* installing to library ‘/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages’
* installing *source* package ‘mSigSpectra’ ...
** this is package ‘mSigSpectra’ version ‘0.1.3’
** package ‘mSigSpectra’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C++ compiler: ‘g++-16 (Debian 16.2.0-3) 16.2.0’
make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpSNNheP/R.INSTALL136cc82bd8d08c/mSigSpectra/src'
g++-16 -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/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c RcppExports.cpp -o RcppExports.o
g++-16 -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/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c segment_simple.cpp -o segment_simple.o
g++-16 -std=gnu++20 -shared -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -Wl,-O1 -o mSigSpectra.so RcppExports.o segment_simple.o -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -lR
make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpSNNheP/R.INSTALL136cc82bd8d08c/mSigSpectra/src'
make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpSNNheP/R.INSTALL136cc82bd8d08c/mSigSpectra/src'
make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpSNNheP/R.INSTALL136cc82bd8d08c/mSigSpectra/src'
installing to /home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/00LOCK-mSigSpectra/00new/mSigSpectra/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 ‘mSigSpectra’
finding HTML links ... done
add_seq_context html
add_transcript_strand html
all.abundance html
annot_vcf_to_476_catalog html
annot_vcf_to_83_catalog html
annot_vcf_to_89_catalog html
annotate_id_vcf html
annotate_sbs_or_dbs_vcf html
as_catalog html
catalog_attrs html
catalog_row_order html
categorize_1_justified_indel html
cbind_catalogs html
change_476_type_ids_to_open_intervals html
change_89_type_ids_to_open_intervals html
check_and_fix_chrom_names html
check_and_fix_chrom_names_for_trans_ranges
html
check_and_remove_discarded_variants html
check_and_reorder_rownames html
collapse_catalog html
infer_abundance html
infer_catalog_type html
infer_ref_genome_name html
infer_trans_ranges html
is_catalog html
is_grch37 html
is_grch38 html
is_grcm38 html
justify_id_vcf html
justify_indel html
justify_indels_in_id_vcf_with_contexts
html
lcprefix_fast html
mSigSpectra-package html
normalize_genome_arg html
pyr_penta html
quick_check_vcf html
read_catalog html
read_transcript_ranges html
read_vcf html
read_vcfs html
remove_rows_with_duplicated_chrom_and_pos
html
remove_rows_with_pound_sign html
revc_dbs144 html
revc_sbs96 html
seg_simple html
segment_simple_cpp html
select_variants_by_chrom_name html
split_vcf html
standard_chrom_name html
standard_chrom_name_new html
stop_if_counts_or_density_illegal html
stop_if_region_illegal html
stop_if_transcribed_region_illegal html
subset_catalog html
trans.ranges html
transform_catalog html
vcf_to_dbs_catalog html
vcf_to_id_catalog html
vcf_to_sbs_catalog html
write_catalog 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 (mSigSpectra)