* installing to library ‘/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages’ * installing *source* package ‘mashr’ ... ** package ‘mashr’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C++ compiler: ‘g++-14 (Debian 14.2.0-3) 14.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpPkNoGa/R.INSTALL125ae822be2a45/mashr/src' g++-14 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/RcppArmadillo/include' -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/RcppGSL/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fopenmp -I/usr/include -DARMA_64BIT_WORD=1 -fpic -g -O2 -Wall -pedantic -mtune=native -c RcppExports.cpp -o RcppExports.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/RcppArmadillo/include' -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/RcppGSL/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fopenmp -I/usr/include -DARMA_64BIT_WORD=1 -fpic -g -O2 -Wall -pedantic -mtune=native -c extreme_deconvolution.cpp -o extreme_deconvolution.o extreme_deconvolution.cpp: In function ‘_Z12proj_EM_stepP9datapointiP8gaussianiPbS3_S3_Pdbdbbb._omp_fn.0’: extreme_deconvolution.cpp:728:47: warning: ‘Rtrans’ may be used uninitialized [-Wmaybe-uninitialized] 728 | gsl_blas_dsymm(CblasLeft, CblasUpper, 1.0, thisgaussian->VV, Rtrans, 0.0, VRT);// Only the upper right part of VV is calculated --> use only that part | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ extreme_deconvolution.cpp:47:14: note: ‘Rtrans’ was declared here 47 | gsl_matrix * Rtrans = NULL; | ^~~~~~ extreme_deconvolution.cpp:729:47: warning: ‘VRT’ may be used uninitialized [-Wmaybe-uninitialized] 729 | gsl_blas_dgemm(CblasNoTrans, CblasNoTrans, 1.0, thisdata->RR, VRT, 1.0, Tij); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ extreme_deconvolution.cpp:45:14: note: ‘VRT’ was declared here 45 | gsl_matrix * VRT = NULL; | ^~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/RcppArmadillo/include' -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/RcppGSL/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fopenmp -I/usr/include -DARMA_64BIT_WORD=1 -fpic -g -O2 -Wall -pedantic -mtune=native -c mash.cpp -o mash.o g++-14 -std=gnu++17 -shared -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -Wl,-O1 -o mashr.so RcppExports.o extreme_deconvolution.o mash.o -fopenmp -llapack -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -lRblas -lgfortran -lm -lquadmath -Wl,-O1 -L/usr/lib/x86_64-linux-gnu -lgsl -lgslcblas -lm -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpPkNoGa/R.INSTALL125ae822be2a45/mashr/src' make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpPkNoGa/R.INSTALL125ae822be2a45/mashr/src' make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpPkNoGa/R.INSTALL125ae822be2a45/mashr/src' installing to /home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/00LOCK-mashr/00new/mashr/libs ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices converting help for package ‘mashr’ finding HTML links ... done bovy_wrapper html calc_lik_matrix html calc_lik_matrix_common_cov html calc_lik_vector html calc_relative_lik_matrix html compute_alt_loglik_from_matrix_and_pi html compute_loglik_from_matrix_and_pi html compute_null_loglik_from_matrix html compute_posterior_matrices html compute_posterior_matrices_common_cov_R html compute_posterior_matrices_general_R html compute_posterior_weights html compute_vloglik_from_matrix_and_pi html contrast_matrix html cov_all_zeros html cov_canonical html cov_ed html cov_equal_effects html cov_first_singleton html cov_flash html cov_from_factors html cov_pca html cov_simple_het html cov_udi html cov_udi_single html estimate_null_correlation_simple html expand_cov html extreme_deconvolution html get_estimated_pi html get_log10bf html get_n_significant_conditions html get_pairwise_sharing html get_pairwise_sharing_from_samples html get_samples html get_significant_results html make_names html mash html mash_1by1 html mash_compute_loglik html mash_compute_posterior_matrices html mash_compute_vloglik html mash_estimate_corr_em html mash_plot_meta html mash_set_data html mash_set_data_contrast html mash_update_data html optimize_pi html posterior_cov html posterior_mean html posterior_mean_matrix html scale_cov html sim_contrast1 html sim_contrast2 html simple_sims html simple_sims2 html teem_wrapper html udi_model_matrix html ** 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 (mashr)