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### Running command:
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###   rm -rf GBScleanR.buildbin-libdir && mkdir GBScleanR.buildbin-libdir && E:\biocbuild\bbs-3.21-bioc\R\bin\R.exe CMD INSTALL --build --library=GBScleanR.buildbin-libdir GBScleanR_2.1.1.tar.gz
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* installing *source* package 'GBScleanR' ...
** using staged installation
** libs
using C++ compiler: 'G__~1.EXE (GCC) 13.3.0'
using C++11
g++  -std=gnu++11 -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG  -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rcpp/include' -I'E:/biocbuild/bbs-3.21-bioc/R/library/RcppParallel/include'   -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include"   -DRCPP_PARALLEL_USE_TBB=1   -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign   -c RcppExports.cpp -o RcppExports.o
g++  -std=gnu++11 -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG  -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rcpp/include' -I'E:/biocbuild/bbs-3.21-bioc/R/library/RcppParallel/include'   -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include"   -DRCPP_PARALLEL_USE_TBB=1   -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign   -c gbsrCalcProb.cpp -o gbsrCalcProb.o
gbsrCalcProb.cpp: In function 'std::vector<double> calcGenoprob(const double&, const double&, const double&, const double&, const double&, const bool&, const int&)':
gbsrCalcProb.cpp:25:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<double>::size_type' {aka 'long long unsigned int'} [-Wsign-compare]
   25 |     for(int g = 0; g < prob.size(); ++g){
      |                    ~~^~~~~~~~~~~~~
gbsrCalcProb.cpp:37:26: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<double>::size_type' {aka 'long long unsigned int'} [-Wsign-compare]
   37 |         for(int g = 0; g < prob.size(); ++g){
      |                        ~~^~~~~~~~~~~~~
gbsrCalcProb.cpp: In function 'void calcMissmap(std::vector<double>&, const double&, const double&, const bool&, const int&)':
gbsrCalcProb.cpp:72:21: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'long long unsigned int'} and 'const int' [-Wsign-compare]
   72 |         } else if(g == ploidy){
      |                   ~~^~~~~~~~~
gbsrCalcProb.cpp:74:22: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'long long unsigned int'} and 'const int' [-Wsign-compare]
   74 |                 if(h == ploidy){
      |                    ~~^~~~~~~~~
gbsrCalcProb.cpp:87:29: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'long long unsigned int'} and 'const int' [-Wsign-compare]
   87 |                 } else if(h == ploidy){
      |                           ~~^~~~~~~~~
gbsrCalcProb.cpp:127:29: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'long long unsigned int'} and 'const int' [-Wsign-compare]
  127 |                 } else if(g == ploidy){
      |                           ~~^~~~~~~~~
gbsrCalcProb.cpp: In function 'void offsetProb(std::vector<double>&, const bool&, const int&)':
gbsrCalcProb.cpp:170:28: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'long long unsigned int'} and 'const int' [-Wsign-compare]
  170 |             if(g == 0 && g == ploidy){
      |                          ~~^~~~~~~~~
gbsrCalcProb.cpp:185:32: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'long long unsigned int'} and 'const int' [-Wsign-compare]
  185 |                 if(g == 0 && g == ploidy){
      |                              ~~^~~~~~~~~
g++  -std=gnu++11 -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG  -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rcpp/include' -I'E:/biocbuild/bbs-3.21-bioc/R/library/RcppParallel/include'   -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include"   -DRCPP_PARALLEL_USE_TBB=1   -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign   -c gbsrFB.cpp -o gbsrFB.o
gbsrFB.cpp: In member function 'virtual void ParFB::operator()(size_t, size_t)':
gbsrFB.cpp:109:17: warning: 'hap_offset_ij' may be used uninitialized [-Wmaybe-uninitialized]
  109 |             int hap_offset_ij;
      |                 ^~~~~~~~~~~~~
g++  -std=gnu++11 -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG  -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rcpp/include' -I'E:/biocbuild/bbs-3.21-bioc/R/library/RcppParallel/include'   -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include"   -DRCPP_PARALLEL_USE_TBB=1   -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign   -c gbsrIPO.cpp -o gbsrIPO.o
gbsrIPO.cpp: In member function 'virtual void ParGenoProb::operator()(size_t, size_t)':
gbsrIPO.cpp:57:34: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<double>::size_type' {aka 'long long unsigned int'} [-Wsign-compare]
   57 |                 for(int g = 0; g < prob.size(); ++g){
      |                                ~~^~~~~~~~~~~~~
g++  -std=gnu++11 -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG  -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rcpp/include' -I'E:/biocbuild/bbs-3.21-bioc/R/library/RcppParallel/include'   -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include"   -DRCPP_PARALLEL_USE_TBB=1   -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign   -c gbsrStats.cpp -o gbsrStats.o
g++  -std=gnu++11 -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG  -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rcpp/include' -I'E:/biocbuild/bbs-3.21-bioc/R/library/RcppParallel/include'   -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include"   -DRCPP_PARALLEL_USE_TBB=1   -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign   -c gbsrViterbi.cpp -o gbsrViterbi.o
g++  -std=gnu++11 -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG  -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rcpp/include' -I'E:/biocbuild/bbs-3.21-bioc/R/library/RcppParallel/include'   -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include"   -DRCPP_PARALLEL_USE_TBB=1   -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign   -c gbsrutil.cpp -o gbsrutil.o
g++ -shared -s -static-libgcc -o GBScleanR.dll tmp.def RcppExports.o gbsrCalcProb.o gbsrFB.o gbsrIPO.o gbsrStats.o gbsrViterbi.o gbsrutil.o -LE:/biocbuild/bbs-3.21-bioc/R/library/RcppParallel/lib/x64 -ltbb -ltbbmalloc -LC:/rtools44/x86_64-w64-mingw32.static.posix/lib/x64 -LC:/rtools44/x86_64-w64-mingw32.static.posix/lib -LE:/biocbuild/bbs-3.21-bioc/R/bin/x64 -lR
installing to E:/biocbuild/bbs-3.21-bioc/meat/GBScleanR.buildbin-libdir/00LOCK-GBScleanR/00new/GBScleanR/libs/x64
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* MD5 sums
packaged installation of 'GBScleanR' as GBScleanR_2.1.1.zip
* DONE (GBScleanR)