* installing *source* package ‘BayesianLasso’ ... ** this is package ‘BayesianLasso’ version ‘0.3.5’ ** package ‘BayesianLasso’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C++ compiler: ‘g++ (GCC) 15.1.1 20250521 (Red Hat 15.1.1-2)’ make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-devel/BayesianLasso/src' g++ -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/RcppNumerical/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-dev/RcppEigen/include' -I'/data/gannet/ripley/R/test-dev/RcppClock/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 Modified_Hans_Gibbs.cpp -o Modified_Hans_Gibbs.o In file included from /data/gannet/ripley/R/test-dev/RcppArmadillo/include/RcppArmadillo.h:29, from Modified_Hans_Gibbs.cpp:3: /data/gannet/ripley/R/test-dev/RcppArmadillo/include/RcppArmadillo/version/arma.h:71:153: note: ‘#pragma message: Using fallback compilation with Armadillo 14.6.3. Please consider defining -DARMA_USE_CURRENT. See GitHub issue #475 for more.’ 71 | #pragma message("Using fallback compilation with Armadillo 14.6.3. Please consider defining -DARMA_USE_CURRENT. See GitHub issue #475 for more.") | ^ Modified_Hans_Gibbs.cpp: In function ‘Rcpp::List Modified_Hans_Gibbs(arma::mat, arma::vec, double, double, double, double, int, arma::vec, double, double, int)’: Modified_Hans_Gibbs.cpp:85:12: warning: variable ‘denom’ set but not used [-Wunused-but-set-variable] 85 | double denom; | ^~~~~ Modified_Hans_Gibbs.cpp:72:10: warning: unused variable ‘b_til’ [-Wunused-variable] 72 | double b_til = b1; | ^~~~~ g++ -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/RcppNumerical/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-dev/RcppEigen/include' -I'/data/gannet/ripley/R/test-dev/RcppClock/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 Modified_PC_Gibbs.cpp -o Modified_PC_Gibbs.o g++ -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/RcppNumerical/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-dev/RcppEigen/include' -I'/data/gannet/ripley/R/test-dev/RcppClock/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 In file included from /data/gannet/ripley/R/test-dev/RcppArmadillo/include/RcppArmadillo.h:29, from Modified_PC_Gibbs.cpp:3: /data/gannet/ripley/R/test-dev/RcppArmadillo/include/RcppArmadillo/version/arma.h:71:153: note: ‘#pragma message: Using fallback compilation with Armadillo 14.6.3. Please consider defining -DARMA_USE_CURRENT. See GitHub issue #475 for more.’ 71 | #pragma message("Using fallback compilation with Armadillo 14.6.3. Please consider defining -DARMA_USE_CURRENT. See GitHub issue #475 for more.") | ^ In file included from /data/gannet/ripley/R/test-dev/RcppArmadillo/include/RcppArmadillo.h:29, from RcppExports.cpp:4: /data/gannet/ripley/R/test-dev/RcppArmadillo/include/RcppArmadillo/version/arma.h:71:153: note: ‘#pragma message: Using fallback compilation with Armadillo 14.6.3. Please consider defining -DARMA_USE_CURRENT. See GitHub issue #475 for more.’ 71 | #pragma message("Using fallback compilation with Armadillo 14.6.3. Please consider defining -DARMA_USE_CURRENT. See GitHub issue #475 for more.") | ^ Modified_PC_Gibbs.cpp: In function ‘arma::mat crossprod_cpp(arma::mat, arma::vec, arma::mat, double)’: Modified_PC_Gibbs.cpp:153:7: warning: unused variable ‘n’ [-Wunused-variable] 153 | int n = mX.n_rows; | ^ g++ -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/RcppNumerical/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-dev/RcppEigen/include' -I'/data/gannet/ripley/R/test-dev/RcppClock/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 lasso_distribution.cpp -o lasso_distribution.o In file included from /data/gannet/ripley/R/test-dev/RcppArmadillo/include/RcppArmadillo.h:29, from lasso_distribution.cpp:3: /data/gannet/ripley/R/test-dev/RcppArmadillo/include/RcppArmadillo/version/arma.h:71:153: note: ‘#pragma message: Using fallback compilation with Armadillo 14.6.3. Please consider defining -DARMA_USE_CURRENT. See GitHub issue #475 for more.’ 71 | #pragma message("Using fallback compilation with Armadillo 14.6.3. Please consider defining -DARMA_USE_CURRENT. See GitHub issue #475 for more.") | ^ lasso_distribution.cpp: In function ‘double zcalc_7sf(double, double, double, int)’: lasso_distribution.cpp:265:7: warning: unused