* installing *source* package 'mappoly' ...
** package 'mappoly' successfully unpacked and MD5 sums checked
** using staged installation
** libs
make[1]: Entering directory '/d/temp/RtmpmsKixw/R.INSTALL183e820e2609e/mappoly/src'
g++ -std=gnu++14  -I"D:/RCompile/recent/R-4.2.3/include" -DNDEBUG  -I'D:/RCompile/CRANpkg/lib/4.2/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.2/RcppParallel/include'   -I"d:/rtools42/x86_64-w64-mingw32.static.posix/include"  -DRCPP_PARALLEL_USE_TBB=1   -pedantic -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c RcppExports.cpp -o RcppExports.o
g++ -std=gnu++14  -I"D:/RCompile/recent/R-4.2.3/include" -DNDEBUG  -I'D:/RCompile/CRANpkg/lib/4.2/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.2/RcppParallel/include'   -I"d:/rtools42/x86_64-w64-mingw32.static.posix/include"  -DRCPP_PARALLEL_USE_TBB=1   -pedantic -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c calc_genoprob.cpp -o calc_genoprob.o
g++ -std=gnu++14  -I"D:/RCompile/recent/R-4.2.3/include" -DNDEBUG  -I'D:/RCompile/CRANpkg/lib/4.2/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.2/RcppParallel/include'   -I"d:/rtools42/x86_64-w64-mingw32.static.posix/include"  -DRCPP_PARALLEL_USE_TBB=1   -pedantic -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c calc_genoprob_based_on_phased_marker_blocks.cpp -o calc_genoprob_based_on_phased_marker_blocks.o
g++ -std=gnu++14  -I"D:/RCompile/recent/R-4.2.3/include" -DNDEBUG  -I'D:/RCompile/CRANpkg/lib/4.2/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.2/RcppParallel/include'   -I"d:/rtools42/x86_64-w64-mingw32.static.posix/include"  -DRCPP_PARALLEL_USE_TBB=1   -pedantic -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c calc_loglike_given_map.cpp -o calc_loglike_given_map.o
g++ -std=gnu++14  -I"D:/RCompile/recent/R-4.2.3/include" -DNDEBUG  -I'D:/RCompile/CRANpkg/lib/4.2/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.2/RcppParallel/include'   -I"d:/rtools42/x86_64-w64-mingw32.static.posix/include"  -DRCPP_PARALLEL_USE_TBB=1   -pedantic -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c combinatorial.cpp -o combinatorial.o
g++ -std=gnu++14  -I"D:/RCompile/recent/R-4.2.3/include" -DNDEBUG  -I'D:/RCompile/CRANpkg/lib/4.2/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.2/RcppParallel/include'   -I"d:/rtools42/x86_64-w64-mingw32.static.posix/include"  -DRCPP_PARALLEL_USE_TBB=1   -pedantic -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c est_hmm_map_based_on_phased_mrk_blocks.cpp -o est_hmm_map_based_on_phased_mrk_blocks.o
g++ -std=gnu++14  -I"D:/RCompile/recent/R-4.2.3/include" -DNDEBUG  -I'D:/RCompile/CRANpkg/lib/4.2/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.2/RcppParallel/include'   -I"d:/rtools42/x86_64-w64-mingw32.static.posix/include"  -DRCPP_PARALLEL_USE_TBB=1   -pedantic -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c est_map_hmm_given_dose.cpp -o est_map_hmm_given_dose.o
g++ -std=gnu++14  -I"D:/RCompile/recent/R-4.2.3/include" -DNDEBUG  -I'D:/RCompile/CRANpkg/lib/4.2/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.2/RcppParallel/include'   -I"d:/rtools42/x86_64-w64-mingw32.static.posix/include"  -DRCPP_PARALLEL_USE_TBB=1   -pedantic -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c est_map_hmm_given_prior.cpp -o est_map_hmm_given_prior.o
g++ -std=gnu++14  -I"D:/RCompile/recent/R-4.2.3/include" -DNDEBUG  -I'D:/RCompile/CRANpkg/lib/4.2/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.2/RcppParallel/include'   -I"d:/rtools42/x86_64-w64-mingw32.static.posix/include"  -DRCPP_PARALLEL_USE_TBB=1   -pedantic -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c genotypic_counts.cpp -o genotypic_counts.o
