* installing to library ‘/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages’
* installing *source* package ‘scITD’ ...
** package ‘scITD’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C++ compiler: ‘g++-13 (Debian 13.2.0-13) 13.2.0’
make[1]: Entering directory '/tmp/RtmpUntPqv/R.INSTALL3f8b5b744fbc1c/scITD/src'
g++-13 -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/RcppProgress/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c RcppExports.cpp -o RcppExports.o
g++-13 -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/RcppProgress/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c colMeanVars.cpp -o colMeanVars.o
colMeanVars.cpp: In function ‘Rcpp::DataFrame colMeanVars(SEXP, SEXP, int)’:
colMeanVars.cpp:45:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘arma::uword’ {aka ‘unsigned int’} [-Wsign-compare]
45 | for(int j=0;j<rs.size();j++) { if(rs[j]) { nrows++; } }
| ~^~~~~~~~~~
g++-13 -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/RcppProgress/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c get_sums.cpp -o get_sums.o
g++-13 -std=gnu++17 -shared -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -Wl,-O1 -o scITD.so RcppExports.o colMeanVars.o get_sums.o -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -lR
make[1]: Leaving directory '/tmp/RtmpUntPqv/R.INSTALL3f8b5b744fbc1c/scITD/src'
make[1]: Entering directory '/tmp/RtmpUntPqv/R.INSTALL3f8b5b744fbc1c/scITD/src'
make[1]: Leaving directory '/tmp/RtmpUntPqv/R.INSTALL3f8b5b744fbc1c/scITD/src'
installing to /home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/00LOCK-scITD/00new/scITD/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 ‘scITD’
finding HTML links ... done
apply_combat html
calculate_fiber_fstats html
check_rec_pres html
clean_data html
colMeanVars html
compare_decompositions html
compute_LR_interact html
compute_associations html
compute_donor_props html
convert_gn html
count_word html
determine_ranks_tucker html
form_tensor html
get_all_lds_factor_plots html
get_callouts_annot html
get_ctype_exp_var html
get_ctype_prop_associations html
get_ctype_subc_prop_associations html
get_ctype_vargenes html
get_donor_meta html
get_factor_exp_var html
get_fstats_pvals html
get_gene_modules html
get_gene_set_vectors html
get_indv_subtype_associations html
get_intersecting_pathways html
get_leading_edge_genes html
get_lm_pvals html
get_max_correlations html
get_meta_associations html
get_min_sig_genes html
get_module_enr html
get_normalized_variance html
get_num_batch_ranks html
get_one_factor html
get_one_factor_gene_pvals html
get_pseudobulk html
get_real_fstats html
get_reconstruct_errors_svd html
get_significance_vectors html
get_subclust_de_hmaps html
get_subclust_enr_dotplot html
get_subclust_enr_fig html
get_subclust_enr_hmap html
get_subclust_umap html
get_subclusters html
get_subtype_prop_associations html
get_sums html
ht_clusters html
identify_sex_metadata html
initialize_params html
instantiate_scMinimal html
is_GO_id html
make_new_container html
merge_small_clusts html
nmf_unfolded html
norm_var_helper html
normalize_counts html
normalize_pseudobulk html
parse_data_by_ctypes html
pca_unfolded html
plotDEheatmap_conos html
plot_donor_matrix html
plot_donor_props html
plot_donor_sig_genes html
plot_dscore_enr html
plot_gsea_hmap html
plot_gsea_hmap_w_similarity html
plot_gsea_sub html
plot_loadings_annot html
plot_mod_and_lig html
plot_multi_module_enr html
plot_rec_errors_bar_svd html
plot_rec_errors_line_svd html
plot_scores_by_meta html
plot_select_sets html
plot_stability_results html
plot_subclust_associations html
prep_LR_interact html
project_new_data html
reduce_dimensions html
reduce_to_vargenes html
render_multi_plots html
reshape_loadings html
run_fgsea html
run_gsea_one_factor html
run_hypergeometric_gsea html
run_jackstraw html
run_stability_analysis html
run_tucker_ica html
sample_fibers html
scale_fontsize html
scale_variance html
seurat_to_scMinimal html
shuffle_fibers html
stack_tensor html
stop_wrap html
subset_scMinimal html
test_container html
tucker_ica_helper html
update_params html
vargenes_anova html
** building package indices
** 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 (scITD)