* installing *source* package 'rtk' ... ** package 'rtk' successfully unpacked and MD5 sums checked ** using staged installation ** libs using C compiler: 'gcc.exe (GCC) 13.2.0' using C++ compiler: 'g++.exe (GCC) 13.2.0' using C++11 make[1]: Entering directory '/d/temp/Rtmpm8bT9a/R.INSTALL213c039f713f6/rtk/src' g++ -std=gnu++11 -I"D:/RCompile/recent/R-4.4.0/include" -DNDEBUG -I'D:/RCompile/CRANpkg/lib/4.4/Rcpp/include' -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c ClStr2Mat.cpp -o ClStr2Mat.o In file included from Matrix.h:2, from ClStr2Mat.h:2, from ClStr2Mat.cpp:1: IO.h:28: warning: ignoring '#pragma warning ' [-Wunknown-pragmas] 28 | #pragma warning(disable:4996) | g++ -std=gnu++11 -I"D:/RCompile/recent/R-4.4.0/include" -DNDEBUG -I'D:/RCompile/CRANpkg/lib/4.4/Rcpp/include' -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c IO.cpp -o IO.o In file included from IO.cpp:1: IO.h:28: warning: ignoring '#pragma warning ' [-Wunknown-pragmas] 28 | #pragma warning(disable:4996) | IO.cpp: In function 'void lineCntOut(options*)': IO.cpp:74:19: warning: 'in' may be used uninitialized [-Wmaybe-uninitialized] 74 | while (getline((*in), line, '\n')) { | ~~~~~~~^~~~~~~~~~~~~~~~~~~ IO.cpp:21:18: note: 'in' was declared here 21 | istream* in; | ^~ g++ -std=gnu++11 -I"D:/RCompile/recent/R-4.4.0/include" -DNDEBUG -I'D:/RCompile/CRANpkg/lib/4.4/Rcpp/include' -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c Math.cpp -o Math.o g++ -std=gnu++11 -I"D:/RCompile/recent/R-4.4.0/include" -DNDEBUG -I'D:/RCompile/CRANpkg/lib/4.4/Rcpp/include' -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c Matrix.cpp -o Matrix.o In file included from Matrix.h:2, from Matrix.cpp:1: IO.h:28: warning: ignoring '#pragma warning ' [-Wunknown-pragmas] 28 | #pragma warning(disable:4996) | Matrix.cpp: In constructor 'Matrix::Matrix(std::string, std::string, std::vector, std::vector >)': Matrix.cpp:672:13: warning: unused variable 'ini_ColPerRow' [-Wunused-variable] 672 | int ini_ColPerRow = iniCols(in); | ^~~~~~~~~~~~~ Matrix.cpp: In constructor 'Matrix::Matrix(std::string, std::string, std::vector, std::vector >)': Matrix.cpp:672:36: warning: 'in' may be used uninitialized [-Wmaybe-uninitialized] 672 | int ini_ColPerRow = iniCols(in); | ~~~~~~~^~~~ Matrix.cpp:646:18: note: 'in' was declared here 646 | istream* in; | ^~ Matrix.cpp: In constructor 'Matrix::Matrix(std::string, std::string, std::string, std::vector >&, bool, bool, bool)': Matrix.cpp:797:36: warning: 'in' may be used uninitialized [-Wmaybe-uninitialized] 797 | int ini_ColPerRow = iniCols(in); | ~~~~~~~^~~~ Matrix.cpp:771:18: note: 'in' was declared here 771 | istream* in; | ^~ Matrix.cpp: In constructor 'Matrix::Matrix(std::string, std::string, bool)': Matrix.cpp:980:36: warning: 'in' may be used uninitialized [-Wmaybe-uninitialized] 980 | int ini_ColPerRow = iniCols(in); | ~~~~~~~^~~~ Matrix.cpp:958:18: note: 'in' was declared here 958 | istream* in; | ^~ g++ -std=gnu++11 -I"D:/RCompile/recent/R-4.4.0/include" -DNDEBUG -I'D:/RCompile/CRANpkg/lib/4.4/Rcpp/include' -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c RRare.cpp -o RRare.o In file included from Matrix.h:2, from ClStr2Mat.h:2, from RRare.h:2, from RRare.cpp:1: IO.h:28: warning: ignoring '#pragma warning ' [-Wunknown-pragmas] 28 | #pragma warning(disable:4996) | RRare.cpp: In function 'int rarefyMain(options*, std::string, std::vector >, std::vector >, std::vector >, std::vector&, std::vector > > >&, std::vector > >&, std::vector >&, std::vector >&, std::vector >&, std::vector >&, std::vector >&, bool)': RRare.cpp:307:14: warning: unused variable 'writeFiles' [-Wunused-variable] 307 | bool writeFiles = false; | ^~~~~~~~~~ g++ -std=gnu++11 -I"D:/RCompile/recent/R-4.4.0/include" -DNDEBUG -I'D:/RCompile/CRANpkg/lib/4.4/Rcpp/include' -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c RcppExports.cpp -o RcppExports.o g++ -std=gnu++11 -I"D:/RCompile/recent/R-4.4.0/include" -DNDEBUG -I'D:/RCompile/CRANpkg/lib/4.4/Rcpp/include' -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c Rwrapper.cpp -o Rwrapper.o In file included from Matrix.h:2, from ClStr2Mat.h:2, from RRare.h:2, from Rwrapper.cpp:3: IO.h:28: warning: ignoring '#pragma warning ' [-Wunknown-pragmas] 28 | #pragma warning(disable:4996) | Rwrapper.cpp: In function 'Rcpp::List returnRList(options*, std::vector&, std::vector >&, std::vector >&, std::vector >&, std::vector >, std::vector >, std::vector >, bool, std::vector > > >, unsigned int)': Rwrapper.cpp:117:24: warning: comparison of integer expressions of different signedness: 'int' and 'unsigned int' [-Wsign-compare] 117 | for(int i=0; i < opts->write; i++){ | ~~^~~~~~~~~~~~~ gcc -I"D:/RCompile/recent/R-4.4.0/include" -DNDEBUG -I'D:/RCompile/CRANpkg/lib/4.4/Rcpp/include' -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include" -pedantic -Wstrict-prototypes -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c register.c -o register.o g++ -shared -s -static-libgcc -o rtk.dll tmp.def ClStr2Mat.o IO.o Math.o Matrix.o RRare.o RcppExports.o Rwrapper.o register.o -Ld:/rtools44/x86_64-w64-mingw32.static.posix/lib/x64 -Ld:/rtools44/x86_64-w64-mingw32.static.posix/lib -LD:/RCompile/recent/R-4.4.0/bin/x64 -lR make[1]: Leaving directory '/d/temp/Rtmpm8bT9a/R.INSTALL213c039f713f6/rtk/src' make[1]: Entering directory '/d/temp/Rtmpm8bT9a/R.INSTALL213c039f713f6/rtk/src' make[1]: Leaving directory '/d/temp/Rtmpm8bT9a/R.INSTALL213c039f713f6/rtk/src' installing to d:/Rcompile/CRANpkg/lib/4.4/00LOCK-rtk/00new/rtk/libs/x64 ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** 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 'rtk' as rtk_0.2.6.1.zip * DONE (rtk)