* installing to library ‘/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages’
* installing *source* package ‘mhcnuggetsr’ ...
** this is package ‘mhcnuggetsr’ version ‘1.1’
** package ‘mhcnuggetsr’ 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 ‘mhcnuggetsr’
    finding HTML links ... done
    are_mhcnuggets_names                    html  
    check_mhc_class                         html  
    check_mhcnuggets_installation           html  
    check_mhcnuggets_options                html  
    check_mhcnuggets_options_names          html  
    create_mhcnuggets_options               html  
    create_temp_peptides_path               html  
    create_test_mhcnuggets_options          html  
    default_params_doc                      html  
    downgrade_pip                           html  
    get_default_mhcnuggets_folder           html  
    get_example_filename                    html  
    get_example_filenames                   html  
    get_mhc_1_haplotypes                    html  
    get_mhc_2_haplotypes                    html  
    get_mhcnuggets_url                      html  
    get_mhcnuggets_version                  html  
    get_pip_version                         html  
    get_python_package_versions             html  
    get_trained_mhc_1_haplotypes            html  
    get_trained_mhc_2_haplotypes            html  
    install_mhcnuggets                      html  
    install_pip                             html  
    is_mhcnuggets_installed                 html  
    is_mhcnuggets_name                      html  
    is_mhcnuggets_options                   html  
    is_on_appveyor                          html  
    is_on_ci                                html  
    is_on_travis                            html  
    is_pip_installed                        html  
    mhcnuggetsr                             html  
    mhcnuggetsr_report                      html  
    mhcnuggetsr_self_test                   html  
    predict_ic50                            html  
    predict_ic50_from_file                  html  
    predict_ic50s                           html  
    set_is_mhcnuggets_installed             html  
    set_pip_version                         html  
    to_mhcnuggets_name                      html  
    to_mhcnuggets_names                     html  
    uninstall_mhcnuggets                    html  
    uninstall_pip                           html  
    upgrade_pip                             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 (mhcnuggetsr)