* installing to library ‘/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages’
* installing *source* package ‘LBDiscover’ ...
** this is package ‘LBDiscover’ version ‘0.1.0’
** package ‘LBDiscover’ 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 ‘LBDiscover’
    finding HTML links ... done
    abc_model                               html  
    abc_model_opt                           html  
    abc_model_sig                           html  
    abc_timeslice                           html  
    add_statistical_significance            html  
    alternative_validation                  html  
    anc_model                               html  
    apply_bitola_flexible                   html  
    apply_correction                        html  
    authenticate_umls                       html  
    bitola_model                            html  
    calc_bibliometrics                      html  
    calc_doc_sim                            html  
    calculate_score                         html  
    clear_pubmed_cache                      html  
    cluster_docs                            html  
    compare_terms                           html  
    create_citation_net                     html  
    create_comat                            html  
    create_dummy_dictionary                 html  
    create_report                           html  
    create_sparse_comat                     html  
    create_tdm                              html  
    create_term_document_matrix             html  
    detect_lang                             html  
    diversify_abc                           html  
    diversify_b_terms                       html  
    diversify_c_paths                       html  
    dot-dict_cache_env                      html  
    dot-pubmed_cache_env                    html  
    enhance_abc_kb                          html  
    eval_evidence                           html  
    export_chord                            html  
    export_chord_diagram                    html  
    export_network                          html  
    extract_entities                        html  
    extract_entities_workflow               html  
    extract_mesh_from_text                  html  
    extract_ner                             html  
    extract_ngrams                          html  
    extract_terms                           html  
    extract_topics                          html  
    fetch_and_parse_gene                    html  
    fetch_and_parse_pmc                     html  
    fetch_and_parse_protein                 html  
    fetch_and_parse_pubmed                  html  
    filter_by_type                          html  
    find_abc_all                            html  
    find_similar_docs                       html  
    find_term                               html  
    gen_report                              html  
    get_dict_cache                          html  
    get_pmc_fulltext                        html  
    get_pubmed_cache                        html  
    get_service_ticket                      html  
    get_term_vars                           html  
    get_type_dist                           html  
    get_umls_semantic_types                 html  
    is_valid_biomedical_entity              html  
    list_to_df                              html  
    load_dictionary                         html  
    load_from_mesh                          html  
    load_from_umls                          html  
    load_mesh_terms_from_pubmed             html  
    load_results                            html  
    lsi_model                               html  
    map_ontology                            html  
    merge_entities                          html  
    merge_results                           html  
    min_results                             html  
    ncbi_search                             html  
    null_coalesce                           html  
    parallel_analysis                       html  
    parse_pubmed_xml                        html  
    perm_test_abc                           html  
    plot_heatmap                            html  
    plot_network                            html  
    prep_articles                           html  
    preprocess_text                         html  
    process_mesh_chunks                     html  
    process_mesh_xml                        html  
    pubmed_search                           html  
    query_external_api                      html  
    query_mesh                              html  
    query_umls                              html  
    remove_ac_terms                         html  
    retry_api_call                          html  
    run_lbd                                 html  
    safe_diversify                          html  
    sanitize_dictionary                     html  
    save_results                            html  
    segment_sentences                       html  
    shadowtext                              html  
    standard_validation                     html  
    valid_entities                          html  
    validate_abc                            html  
    validate_biomedical_entity              html  
    validate_entity_comprehensive           html  
    validate_entity_with_nlp                html  
    validate_umls_key                       html  
    vec_preprocess                          html  
    vis_abc_heatmap                         html  
    vis_heatmap                             html  
    vis_network                             html  
    visualize_abc_network                   html  
*** copying figures
** building package indices
** 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 (LBDiscover)