* installing to library ‘/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages’
* installing *source* package ‘pathfindR’ ...
** package ‘pathfindR’ successfully unpacked and MD5 sums checked
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package ‘pathfindR’
    finding HTML links ... done
    UpSet_plot                              html  
    active_snw_enrichment_wrapper           html  
    active_snw_search                       html  
    annotate_term_genes                     html  
    check_java_version                      html  
    cluster_enriched_terms                  html  
    cluster_graph_vis                       html  
    color_kegg_pathway                      html  
    combine_pathfindR_results               html  
    combined_results_graph                  html  
    configure_output_dir                    html  
    create_HTML_report                      html  
    create_kappa_matrix                     html  
    enrichment                              html  
    enrichment_analyses                     html  
    enrichment_chart                        html  
    fetch_gene_set                          html  
    fetch_java_version                      html  
    filterActiveSnws                        html  
    fuzzy_term_clustering                   html  
    get_biogrid_pin                         html  
    get_gene_sets_list                      html  
    get_kegg_gsets                          html  
    get_mgsigdb_gsets                       html  
    get_pin_file                            html  
    get_reactome_gsets                      html  
    gset_list_from_gmt                      html  
    hierarchical_term_clustering            html  
    hyperg_test                             html  
    input_processing                        html  
    input_testing                           html  
    isColor                                 html  
    pathfindR                               html  
    plot_scores                             html  
    process_pin                             html  
    return_pin_path                         html  
    run_pathfindR                           html  
    score_terms                             html  
    single_iter_wrapper                     html  
    summarize_enrichment_results            html  
    term_gene_graph                         html  
    term_gene_heatmap                       html  
    visualize_KEGG_diagram                  html  
    visualize_active_subnetworks            html  
    visualize_term_interactions             html  
    visualize_terms                         html  
*** copying figures
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (pathfindR)