g++ -std=gnu++14  -I"D:/RCompile/recent/R-4.2.3/include" -DNDEBUG  -I'D:/RCompile/CRANpkg/lib/4.2/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.2/RcppParallel/include'   -I"d:/rtools42/x86_64-w64-mingw32.static.posix/include"  -DRCPP_PARALLEL_USE_TBB=1   -pedantic -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c hmm_elements.cpp -o hmm_elements.o
g++ -std=gnu++14  -I"D:/RCompile/recent/R-4.2.3/include" -DNDEBUG  -I'D:/RCompile/CRANpkg/lib/4.2/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.2/RcppParallel/include'   -I"d:/rtools42/x86_64-w64-mingw32.static.posix/include"  -DRCPP_PARALLEL_USE_TBB=1   -pedantic -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c hmm_single_parent.cpp -o hmm_single_parent.o
gcc  -I"D:/RCompile/recent/R-4.2.3/include" -DNDEBUG  -I'D:/RCompile/CRANpkg/lib/4.2/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.2/RcppParallel/include'   -I"d:/rtools42/x86_64-w64-mingw32.static.posix/include"     -pedantic -Wstrict-prototypes -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c mappoly_init.c -o mappoly_init.o
g++ -std=gnu++14  -I"D:/RCompile/recent/R-4.2.3/include" -DNDEBUG  -I'D:/RCompile/CRANpkg/lib/4.2/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.2/RcppParallel/include'   -I"d:/rtools42/x86_64-w64-mingw32.static.posix/include"  -DRCPP_PARALLEL_USE_TBB=1   -pedantic -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c pairwise_estimation.cpp -o pairwise_estimation.o
g++ -std=gnu++14  -I"D:/RCompile/recent/R-4.2.3/include" -DNDEBUG  -I'D:/RCompile/CRANpkg/lib/4.2/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.2/RcppParallel/include'   -I"d:/rtools42/x86_64-w64-mingw32.static.posix/include"  -DRCPP_PARALLEL_USE_TBB=1   -pedantic -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c pairwise_estimation_rcppparallel.cpp -o pairwise_estimation_rcppparallel.o
g++ -std=gnu++14  -I"D:/RCompile/recent/R-4.2.3/include" -DNDEBUG  -I'D:/RCompile/CRANpkg/lib/4.2/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.2/RcppParallel/include'   -I"d:/rtools42/x86_64-w64-mingw32.static.posix/include"  -DRCPP_PARALLEL_USE_TBB=1   -pedantic -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c read_mappoly_vcf.cpp -o read_mappoly_vcf.o
g++ -std=gnu++14 -shared -s -static-libgcc -o mappoly.dll tmp.def RcppExports.o calc_genoprob.o calc_genoprob_based_on_phased_marker_blocks.o calc_loglike_given_map.o combinatorial.o est_hmm_map_based_on_phased_mrk_blocks.o est_map_hmm_given_dose.o est_map_hmm_given_prior.o genotypic_counts.o hmm_elements.o hmm_single_parent.o mappoly_init.o pairwise_estimation.o pairwise_estimation_rcppparallel.o read_mappoly_vcf.o -lz -LD:/RCompile/CRANpkg/lib/4.2/RcppParallel/lib/x64 -ltbb -ltbbmalloc -Ld:/rtools42/x86_64-w64-mingw32.static.posix/lib/x64 -Ld:/rtools42/x86_64-w64-mingw32.static.posix/lib -LD:/RCompile/recent/R-4.2.3/bin/x64 -lR
make[1]: Leaving directory '/d/temp/RtmpmsKixw/R.INSTALL183e820e2609e/mappoly/src'
make[1]: Entering directory '/d/temp/RtmpmsKixw/R.INSTALL183e820e2609e/mappoly/src'
make[1]: Leaving directory '/d/temp/RtmpmsKixw/R.INSTALL183e820e2609e/mappoly/src'
installing to d:/Rcompile/CRANpkg/lib/4.2/00LOCK-mappoly/00new/mappoly/libs/x64
** R
** data
*** moving datasets to lazyload DB
** 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 'mappoly' as mappoly_0.4.1.zip
* DONE (mappoly)