Install log for 'pgenlibr'

* installing *source* package 'pgenlibr' ...
** package 'pgenlibr' successfully unpacked and MD5 sums checked
** using staged installation

   **********************************************
   WARNING: this package has a configure script
         It probably needs manual configuration
   **********************************************


** libs
using C++ compiler: 'g++.exe (GCC) 13.2.0'
make[1]: Entering directory '/d/temp/Rtmpw3zx43/R.INSTALL19834399306f/pgenlibr/src'
g++ -std=gnu++17  -I"D:/RCompile/recent/R-4.4.0/include" -DNDEBUG -DLIBDEFLATE_STATIC -DPGENLIB_NOPRINT -I. -Ilibdeflate -I'D:/RCompile/CRANpkg/lib/4.4/Rcpp/include'   -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include"     -pedantic -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c RcppExports.cpp -o RcppExports.o
g++ -std=gnu++17  -I"D:/RCompile/recent/R-4.4.0/include" -DNDEBUG -DLIBDEFLATE_STATIC -DPGENLIB_NOPRINT -I. -Ilibdeflate -I'D:/RCompile/CRANpkg/lib/4.4/Rcpp/include'   -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include"     -pedantic -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c pgenlib_ffi_support.cpp -o pgenlib_ffi_support.o
g++ -std=gnu++17  -I"D:/RCompile/recent/R-4.4.0/include" -DNDEBUG -DLIBDEFLATE_STATIC -DPGENLIB_NOPRINT -I. -Ilibdeflate -I'D:/RCompile/CRANpkg/lib/4.4/Rcpp/include'   -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include"     -pedantic -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c pgenlibr.cpp -o pgenlibr.o
g++ -std=gnu++17  -I"D:/RCompile/recent/R-4.4.0/include" -DNDEBUG -DLIBDEFLATE_STATIC -DPGENLIB_NOPRINT -I. -Ilibdeflate -I'D:/RCompile/CRANpkg/lib/4.4/Rcpp/include'   -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include"     -pedantic -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c pvar.cpp -o pvar.o
g++ -std=gnu++17  -I"D:/RCompile/recent/R-4.4.0/include" -DNDEBUG -DLIBDEFLATE_STATIC -DPGENLIB_NOPRINT -I. -Ilibdeflate -I'D:/RCompile/CRANpkg/lib/4.4/Rcpp/include'   -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include"     -pedantic -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c pvar_ffi_support.cpp -o pvar_ffi_support.o
gcc  -I"D:/RCompile/recent/R-4.4.0/include" -DNDEBUG -DLIBDEFLATE_STATIC -DPGENLIB_NOPRINT -I. -Ilibdeflate -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 libdeflate/lib/zlib_decompress.c -o libdeflate/lib/zlib_decompress.o
gcc  -I"D:/RCompile/recent/R-4.4.0/include" -DNDEBUG -DLIBDEFLATE_STATIC -DPGENLIB_NOPRINT -I. -Ilibdeflate -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 libdeflate/lib/zlib_compress.c -o libdeflate/lib/zlib_compress.o
gcc  -I"D:/RCompile/recent/R-4.4.0/include" -DNDEBUG -DLIBDEFLATE_STATIC -DPGENLIB_NOPRINT -I. -Ilibdeflate -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 libdeflate/lib/utils.c -o libdeflate/lib/utils.o
gcc  -I"D:/RCompile/recent/R-4.4.0/include" -DNDEBUG -DLIBDEFLATE_STATIC -DPGENLIB_NOPRINT -I. -Ilibdeflate -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 libdeflate/lib/gzip_compress.c -o libdeflate/lib/gzip_compress.o
gcc  -I"D:/RCompile/recent/R-4.4.0/include" -DNDEBUG -DLIBDEFLATE_STATIC -DPGENLIB_NOPRINT -I. -Ilibdeflate -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 libdeflate/lib/crc32.c -o libdeflate/lib/crc32.o
gcc  -I"D:/RCompile/recent/R-4.4.0/include" -DNDEBUG -DLIBDEFLATE_STATIC -DPGENLIB_NOPRINT -I. -Ilibdeflate -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 libdeflate/lib/adler32.c -o libdeflate/lib/adler32.o
gcc  -I"D:/RCompile/recent/R-4.4.0/include" -DNDEBUG -DLIBDEFLATE_STATIC -DPGENLIB_NOPRINT -I. -Ilibdeflate -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 libdeflate/lib/deflate_decompress.c -o libdeflate/lib/deflate_decompress.o
gcc  -I"D:/RCompile/recent/R-4.4.0/include" -DNDEBUG -DLIBDEFLATE_STATIC -DPGENLIB_NOPRINT -I. -Ilibdeflate -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 libdeflate/lib/deflate_compress.c -o libdeflate/lib/deflate_compress.o
gcc  -I"D:/RCompile/recent/R-4.4.0/include" -DNDEBUG -DLIBDEFLATE_STATIC -DPGENLIB_NOPRINT -I. -Ilibdeflate -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 libdeflate/lib/gzip_decompress.c -o libdeflate/lib/gzip_decompress.o
gcc  -I"D:/RCompile/recent/R-4.4.0/include" -DNDEBUG -DLIBDEFLATE_STATIC -DPGENLIB_NOPRINT -I. -Ilibdeflate -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 libdeflate/lib/arm/arm_cpu_features.c -o libdeflate/lib/arm/arm_cpu_features.o
