* installing *source* package 'mvMAPIT' ... ** package 'mvMAPIT' successfully unpacked and MD5 sums checked ** using staged installation ** libs using C++ compiler: 'g++.exe (GCC) 13.2.0' make[1]: Entering directory '/d/temp/RtmpIjIw2M/R.INSTALL2678819d26e39/mvMAPIT/src' g++ -std=gnu++17 -I"D:/RCompile/recent/R-4.4.0/include" -DNDEBUG -DARMA_64BIT_WORD=1 -I. -I'D:/RCompile/CRANpkg/lib/4.4/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppArmadillo/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppParallel/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppProgress/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppSpdlog/include' -I'D:/RCompile/CRANpkg/lib/4.4/testthat/include' -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include" -fopenmp -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c MAPIT.cpp -o MAPIT.o g++ -std=gnu++17 -I"D:/RCompile/recent/R-4.4.0/include" -DNDEBUG -DARMA_64BIT_WORD=1 -I. -I'D:/RCompile/CRANpkg/lib/4.4/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppArmadillo/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppParallel/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppProgress/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppSpdlog/include' -I'D:/RCompile/CRANpkg/lib/4.4/testthat/include' -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include" -fopenmp -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 -DARMA_64BIT_WORD=1 -I. -I'D:/RCompile/CRANpkg/lib/4.4/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppArmadillo/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppParallel/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppProgress/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppSpdlog/include' -I'D:/RCompile/CRANpkg/lib/4.4/testthat/include' -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include" -fopenmp -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c gsm/gsm.cpp -o gsm/gsm.o g++ -std=gnu++17 -I"D:/RCompile/recent/R-4.4.0/include" -DNDEBUG -DARMA_64BIT_WORD=1 -I. -I'D:/RCompile/CRANpkg/lib/4.4/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppArmadillo/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppParallel/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppProgress/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppSpdlog/include' -I'D:/RCompile/CRANpkg/lib/4.4/testthat/include' -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include" -fopenmp -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c logging/log.cpp -o logging/log.o logging/log.cpp: In function 'std::string phenotype_vector_to_string(const std::vector >&)': logging/log.cpp:6:21: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector >::size_type' {aka 'long long unsigned int'} [-Wsign-compare] 6 | for (int i = 1; i < v.size(); i++) { | ~~^~~~~~~~~~ logging/log.cpp: In function 'std::string vector_to_string(const arma::vec&)': logging/log.cpp:15:21: warning: comparison of integer expressions of different signedness: 'int' and 'const arma::uword' {aka 'const long long unsigned int'} [-Wsign-compare] 15 | for (int i = 1; i < v.n_elem; i++) { | ~~^~~~~~~~~~ g++ -std=gnu++17 -I"D:/RCompile/recent/R-4.4.0/include" -DNDEBUG -DARMA_64BIT_WORD=1 -I. -I'D:/RCompile/CRANpkg/lib/4.4/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppArmadillo/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppParallel/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppProgress/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppSpdlog/include' -I'D:/RCompile/CRANpkg/lib/4.4/testthat/include' -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include" -fopenmp -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c mapit/davies.cpp -o mapit/davies.o mapit/davies.cpp: In function 'arma::mat davies_routine(const arma::mat&, const arma::mat&, const arma::mat&, const std::vector >&)': mapit/davies.cpp:16:21: warning: comparison of integer expressions of different signedness: 'int' and 'const arma::uword' {aka 'const long long unsigned int'} [-Wsign-compare] 16 | for (int i = 0; i < q.n_cols; i++) { | ~~^~~~~~~~~~ mapit/davies.cpp: In function 'arma::vec davies_routine_vec(const arma::mat&, const arma::mat&, const arma::vec&, const std::vector >&)': mapit/davies.cpp:36:21: warning: comparison of integer expressions of different signedness: 'int' and 'const arma::uword' {aka 'const long long unsigned int'} [-Wsign-compare] 36 | for (int i = 0; i < q_sub.n_elem; i++) { | ~~^~~~~~~~~~~~~~ g++ -std=gnu++17 -I"D:/RCompile/recent/R-4.4.0/include" -DNDEBUG -DARMA_64BIT_WORD=1 -I. -I'D:/RCompile/CRANpkg/lib/4.4/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppArmadillo/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppParallel/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppProgress/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppSpdlog/include' -I'D:/RCompile/CRANpkg/lib/4.4/testthat/include' -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include" -fopenmp -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c mapit/normal.cpp -o mapit/normal.o mapit/normal.cpp: In function 'arma::mat normal_pvalues(const arma::mat&, const arma::mat&)': mapit/normal.cpp:23:21: warning: comparison of integer expressions of different signedness: 'int' and 'const arma::uword' {aka 'const long long unsigned int'} [-Wsign-compare] 23 | for (int j = 0; j < variance_estimate.n_cols; j++) { | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~ mapit/normal.cpp:24:23: warning: comparison of integer expressions of different signedness: 'int' and 'const arma::uword' {aka 'const long long unsigned int'} [-Wsign-compare] 24 | for (int i = 0; i < variance_estimate.n_rows; i++) { | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~ g++ -std=gnu++17 -I"D:/RCompile/recent/R-4.4.0/include" -DNDEBUG -DARMA_64BIT_WORD=1 -I. -I'D:/RCompile/CRANpkg/lib/4.4/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppArmadillo/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppParallel/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppProgress/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppSpdlog/include' -I'D:/RCompile/CRANpkg/lib/4.4/testthat/include' -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include" -fopenmp -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c mapit/projection.cpp -o mapit/projection.o g++ -std=gnu++17 -I"D:/RCompile/recent/R-4.4.0/include" -DNDEBUG -DARMA_64BIT_WORD=1 -I. -I'D:/RCompile/CRANpkg/lib/4.4/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppArmadillo/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppParallel/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppProgress/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppSpdlog/include' -I'D:/RCompile/CRANpkg/lib/4.4/testthat/include' -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include" -fopenmp -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c mapit/pve.cpp -o mapit/pve.o g++ -std=gnu++17 -I"D:/RCompile/recent/R-4.4.0/include" -DNDEBUG -DARMA_64BIT_WORD=1 -I. -I'D:/RCompile/CRANpkg/lib/4.4/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppArmadillo/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppParallel/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppProgress/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppSpdlog/include' -I'D:/RCompile/CRANpkg/lib/4.4/testthat/include' -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include" -fopenmp -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c mapit/util.cpp -o mapit/util.o mapit/util.cpp: In function 'arma::vec remove_first_element(const arma::vec&)': mapit/util.cpp:17:21: warning: comparison of integer expressions of different signedness: 'int' and 'arma::uword' {aka 'long long unsigned int'} [-Wsign-compare] 17 | for (int i = 1; i < vector.size(); i++) { | ~~^~~~~~~~~~~~~~~ mapit/util.cpp: In function 'std::vector > matrix_to_vector_of_rows(const arma::mat&)': mapit/util.cpp:37:21: warning: comparison of integer expressions of different signedness: 'int' and 'const arma::uword' {aka 'const long long unsigned int'} [-Wsign-compare] 37 | for (int i = 0; i < matrix.n_rows; ++i) { | ~~^~~~~~~~~~~~~~~ g++ -std=gnu++17 -I"D:/RCompile/recent/R-4.4.0/include" -DNDEBUG -DARMA_64BIT_WORD=1 -I. -I'D:/RCompile/CRANpkg/lib/4.4/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppArmadillo/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppParallel/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppProgress/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppSpdlog/include' -I'D:/RCompile/CRANpkg/lib/4.4/testthat/include' -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include" -fopenmp -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c mqs/mqs.cpp -o mqs/mqs.o mqs/mqs.cpp: In function 'arma::mat compute_h_matrix(const arma::mat&, const std::vector >&)': mqs/mqs.cpp:113:21: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector >::size_type' {aka 'long long unsigned int'} [-Wsign-compare] 113 | for (int i = 0; i < matrices.size(); i++) { | ~~^~~~~~~~~~~~~~~~~ mqs/mqs.cpp: In function 'arma::mat compute_v_matrix(const arma::vec&, const std::vector >&)': mqs/mqs.cpp:129:21: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector >::size_type' {aka 'long long unsigned int'} [-Wsign-compare] 129 | for (int i = 0; i < matrices.size(); i++) { | ~~^~~~~~~~~~~~~~~~~ mqs/mqs.cpp: In function 'arma::vec compute_variance_delta(const std::vector >&, const arma::mat&, const arma::mat&, const std::vector >&)': mqs/mqs.cpp:171:21: warning: comparison of integer expressions of different signedness: 'int' and 'const arma::uword' {aka 'const long long unsigned int'} [-Wsign-compare] 171 | for (int k = 0; k < delta.n_cols; k++) { | ~~^~~~~~~~~~~~~~ g++ -std=gnu++17 -I"D:/RCompile/recent/R-4.4.0/include" -DNDEBUG -DARMA_64BIT_WORD=1 -I. -I'D:/RCompile/CRANpkg/lib/4.4/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppArmadillo/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppParallel/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppProgress/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppSpdlog/include' -I'D:/RCompile/CRANpkg/lib/4.4/testthat/include' -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include" -fopenmp -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c tests/test-compare-to-original-mapit.cpp -o tests/test-compare-to-original-mapit.o g++ -std=gnu++17 -I"D:/RCompile/recent/R-4.4.0/include" -DNDEBUG -DARMA_64BIT_WORD=1 -I. -I'D:/RCompile/CRANpkg/lib/4.4/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppArmadillo/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppParallel/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppProgress/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppSpdlog/include' -I'D:/RCompile/CRANpkg/lib/4.4/testthat/include' -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include" -fopenmp -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c tests/test-davies.cpp -o tests/test-davies.o g++ -std=gnu++17 -I"D:/RCompile/recent/R-4.4.0/include" -DNDEBUG -DARMA_64BIT_WORD=1 -I. -I'D:/RCompile/CRANpkg/lib/4.4/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppArmadillo/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppParallel/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppProgress/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppSpdlog/include' -I'D:/RCompile/CRANpkg/lib/4.4/testthat/include' -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include" -fopenmp -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c tests/test-gsm.cpp -o tests/test-gsm.o g++ -std=gnu++17 -I"D:/RCompile/recent/R-4.4.0/include" -DNDEBUG -DARMA_64BIT_WORD=1 -I. -I'D:/RCompile/CRANpkg/lib/4.4/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppArmadillo/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppParallel/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppProgress/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppSpdlog/include' -I'D:/RCompile/CRANpkg/lib/4.4/testthat/include' -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include" -fopenmp -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c tests/test-log.cpp -o tests/test-log.o g++ -std=gnu++17 -I"D:/RCompile/recent/R-4.4.0/include" -DNDEBUG -DARMA_64BIT_WORD=1 -I. -I'D:/RCompile/CRANpkg/lib/4.4/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppArmadillo/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppParallel/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppProgress/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppSpdlog/include' -I'D:/RCompile/CRANpkg/lib/4.4/testthat/include' -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include" -fopenmp -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c tests/test-mqs.cpp -o tests/test-mqs.o g++ -std=gnu++17 -I"D:/RCompile/recent/R-4.4.0/include" -DNDEBUG -DARMA_64BIT_WORD=1 -I. -I'D:/RCompile/CRANpkg/lib/4.4/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppArmadillo/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppParallel/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppProgress/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppSpdlog/include' -I'D:/RCompile/CRANpkg/lib/4.4/testthat/include' -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include" -fopenmp -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c tests/test-normal.cpp -o tests/test-normal.o g++ -std=gnu++17 -I"D:/RCompile/recent/R-4.4.0/include" -DNDEBUG -DARMA_64BIT_WORD=1 -I. -I'D:/RCompile/CRANpkg/lib/4.4/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppArmadillo/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppParallel/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppProgress/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppSpdlog/include' -I'D:/RCompile/CRANpkg/lib/4.4/testthat/include' -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include" -fopenmp -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c tests/test-projection.cpp -o tests/test-projection.o g++ -std=gnu++17 -I"D:/RCompile/recent/R-4.4.0/include" -DNDEBUG -DARMA_64BIT_WORD=1 -I. -I'D:/RCompile/CRANpkg/lib/4.4/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppArmadillo/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppParallel/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppProgress/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppSpdlog/include' -I'D:/RCompile/CRANpkg/lib/4.4/testthat/include' -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include" -fopenmp -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c tests/test-pve.cpp -o tests/test-pve.o g++ -std=gnu++17 -I"D:/RCompile/recent/R-4.4.0/include" -DNDEBUG -DARMA_64BIT_WORD=1 -I. -I'D:/RCompile/CRANpkg/lib/4.4/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppArmadillo/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppParallel/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppProgress/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppSpdlog/include' -I'D:/RCompile/CRANpkg/lib/4.4/testthat/include' -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include" -fopenmp -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c tests/test-runner.cpp -o tests/test-runner.o g++ -std=gnu++17 -I"D:/RCompile/recent/R-4.4.0/include" -DNDEBUG -DARMA_64BIT_WORD=1 -I. -I'D:/RCompile/CRANpkg/lib/4.4/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppArmadillo/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppParallel/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppProgress/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppSpdlog/include' -I'D:/RCompile/CRANpkg/lib/4.4/testthat/include' -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include" -fopenmp -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c tests/test-util.cpp -o tests/test-util.o g++ -std=gnu++17 -shared -s -static-libgcc -o mvMAPIT.dll tmp.def MAPIT.o RcppExports.o gsm/gsm.o logging/log.o mapit/davies.o mapit/normal.o mapit/projection.o mapit/pve.o mapit/util.o mqs/mqs.o tests/test-compare-to-original-mapit.o tests/test-davies.o tests/test-gsm.o tests/test-log.o tests/test-mqs.o tests/test-normal.o tests/test-projection.o tests/test-pve.o tests/test-runner.o tests/test-util.o -fopenmp -LD:/RCompile/recent/R-4.4.0/bin/x64 -lRlapack -LD:/RCompile/recent/R-4.4.0/bin/x64 -lRblas -lgfortran -lm -lquadmath -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/RtmpIjIw2M/R.INSTALL2678819d26e39/mvMAPIT/src' make[1]: Entering directory '/d/temp/RtmpIjIw2M/R.INSTALL2678819d26e39/mvMAPIT/src' make[1]: Leaving directory '/d/temp/RtmpIjIw2M/R.INSTALL2678819d26e39/mvMAPIT/src' installing to d:/Rcompile/CRANpkg/lib/4.4/00LOCK-mvMAPIT/00new/mvMAPIT/libs/x64 ** R ** data *** moving datasets to lazyload DB ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** 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 'mvMAPIT' as mvMAPIT_2.0.3.zip * DONE (mvMAPIT)