* installing to library ‘/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages’
* installing *source* package ‘SeqKat’ ...
** this is package ‘SeqKat’ version ‘0.0.8’
** package ‘SeqKat’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C compiler: ‘gcc-14 (Debian 14.3.0-10) 14.3.0’
using C++ compiler: ‘g++-14 (Debian 14.3.0-10) 14.3.0’
make[1]: Entering directory '/home/hornik/tmp/scratch/Rtmpe39s2U/R.INSTALLae1c87c03e05b/SeqKat/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
gcc-14 -std=gnu23 -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 -Wstrict-prototypes -pedantic -mtune=native  -c SeqKat_init.c -o SeqKat_init.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 cget_nucleotide_chunk_counts.cpp -o cget_nucleotide_chunk_counts.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 cget_trinucleotide_counts.cpp -o cget_trinucleotide_counts.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 cpp_get_context.cpp -o cpp_get_context.o
cpp_get_context.cpp: In function ‘Rcpp::CharacterVector cpp_get_context(std::string, Rcpp::NumericVector, long unsigned int)’:
cpp_get_context.cpp:20:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare]
   20 |         for (int i=0; i<pos_length; i++) {
      |                       ~^~~~~~~~~~~
g++-14 -std=gnu++17 -shared -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -Wl,-O1 -o SeqKat.so RcppExports.o SeqKat_init.o cget_nucleotide_chunk_counts.o cget_trinucleotide_counts.o cpp_get_context.o -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -lR
make[1]: Leaving directory '/home/hornik/tmp/scratch/Rtmpe39s2U/R.INSTALLae1c87c03e05b/SeqKat/src'
make[1]: Entering directory '/home/hornik/tmp/scratch/Rtmpe39s2U/R.INSTALLae1c87c03e05b/SeqKat/src'
make[1]: Leaving directory '/home/hornik/tmp/scratch/Rtmpe39s2U/R.INSTALLae1c87c03e05b/SeqKat/src'
installing to /home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/00LOCK-SeqKat/00new/SeqKat/libs
** R
** exec
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package ‘SeqKat’
    finding HTML links ... done
    combine.table                           html  
    final.score                             html  
    get.context                             html  
    get.exprobntcx                          html  
    get.nucleotide.chunk.counts             html  
    get.pair                                html  
    get.tn                                  html  
    get.toptn                               html  
    get.trinucleotide.counts                html  
    seqkat                                  html  
    test.kataegis                           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 (SeqKat)