* installing to library ‘/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages’
* installing *source* package ‘immunarch’ ...
** this is package ‘immunarch’ version ‘0.10.3’
** package ‘immunarch’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C++ compiler: ‘g++-14 (Debian 14.3.0-8) 14.3.0’
make[1]: Entering directory '/home/hornik/tmp/scratch/RtmprBPDGY/R.INSTALL24bb15419aef70/immunarch/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 fill_functions.cpp -o fill_functions.o
g++-14 -std=gnu++17 -shared -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -Wl,-O1 -o immunarch.so RcppExports.o fill_functions.o -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -lR
make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmprBPDGY/R.INSTALL24bb15419aef70/immunarch/src'
make[1]: Entering directory '/home/hornik/tmp/scratch/RtmprBPDGY/R.INSTALL24bb15419aef70/immunarch/src'
make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmprBPDGY/R.INSTALL24bb15419aef70/immunarch/src'
installing to /home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/00LOCK-immunarch/00new/immunarch/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 ‘immunarch’
    finding HTML links ... done
    aa_properties                           html  
    aa_table                                html  
    add_class                               html  
    airr_clonality                          html  
    airr_diversity                          html  
    airr_public                             html  
    airr_stats                              html  
    annotate_clonality                      html  
    apply_symm                              html  
    bcrdata                                 html  
    bunch_translate                         html  
    check_distribution                      html  
    coding                                  html  
    dbAnnotate                              html  
    dbLoad                                  html  
    dot-quant_column_choice                 html  
    entropy                                 html  
    fixVis                                  html  
    geneUsage                               html  
    geneUsageAnalysis                       html  
    gene_segments                           html  
    gene_stats                              html  
    getKmers                                html  
    get_immunarch_news                      html  
    group_from_metadata                     html  
    has_class                               html  
    im_common_args                          html  
    immdata                                 html  
    immunarch_v1_updates                    html  
    immunr_data_format                      html  
    immunr_hclust                           html  
    immunr_pca                              html  
    inc_overlap                             html  
    list_immunarch_news                     html  
    matrixdiagcopy                          html  
    pubRep                                  html  
    pubRepApply                             html  
    pubRepFilter                            html  
    pubRepStatistics                        html  
    public_matrix                           html  
    register_immunarch_method               html  
    repAlignLineage                         html  
    repClonalFamily                         html  
    repClonality                            html  
    repDiversity                            html  
    repExplore                              html  
    repFilter                               html  
    repGermline                             html  
    repLoad                                 html  
    repOverlap                              html  
    repOverlapAnalysis                      html  
    repSample                               html  
    repSave                                 html  
    repSomaticHypermutation                 html  
    select_barcodes                         html  
    select_clusters                         html  
    seqCluster                              html  
    seqDist                                 html  
    set_pb                                  html  
    spectratype                             html  
    split_to_kmers                          html  
    switch_type                             html  
    top                                     html  
    trackClonotypes                         html  
    vis                                     html  
    vis.clonal_family                       html  
    vis.clonal_family_tree                  html  
    vis.immunr_chao1                        html  
    vis.immunr_clonal_prop                  html  
    vis.immunr_dynamics                     html  
    vis.immunr_exp_vol                      html  
    vis.immunr_gene_usage                   html  
    vis.immunr_hclust                       html  
    vis.immunr_inc_overlap                  html  
    vis.immunr_kmeans                       html  
    vis.immunr_kmer_table                   html  
    vis.immunr_mds                          html  
    vis.immunr_ov_matrix                    html  
    vis.immunr_public_repertoire            html  
    vis.immunr_public_statistics            html  
    vis.step_failure_ignored                html  
    vis_bar                                 html  
    vis_box                                 html  
    vis_circos                              html  
    vis_heatmap                             html  
    vis_heatmap2                            html  
    vis_hist                                html  
    vis_immunr_kmer_profile_main            html  
    vis_public_clonotypes                   html  
    vis_public_frequencies                  html  
    vis_textlogo                            html  
*** copying figures
** building package indices
** installing vignettes
** 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 (immunarch)