* installing to library ‘/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages’
* installing *source* package ‘immunarch’ ...
** package ‘immunarch’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C++ compiler: ‘g++-13 (Debian 13.2.0-23) 13.2.0’
make[1]: Entering directory '/tmp/RtmpU1mtK5/R.INSTALL1b45dd6f568224/immunarch/src'
g++-13 -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++-13 -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++-13 -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 '/tmp/RtmpU1mtK5/R.INSTALL1b45dd6f568224/immunarch/src'
make[1]: Entering directory '/tmp/RtmpU1mtK5/R.INSTALL1b45dd6f568224/immunarch/src'
make[1]: Leaving directory '/tmp/RtmpU1mtK5/R.INSTALL1b45dd6f568224/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
apply_symm html
bcrdata html
bunch_translate html
check_distribution html
coding html
finding level-2 HTML links ... done
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
group_from_metadata html
has_class html
immdata html
immunr_data_format html
immunr_hclust html
immunr_pca html
inc_overlap html
matrixdiagcopy html
pubRep html
pubRepApply html
pubRepFilter html
pubRepStatistics html
public_matrix 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
scdata 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
** 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)