variable ‘error_type’ [-Wunused-variable] 265 | int error_type = check_abc( a, b, c); | ^~~~~~~~~~ lasso_distribution.cpp: In function ‘Rcpp::List calculate_lasso_dist_stats_c_v2(double, double, double)’: lasso_distribution.cpp:348:7: warning: unused variable ‘error_type’ [-Wunused-variable] 348 | int error_type = check_abc( a, b, c); | ^~~~~~~~~~ lasso_distribution.cpp: In function ‘arma::vec plasso_internal(arma::vec, double, double, double)’: lasso_distribution.cpp:586:10: warning: unused variable ‘m_plus’ [-Wunused-variable] 586 | double m_plus = res["m_plus"]; | ^~~~~~ lasso_distribution.cpp:587:10: warning: unused variable ‘m_minus’ [-Wunused-variable] 587 | double m_minus = res["m_minus"]; | ^~~~~~~ g++ -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/RcppNumerical/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-dev/RcppEigen/include' -I'/data/gannet/ripley/R/test-dev/RcppClock/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 rinvgaussian.cpp -o rinvgaussian.o In file included from /data/gannet/ripley/R/test-dev/RcppArmadillo/include/RcppArmadillo.h:29, from rinvgaussian.cpp:3: /data/gannet/ripley/R/test-dev/RcppArmadillo/include/RcppArmadillo/version/arma.h:71:153: note: ‘#pragma message: Using fallback compilation with Armadillo 14.6.3. Please consider defining -DARMA_USE_CURRENT. See GitHub issue #475 for more.’ 71 | #pragma message("Using fallback compilation with Armadillo 14.6.3. Please consider defining -DARMA_USE_CURRENT. See GitHub issue #475 for more.") | ^ rinvgaussian.cpp: In function ‘double rinvgaussian_slice(double, double, double, double)’: rinvgaussian.cpp:116:10: warning: unused variable ‘sigma’ [-Wunused-variable] 116 | double sigma = sqrt(sigma2); | ^~~~~ g++ -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/RcppNumerical/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-dev/RcppEigen/include' -I'/data/gannet/ripley/R/test-dev/RcppClock/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 slice_sampler.cpp -o slice_sampler.o In file included from /data/gannet/ripley/R/test-dev/RcppArmadillo/include/RcppArmadillo.h:29, from slice_sampler.cpp:3: /data/gannet/ripley/R/test-dev/RcppArmadillo/include/RcppArmadillo/version/arma.h:71:153: note: ‘#pragma message: Using fallback compilation with Armadillo 14.6.3. Please consider defining -DARMA_USE_CURRENT. See GitHub issue #475 for more.’ 71 | #pragma message("Using fallback compilation with Armadillo 14.6.3. Please consider defining -DARMA_USE_CURRENT. See GitHub issue #475 for more.") | ^ slice_sampler.cpp: In function ‘double slice_sampler_precision_c(double, double, double, double)’: slice_sampler.cpp:51:10: warning: unused variable ‘p_star’ [-Wunused-variable] 51 | double p_star = exp(f_star); | ^~~~~~ slice_sampler.cpp:56:10: warning: unused variable ‘sigma’ [-Wunused-variable] 56 | double sigma = sqrt(sigma2); | ^~~~~ g++ -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/RcppNumerical/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I'/data/gannet/ripley/R/test-dev/RcppEigen/include' -I'/data/gannet/ripley/R/test-dev/RcppClock/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 zeta.cpp -o zeta.o In file included from /data/gannet/ripley/R/test-dev/RcppArmadillo/include/RcppArmadillo.h:29, from zeta.cpp:3: /data/gannet/ripley/R/test-dev/RcppArmadillo/include/RcppArmadillo/version/arma.h:71:153: note: ‘#pragma message: Using fallback compilation with Armadillo 14.6.3. Please consider defining -DARMA_USE_CURRENT. See GitHub issue #475 for more.’ 71 | #pragma message("Using fallback compilation with Armadillo 14.6.3. Please consider defining -DARMA_USE_CURRENT. See GitHub issue #475 for more.") | ^ g++ -std=gnu++17 -shared -L/usr/local/lib64 -o BayesianLasso.so Modified_Hans_Gibbs.o Modified_PC_Gibbs.o RcppExports.o lasso_distribution.o rinvgaussian.o slice_sampler.o zeta.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/BayesianLasso/src' make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-devel/BayesianLasso/src' make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-devel/BayesianLasso/src' installing to /data/gannet/ripley/R/packages/tests-devel/BayesianLasso.Rcheck/00LOCK-BayesianLasso/00new/BayesianLasso/libs ** R ** 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 (BayesianLasso)