp -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c rgwish.cpp -o rgwish.o /usr/local/clang18/bin/clang++ -std=gnu++11 -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fopenmp -fpic -O3 -Wall -pedantic -frtti -Wp,-D_FORTIFY_SOURCE=3 -c tgm_bd.cpp -o tgm_bd.o /usr/local/clang18/bin/clang++ -std=gnu++11 -shared -L/usr/local/clang/lib64 -L/usr/local/clang18/lib -L/usr/local/clang18/lib/x86_64-unknown-linux-gnu -L/usr/local/gcc13/lib64 -L/usr/local/lib64 -o BDgraph.so BDgraph_init.o copula.o gcgm_DMH.o gcgm_bd.o gcgm_dw_bd.o ggm_DMH.o ggm_bd.o ggm_mpl_bd.o gm_mpl_Hill_Climb.o gm_mpl_bd_dis.o gm_rj.o matrix.o omp_set_num_cores.o rgwish.o tgm_bd.o -fopenmp -L/data/gannet/ripley/R/R-clang/lib -lRlapack -L/data/gannet/ripley/R/R-clang/lib -lRblas -lFortran_main -lFortranRuntime -lFortranDecimal -lm make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-clang/BDgraph/src' make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-clang/BDgraph/src' make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-clang/BDgraph/src' installing to /data/gannet/ripley/R/packages/tests-clang/BDgraph.Rcheck/00LOCK-BDgraph/00new/BDgraph/libs ** R ** data ** 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 (BDgraph)