* installing to library ‘/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages’
* installing *source* package ‘iCellR’ ...
** package ‘iCellR’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C++ compiler: ‘g++-14 (Debian 14.2.0-6) 14.2.0’
make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpsKSmKW/R.INSTALL2fa2f9416207e3/iCellR/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 jaccard_coeff.cpp -o jaccard_coeff.o
g++-14 -std=gnu++17 -shared -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -Wl,-O1 -o iCellR.so RcppExports.o jaccard_coeff.o -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -lR
make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpsKSmKW/R.INSTALL2fa2f9416207e3/iCellR/src'
make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpsKSmKW/R.INSTALL2fa2f9416207e3/iCellR/src'
make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpsKSmKW/R.INSTALL2fa2f9416207e3/iCellR/src'
installing to /home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/00LOCK-iCellR/00new/iCellR/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 ‘iCellR’
    finding HTML links ... done
    Rphenograph                             html  
    add.10x.image                           html  
    add.adt                                 html  
    add.vdj                                 html  
    adt.rna.merge                           html  
    bubble.gg.plot                          html  
    capture.image.10x                       html  
    cc                                      html  
    cell.cycle                              html  
    cell.filter                             html  
    cell.gating                             html  
    cell.type.pred                          html  
    change.clust                            html  
    clono.plot                              html  
    clust.avg.exp                           html  
    clust.cond.info                         html  
    clust.ord                               html  
    clust.rm                                html  
    clust.stats.plot                        html  
    cluster.plot                            html  
    data.aggregation                        html  
    data.scale                              html  
    down.sample                             html  
    find.dim.genes                          html  
    findMarkers                             html  
    find_neighbors                          html  
    g2m.phase                               html  
    gate.to.clust                           html  
    gene.plot                               html  
    gene.stats                              html  
    gg.cor                                  html  
    heatmap.gg.plot                         html  
    hto.anno                                html  
    i.score                                 html  
    iba                                     html  
    iclust                                  html  
    load.h5                                 html  
    load10x                                 html  
    make.bed                                html  
    make.gene.model                         html  
    make.obj                                html  
    myImp                                   html  
    norm.adt                                html  
    norm.data                               html  
    opt.pcs.plot                            html  
    prep.vdj                                html  
    pseudotime                              html  
    pseudotime.knetl                        html  
    pseudotime.tree                         html  
    qc.stats                                html  
    run.anchor                              html  
    run.cca                                 html  
    run.clustering                          html  
    run.diff.exp                            html  
    run.diffusion.map                       html  
    run.impute                              html  
    run.knetl                               html  
    run.mnn                                 html  
    run.pc.tsne                             html  
    run.pca                                 html  
    run.phenograph                          html  
    run.tsne                                html  
    run.umap                                html  
    finding level-2 HTML links ... done

    s.phase                                 html  
    spatial.plot                            html  
    stats.plot                              html  
    top.markers                             html  
    vdj.stats                               html  
    volcano.ma.plot                         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 (iCellR)