gcc  -I"D:/RCompile/recent/R-4.4.0/include" -DNDEBUG -DLIBDEFLATE_STATIC -DPGENLIB_NOPRINT -I. -Ilibdeflate -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 libdeflate/lib/x86/x86_cpu_features.c -o libdeflate/lib/x86/x86_cpu_features.o
ar rcs libPGDEFLATE.a libdeflate/lib/zlib_decompress.o libdeflate/lib/zlib_compress.o libdeflate/lib/utils.o libdeflate/lib/gzip_compress.o libdeflate/lib/crc32.o libdeflate/lib/adler32.o libdeflate/lib/deflate_decompress.o libdeflate/lib/deflate_compress.o libdeflate/lib/gzip_decompress.o libdeflate/lib/arm/arm_cpu_features.o libdeflate/lib/x86/x86_cpu_features.o
g++ -std=gnu++17  -I"D:/RCompile/recent/R-4.4.0/include" -DNDEBUG -DLIBDEFLATE_STATIC -DPGENLIB_NOPRINT -I. -Ilibdeflate -I'D:/RCompile/CRANpkg/lib/4.4/Rcpp/include'   -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include"     -pedantic -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c include/plink2_base.cc -o include/plink2_base.o
g++ -std=gnu++17  -I"D:/RCompile/recent/R-4.4.0/include" -DNDEBUG -DLIBDEFLATE_STATIC -DPGENLIB_NOPRINT -I. -Ilibdeflate -I'D:/RCompile/CRANpkg/lib/4.4/Rcpp/include'   -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include"     -pedantic -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c include/plink2_bits.cc -o include/plink2_bits.o
g++ -std=gnu++17  -I"D:/RCompile/recent/R-4.4.0/include" -DNDEBUG -DLIBDEFLATE_STATIC -DPGENLIB_NOPRINT -I. -Ilibdeflate -I'D:/RCompile/CRANpkg/lib/4.4/Rcpp/include'   -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include"     -pedantic -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c include/pgenlib_misc.cc -o include/pgenlib_misc.o
g++ -std=gnu++17  -I"D:/RCompile/recent/R-4.4.0/include" -DNDEBUG -DLIBDEFLATE_STATIC -DPGENLIB_NOPRINT -I. -Ilibdeflate -I'D:/RCompile/CRANpkg/lib/4.4/Rcpp/include'   -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include"     -pedantic -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c include/pgenlib_read.cc -o include/pgenlib_read.o
g++ -std=gnu++17  -I"D:/RCompile/recent/R-4.4.0/include" -DNDEBUG -DLIBDEFLATE_STATIC -DPGENLIB_NOPRINT -I. -Ilibdeflate -I'D:/RCompile/CRANpkg/lib/4.4/Rcpp/include'   -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include"     -pedantic -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c include/plink2_bgzf.cc -o include/plink2_bgzf.o
g++ -std=gnu++17  -I"D:/RCompile/recent/R-4.4.0/include" -DNDEBUG -DLIBDEFLATE_STATIC -DPGENLIB_NOPRINT -I. -Ilibdeflate -I'D:/RCompile/CRANpkg/lib/4.4/Rcpp/include'   -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include"     -pedantic -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c include/plink2_string.cc -o include/plink2_string.o
g++ -std=gnu++17  -I"D:/RCompile/recent/R-4.4.0/include" -DNDEBUG -DLIBDEFLATE_STATIC -DPGENLIB_NOPRINT -I. -Ilibdeflate -I'D:/RCompile/CRANpkg/lib/4.4/Rcpp/include'   -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include"     -pedantic -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c include/plink2_text.cc -o include/plink2_text.o
g++ -std=gnu++17  -I"D:/RCompile/recent/R-4.4.0/include" -DNDEBUG -DLIBDEFLATE_STATIC -DPGENLIB_NOPRINT -I. -Ilibdeflate -I'D:/RCompile/CRANpkg/lib/4.4/Rcpp/include'   -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include"     -pedantic -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c include/plink2_thread.cc -o include/plink2_thread.o
g++ -std=gnu++17  -I"D:/RCompile/recent/R-4.4.0/include" -DNDEBUG -DLIBDEFLATE_STATIC -DPGENLIB_NOPRINT -I. -Ilibdeflate -I'D:/RCompile/CRANpkg/lib/4.4/Rcpp/include'   -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include"     -pedantic -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c include/plink2_zstfile.cc -o include/plink2_zstfile.o
ar rcs libPLINK2.a include/plink2_base.o include/plink2_bits.o include/pgenlib_misc.o include/pgenlib_read.o include/plink2_bgzf.o include/plink2_string.o include/plink2_text.o include/plink2_thread.o include/plink2_zstfile.o
g++ -std=gnu++17 -shared -s -static-libgcc -o pgenlibr.dll tmp.def RcppExports.o pgenlib_ffi_support.o pgenlibr.o pvar.o pvar_ffi_support.o -L. -lPGDEFLATE -lPLINK2 -lz -lpthread -lzstd -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/Rtmpw3zx43/R.INSTALL19834399306f/pgenlibr/src'
make[1]: Entering directory '/d/temp/Rtmpw3zx43/R.INSTALL19834399306f/pgenlibr/src'
make[1]: Leaving directory '/d/temp/Rtmpw3zx43/R.INSTALL19834399306f/pgenlibr/src'
installing to d:/Rcompile/CRANpkg/lib/4.4/00LOCK-pgenlibr/00new/pgenlibr/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 'pgenlibr' as pgenlibr_0.3.5.zip
* DONE (pgenlibr)