* installing to library ‘/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages’
* installing *source* package ‘MIC’ ...
** package ‘MIC’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C++ compiler: ‘g++-14 (Debian 14.2.0-16) 14.2.0’
make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpXBai74/R.INSTALL3c9e3c1d7093ae/MIC/src'
g++-14 -std=gnu++17 -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/usr/local/include -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -pedantic -mtune=native   -c RcppExports.cpp -o RcppExports.o
g++-14 -std=gnu++17 -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/usr/local/include -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -pedantic -mtune=native   -c kmers.cpp -o kmers.o
g++-14 -std=gnu++17 -shared -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -Wl,-O1 -o MIC.so RcppExports.o kmers.o -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -lR
make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpXBai74/R.INSTALL3c9e3c1d7093ae/MIC/src'
make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpXBai74/R.INSTALL3c9e3c1d7093ae/MIC/src'
make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpXBai74/R.INSTALL3c9e3c1d7093ae/MIC/src'
installing to /home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/00LOCK-MIC/00new/MIC/libs
** R
** data
*** moving datasets to lazyload DB
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package ‘MIC’
    finding HTML links ... done
    MIC-package                             html  
    bias                                    html  
    clean_raw_mic                           html  
    combined_file_system                    html  
    compare_mic                             html  
    compare_sir                             html  
    download_patric_db                      html  
    ecoffs                                  html  
    essential_agreement                     html  
    example_mics                            html  
    fill_dilution_levels                    html  
    force_mic                               html  
    genome_to_libsvm                        html  
    genomes_to_kmer_libsvm                  html  
    get_mic                                 html  
    kmers                                   html  
    load_patric_db                          html  
    mic_censor                              html  
    mic_r_breakpoint                        html  
    mic_range                               html  
    mic_s_breakpoint                        html  
    mic_uncensor                            html  
    move_files                              html  
    plot.mic_validation                     html  
    print.mic_validation                    html  
    print.mic_validation_summary            html  
    pull_PATRIC_genomes                     html  
    qc_in_range                             html  
    qc_on_target                            html  
    replace_multiple_slashes                html  
    reverse_complement                      html  
    split_and_combine_files                 html  
    squeezed_index_to_str                   html  
    squeezed_mers                           html  
    standardise_mic                         html  
    summary.mic_validation                  html  
    table                                   html  
    tidy_patric_meta_data                   html  
    train_test_filesystem                   html  
    unsqueezed_index_to_str                 html  
    unsqueezed_mers                         html  
    xgb.cv.lowmem                           html  
*** copying figures
** 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 (MIC)