* installing to library ‘/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages’ * installing *source* package ‘myTAI’ ... ** this is package ‘myTAI’ version ‘2.3.4’ ** package ‘myTAI’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C++ compiler: ‘g++-14 (Debian 14.3.0-10) 14.3.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpLCTykF/R.INSTALL3ef5a7bed25da/myTAI/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/RcppArmadillo/include' -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/RcppThread/include' -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -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/RcppArmadillo/include' -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/RcppThread/include' -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c null_txis.cpp -o null_txis.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/RcppArmadillo/include' -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/RcppThread/include' -I'/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c sc_txi.cpp -o sc_txi.o sc_txi.cpp: In function ‘Rcpp::NumericVector cpp_txi_sc(const arma::sp_mat&, const arma::vec&, int, int)’: sc_txi.cpp:36:30: warning: comparison of integer expressions of different signedness: ‘const arma::uword’ {aka ‘const unsigned int’} and ‘int’ [-Wsign-compare] 36 | if (strata_values.n_elem != n_genes) { | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ g++-14 -std=gnu++17 -shared -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -Wl,-O1 -o myTAI.so RcppExports.o null_txis.o sc_txi.o -latomic -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpLCTykF/R.INSTALL3ef5a7bed25da/myTAI/src' make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpLCTykF/R.INSTALL3ef5a7bed25da/myTAI/src' make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpLCTykF/R.INSTALL3ef5a7bed25da/myTAI/src' installing to /home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/00LOCK-myTAI/00new/myTAI/libs ** R ** data *** moving datasets to lazyload DB ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices converting help for package ‘myTAI’ finding HTML links ... done BulkPhyloExpressionSet html BulkPhyloExpressionSet_from_df html COUNT_TRANSFORMS html ConservationTestResult html Distribution html PS_colours html PhyloExpressionSetBase html ScPhyloExpressionSet html ScPhyloExpressionSet_from_matrix html ScPhyloExpressionSet_from_seurat html TAI html TDI html TEI html TI_map html TPI html TXI html TXI_conf_int html TXI_std_dev html TestResult html age.apply html as_BulkPhyloExpressionSet html as_data_frame html check_BulkPhyloExpressionSet html check_PhyloExpressionSet html check_ScPhyloExpressionSet html collapse html conf_int html consensus html convergence_plots html cpp_txi_sc html destroy_pattern html diagnose_test_robustness html distributions html dot-TXI html dot-TXI_sc html dot-TXI_sc_adaptive html dot-collapse_replicates html dot-compute_reduction html dot-fit_gamma html dot-fit_normal html dot-get_expression_from_seurat html dot-get_p_value html dot-memo_generate_conservation_txis html dot-pTXI html dot-plot_gene_heatmap_impl html dot-prepare_sc_plot_data html dot-pseudobulk_expression html dot-to_std_expr html downsample html downsample_expression html early_gene html ec_score html example_phyex_set html example_phyex_set_old html example_phyex_set_sc html exp_p html full_gatai_convergence_plot html gatai_animate_destruction html genes_filter_dynamic html genes_lowly_expressed html genes_top_expr html genes_top_mean html genes_top_variance html geom_mean html get_angles html goodness_of_fit html late_gene html lc_score html match_map html match_map_sc_matrix html match_map_sc_seurat html mid_gene html mod_pi html new_options_property html new_required_property html normalise_stage_expression html omit_matrix html pTXI html pair_score html permute_PS html petal_plot html plot_contribution html plot_cullen_frey html plot_distribution_expression html plot_distribution_pTAI html plot_distribution_pTAI_qqplot html plot_distribution_strata html plot_gatai_results html plot_gene_heatmap html plot_gene_profiles html plot_gene_space html plot_mean_var html plot_null_txi_sample html plot_relative_expression_bar html plot_relative_expression_line html plot_sample_space html plot_signature html plot_signature_gene_quantiles html plot_signature_multiple html plot_signature_transformed html plot_strata_expression html print.TestResult html quantile_rank html reductive_hourglass_score html rel_exp_matrix html relative_expression html remove_genes html rename_phyex_set html rev_mid_gene html reverse_hourglass_score html rowVars html sTXI html save_gatai_results_pdf html select_genes html set_expression html stat_early_conservation_test html stat_flatline_test html stat_generate_conservation_txis html stat_generic_conservation_test html stat_late_conservation_test html stat_pairwise_test html stat_reductive_hourglass_test html stat_reverse_hourglass_test html strata_enrichment html taxid html tf html tf_PS html tf_stability html threshold_comparison_plots html transform_counts html *** 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 (myTAI)