* installing to library ‘/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages’
* installing *source* package ‘polymapR’ ...
** this is package ‘polymapR’ version ‘1.1.7’
** package ‘polymapR’ successfully unpacked and MD5 sums checked
** using staged installation
** R
** data
*** moving datasets to lazyload DB
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package ‘polymapR’
    finding HTML links ... done
    ALL_dosages                             html  
    LGHomDf_P1_1                            html  
    MDSMap_from_list                        html  
    P1_SxS_Assigned                         html  
    P1_homologues                           html  
    PCA_progeny                             html  
    SNSN_LOD_deviations                     html  
    SN_SN_P1                                html  
    add_dup_markers                         html  
    all_linkages_list_P1                    html  
    assign_SN_SN                            html  
    assign_linkage_group                    html  
    bridgeHomologues                        html  
    calcSegtypeInfo                         html  
    checkF1                                 html  
    check_map                               html  
    check_marker_assignment                 html  
    check_maxP                              html  
    chk1                                    html  
    cluster_SN_markers                      html  
    cluster_per_LG                          html  
    compare_maps                            html  
    consensus_LG_assignment                 html  
    consensus_LG_names                      html  
    convert_marker_dosages                  html  
    convert_polyRAD                         html  
    convert_updog                           html  
    correctDosages                          html  
    createTetraOriginInput                  html  
    create_phased_maplist                   html  
    define_LG_structure                     html  
    exampleRAD_mapping                      html  
    finish_linkage_analysis                 html  
    get_markertype_combinations             html  
    gp_df                                   html  
    gp_overview                             html  
    gp_vignette_data                        html  
    homologue_lg_assignment                 html  
    integrated.maplist                      html  
    linkage                                 html  
    linkage.gp                              html  
    map1                                    html  
    map2                                    html  
    map3                                    html  
    maplist_P1                              html  
    marker_binning                          html  
    marker_data_summary                     html  
    merge_homologues                        html  
    mout                                    html  
    overviewSNlinks                         html  
    p4_functions                            html  
    parental_quantities                     html  
    phase_SN_diploid                        html  
    phased.maplist                          html  
    plot_hom_vs_LG                          html  
    plot_map                                html  
    plot_phased_maplist                     html  
    polymapR-package                        html  
    r2_functions                            html  
    r3_functions                            html  
    r4_functions                            html  
    r6_functions                            html  
    r_LOD_plot                              html  
    screen_for_NA_values                    html  
    screen_for_duplicate_individuals        html  
    screen_for_duplicate_individuals.gp     html  
    screen_for_duplicate_markers            html  
    test_prefpairing                        html  
    write.TSNPM                             html  
    write.mct                               html  
    write.pwd                               html  
    write_nested_list                       html  
    write_pwd_list                          html  
** 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 (polymapR)