* installing to library ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages’
* installing *source* package ‘poolfstat’ ...
** package ‘poolfstat’ 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 '/home/hornik/tmp/scratch/RtmpCrKHor/R.INSTALL28ad5833b33ead/poolfstat/src'
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG  -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppProgress/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-devel-gcc/Work/build/include" -DNDEBUG  -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppProgress/include' -I/usr/local/include -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -pedantic -mtune=native   -c extract_counts.cpp -o extract_counts.o
extract_counts.cpp: In function ‘Rcpp::IntegerMatrix scan_allele_info(Rcpp::StringVector)’:
extract_counts.cpp:36:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::__cxx11::basic_string<char>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   36 |     for(int j=0;j<istring.size();j++){
      |                 ~^~~~~~~~~~~~~~~
extract_counts.cpp: In function ‘Rcpp::NumericMatrix extract_vscan_counts(Rcpp::StringMatrix, int, int)’:
extract_counts.cpp:93:16: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::__cxx11::basic_string<char>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
   93 |        while(i < istring.size() && j!=max_idx){
      |              ~~^~~~~~~~~~~~~~~~
extract_counts.cpp: In function ‘Rcpp::NumericMatrix extract_nonvscan_counts(Rcpp::StringMatrix, Rcpp::IntegerVector, int, int)’:
extract_counts.cpp:165:15: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::__cxx11::basic_string<char>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  165 |       while(i < istring.size() && j!=ad_idx){
      |             ~~^~~~~~~~~~~~~~~~
extract_counts.cpp:180:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::__cxx11::basic_string<char>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  180 |           while(i < ad_string.size() && ad_string[i] != ','){i++;}
      |                 ~~^~~~~~~~~~~~~~~~~~
extract_counts.cpp:190:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::__cxx11::basic_string<char>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  190 |            while(i < ad_string.size()){
      |                  ~~^~~~~~~~~~~~~~~~~~
extract_counts.cpp: In function ‘Rcpp::StringMatrix extract_allele_names(Rcpp::StringVector, Rcpp::IntegerMatrix)’:
extract_counts.cpp:262:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::__cxx11::basic_string<char>::size_type’ {aka ‘long unsigned int’} [-Wsign-compare]
  262 |     while(k < istring.size()){
      |           ~~^~~~~~~~~~~~~~~~
g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG  -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppProgress/include' -I/usr/local/include -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -pedantic -mtune=native   -c fast_block_averages.cpp -o fast_block_averages.o
fast_block_averages.cpp: In function ‘Rcpp::NumericVector compute_F4fromF2(Rcpp::NumericVector, int)’:
fast_block_averages.cpp:565:28: warning: unused variable ‘b’ [-Wunused-variable]
  565 |    int cnt=0, i, j , k, l, b ;
      |                            ^
fast_block_averages.cpp:566:11: warning: unused variable ‘dumval’ [-Wunused-variable]
  566 |    double dumval;
      |           ^~~~~~
fast_block_averages.cpp: In function ‘Rcpp::NumericMatrix compute_QmatfromF2samples(Rcpp::NumericMatrix, int, Rcpp::LogicalVector)’:
fast_block_averages.cpp:885:11: warning: unused variable ‘dumval’ [-Wunused-variable]
  885 |    double dumval ;
      |           ^~~~~~
g++-13 -std=gnu++17 -shared -L/home/hornik/tmp/R.check/r-devel-gcc/Work/build/lib -Wl,-O1 -o poolfstat.so RcppExports.o extract_counts.o fast_block_averages.o -L/home/hornik/tmp/R.check/r-devel-gcc/Work/build/lib -lR
make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpCrKHor/R.INSTALL28ad5833b33ead/poolfstat/src'
make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpCrKHor/R.INSTALL28ad5833b33ead/poolfstat/src'
make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpCrKHor/R.INSTALL28ad5833b33ead/poolfstat/src'
installing to /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/00LOCK-poolfstat/00new/poolfstat/libs
** R
** inst
** byte-compile and prepare package for lazy loading
Creating a generic function for ‘heatmap’ from package ‘stats’ in package ‘poolfstat’
** help
*** installing help indices
** 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
* creating tarball
packaged installation of ‘poolfstat’ as ‘poolfstat_2.2.0_R_x86_64-pc-linux-gnu.tar.gz’
* DONE (poolfstat)