* installing *source* package ‘BayesianLasso’ ...
** this is package ‘BayesianLasso’ version ‘0.4.1’
** package ‘BayesianLasso’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C++ compiler: ‘g++ (GCC) 15.2.1 20260123 (Red Hat 15.2.1-7)’
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-devel/BayesianLasso/src'
g++ -std=gnu++20 -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/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
g++ -std=gnu++20 -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/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
Modified_PC_Gibbs.cpp: In function ‘arma::mat crossprod_cpp(arma::mat, arma::vec, arma::mat, double)’:
Modified_PC_Gibbs.cpp:164:7: warning: unused variable ‘n’ [-Wunused-variable]
164 | int n = mX.n_rows;
| ^
g++ -std=gnu++20 -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/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++ -std=gnu++20 -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/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
g++ -std=gnu++20 -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/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
lasso_distribution.cpp: In function ‘double zcalc_7sf(double, double, double, int)’:
lasso_distribution.cpp:285:7: warning: unused variable ‘error_type’ [-Wunused-variable]
285 | 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:368:7: warning: unused variable ‘error_type’ [-Wunused-variable]
368 | 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:606:10: warning: unused variable ‘m_plus’ [-Wunused-variable]
606 | double m_plus = res["m_plus"];
| ^~~~~~
lasso_distribution.cpp:607:10: warning: unused variable ‘m_minus’ [-Wunused-variable]
607 | double m_minus = res["m_minus"];
| ^~~~~~~
rinvgaussian.cpp: In function ‘double rinvgaussian_slice(double, double, double, double)’:
rinvgaussian.cpp:114:10: warning: unused variable ‘sigma’ [-Wunused-variable]
114 | double sigma = sqrt(sigma2);
| ^~~~~
g++ -std=gnu++20 -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/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
g++ -std=gnu++20 -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/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_samplers.cpp -o slice_samplers.o
g++ -std=gnu++20 -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/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
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);
| ^~~~~
slice_samplers.cpp: In function ‘double slice_orthogonal(double, arma::vec, arma::vec, double, double, double, double, double, double, double)’:
slice_samplers.cpp:204:35: warning: ‘x_star’ may be used uninitialized [-Wmaybe-uninitialized]
204 | double f_star = f_fun_orthogonal(x_star, vs2, vc2, a_til, b, u_til, v, yTy); num_fun_evals ++;
| ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
slice_samplers.cpp:179:10: note: ‘x_star’ was declared here
179 | double x_star;
| ^~~~~~
In file included from /data/gannet/ripley/R/test-dev/RcppArmadillo/include/current/armadillo:435,
from /data/gannet/ripley/R/test-dev/RcppArmadillo/include/RcppArmadillo/interface/RcppArmadilloForward.h:57,
from /data/gannet/ripley/R/test-dev/RcppArmadillo/include/RcppArmadillo.h:32,
from slice_samplers.cpp:3:
In function ‘void arma::arma_check(bool, const T1&) [with T1 = char [66]]’,
inlined from ‘arma::vec arma::randu(uword, const distr_param&)’ at /data/gannet/ripley/R/test-dev/RcppArmadillo/include/current/armadillo_bits/fn_randu.hpp:122:23,
inlined from ‘double slice_orthogonal(double, arma::vec, arma::vec, double, double, double, double, double, double, double)’ at slice_samplers.cpp:289:34:
/data/gannet/ripley/R/test-dev/RcppArmadillo/include/current/armadillo_bits/debug.hpp:434:3: warning: ‘xL’ may be used uninitialized [-Wmaybe-uninitialized]
434 | if(state) { arma_stop_logic_error(arma_str::str_wrapper(x)); }
| ^~
slice_samplers.cpp: In function ‘double slice_orthogonal(double, arma::vec, arma::vec, double, double, double, double, double, double, double)’:
slice_samplers.cpp:230:10: note: ‘xL’ was declared here
230 | double xL;
| ^~
In function ‘void arma::arma_check(bool, const T1&) [with T1 = char [66]]’,
inlined from ‘arma::vec arma::randu(uword, const distr_param&)’ at /data/gannet/ripley/R/test-dev/RcppArmadillo/include/current/armadillo_bits/fn_randu.hpp:122:23,
inlined from ‘double slice_orthogonal(double, arma::vec, arma::vec, double, double, double, double, double, double, double)’ at slice_samplers.cpp:289:34:
/data/gannet/ripley/R/test-dev/RcppArmadillo/include/current/armadillo_bits/debug.hpp:434:3: warning: ‘xR’ may be used uninitialized [-Wmaybe-uninitialized]
434 | if(state) { arma_stop_logic_error(arma_str::str_wrapper(x)); }
| ^~
slice_samplers.cpp: In function ‘double slice_orthogonal(double, arma::vec, arma::vec, double, double, double, double, double, double, double)’:
slice_samplers.cpp:231:10: note: ‘xR’ was declared here
231 | double xR;
| ^~
g++ -std=gnu++20 -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 slice_samplers.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)