* installing to library ‘/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages’
* installing *source* package ‘MDaRes’ ...
** this is package ‘MDaRes’ version ‘0.0.2’
** package ‘MDaRes’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C++ compiler: ‘g++-15 (Debian 15.3.0-2) 15.3.0’
make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpAsyjVA/R.INSTALL4ce8a1fdd8ffc/MDaRes/src'
g++-15 -std=gnu++20 -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/usr/local/include -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -pedantic -mtune=native   -c RcppExports.cpp -o RcppExports.o
g++-15 -std=gnu++20 -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/usr/local/include -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -pedantic -mtune=native   -c encoding_rmsd_qcp_25_SINGLE.cpp -o encoding_rmsd_qcp_25_SINGLE.o
g++-15 -std=gnu++20 -shared -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -Wl,-O1 -o MDaRes.so RcppExports.o encoding_rmsd_qcp_25_SINGLE.o -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -lR
make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpAsyjVA/R.INSTALL4ce8a1fdd8ffc/MDaRes/src'
make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpAsyjVA/R.INSTALL4ce8a1fdd8ffc/MDaRes/src'
make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpAsyjVA/R.INSTALL4ce8a1fdd8ffc/MDaRes/src'
installing to /home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/00LOCK-MDaRes/00new/MDaRes/libs
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package ‘MDaRes’
    finding HTML links ... done
    MDaRes-package                          html  
    MI_plot                                 html  
    MI_ranking_couple                       html  
    MI_ranking_median                       html  
    MImat                                   html  
    SA_encoding                             html  
    add_active_site                         html  
    add_binding_site                        html  
    add_disulfide_bond                      html  
    add_domain                              html  
    add_glycosilation                       html  
    add_lipidation                          html  
    add_location                            html  
    add_modified_residue                    html  
    add_molecule_processing                 html  
    add_motive                              html  
    add_secondary_structure                 html  
    add_uniprot_annotation                  html  
    add_variants                            html  
    build_SA_matrix                         html  
    colnames_substring                      html  
    create_annotation_df                    html  
    do_MI_plot                              html  
    do_freq_diff_plot                       html  
    do_freq_plot                            html  
    do_shannon_entropy_diff_plot            html  
    do_shannon_entropy_plot                 html  
    entropy_visualization                   html  
    freq_diff_plot                          html  
    freq_plot                               html  
    generate_fragment_colnames              html  
    get_res_numbering                       html  
    import_SA                               html  
    nMImat                                  html  
    pdb_chain_trim                          html  
    read_pdb_cif                            html  
    shannon_entropy                         html  
    shannon_entropy_diff_plot               html  
    shannon_entropy_plot                    html  
    shannon_ranking                         html  
    total_ranking                           html  
    xyz_matrix_to_vector                    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 (MDaRes)