* installing *source* package 'bigstatsr' ... ** using staged installation ** libs using C++ compiler: 'g++.exe (GCC) 13.2.0' g++ -std=gnu++17 -I"D:/RCompile/recent/R/include" -DNDEBUG -I'D:/RCompile/CRANpkg/lib/4.5/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.5/RcppArmadillo/include' -I'D:/RCompile/CRANpkg/lib/4.5/rmio/include' -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include" -I../inst/include -fopenmp -DARMA_DONT_PRINT_OPENMP_WARNING -DARMA_DONT_PRINT_CXX11_WARNING -DARMA_64BIT_WORD=1 -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c AUC.cpp -o AUC.o g++ -std=gnu++17 -I"D:/RCompile/recent/R/include" -DNDEBUG -I'D:/RCompile/CRANpkg/lib/4.5/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.5/RcppArmadillo/include' -I'D:/RCompile/CRANpkg/lib/4.5/rmio/include' -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include" -I../inst/include -fopenmp -DARMA_DONT_PRINT_OPENMP_WARNING -DARMA_DONT_PRINT_CXX11_WARNING -DARMA_64BIT_WORD=1 -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c FBM-extract.cpp -o FBM-extract.o g++ -std=gnu++17 -I"D:/RCompile/recent/R/include" -DNDEBUG -I'D:/RCompile/CRANpkg/lib/4.5/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.5/RcppArmadillo/include' -I'D:/RCompile/CRANpkg/lib/4.5/rmio/include' -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include" -I../inst/include -fopenmp -DARMA_DONT_PRINT_OPENMP_WARNING -DARMA_DONT_PRINT_CXX11_WARNING -DARMA_64BIT_WORD=1 -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c FBM-replace.cpp -o FBM-replace.o g++ -std=gnu++17 -I"D:/RCompile/recent/R/include" -DNDEBUG -I'D:/RCompile/CRANpkg/lib/4.5/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.5/RcppArmadillo/include' -I'D:/RCompile/CRANpkg/lib/4.5/rmio/include' -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include" -I../inst/include -fopenmp -DARMA_DONT_PRINT_OPENMP_WARNING -DARMA_DONT_PRINT_CXX11_WARNING -DARMA_64BIT_WORD=1 -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c FBM-xptr.cpp -o FBM-xptr.o g++ -std=gnu++17 -I"D:/RCompile/recent/R/include" -DNDEBUG -I'D:/RCompile/CRANpkg/lib/4.5/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.5/RcppArmadillo/include' -I'D:/RCompile/CRANpkg/lib/4.5/rmio/include' -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include" -I../inst/include -fopenmp -DARMA_DONT_PRINT_OPENMP_WARNING -DARMA_DONT_PRINT_CXX11_WARNING -DARMA_64BIT_WORD=1 -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c RcppExports.cpp -o RcppExports.o g++ -std=gnu++17 -I"D:/RCompile/recent/R/include" -DNDEBUG -I'D:/RCompile/CRANpkg/lib/4.5/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.5/RcppArmadillo/include' -I'D:/RCompile/CRANpkg/lib/4.5/rmio/include' -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include" -I../inst/include -fopenmp -DARMA_DONT_PRINT_OPENMP_WARNING -DARMA_DONT_PRINT_CXX11_WARNING -DARMA_64BIT_WORD=1 -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c arma-prod-self-sub.cpp -o arma-prod-self-sub.o g++ -std=gnu++17 -I"D:/RCompile/recent/R/include" -DNDEBUG -I'D:/RCompile/CRANpkg/lib/4.5/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.5/RcppArmadillo/include' -I'D:/RCompile/CRANpkg/lib/4.5/rmio/include' -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include" -I../inst/include -fopenmp -DARMA_DONT_PRINT_OPENMP_WARNING -DARMA_DONT_PRINT_CXX11_WARNING -DARMA_64BIT_WORD=1 -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c arma-prod-sub.cpp -o arma-prod-sub.o g++ -std=gnu++17 -I"D:/RCompile/recent/R/include" -DNDEBUG -I'D:/RCompile/CRANpkg/lib/4.5/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.5/RcppArmadillo/include' -I'D:/RCompile/CRANpkg/lib/4.5/rmio/include' -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include" -I../inst/include -fopenmp -DARMA_DONT_PRINT_OPENMP_WARNING -DARMA_DONT_PRINT_CXX11_WARNING -DARMA_64BIT_WORD=1 -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c arma-prod.cpp -o arma-prod.o g++ -std=gnu++17 -I"D:/RCompile/recent/R/include" -DNDEBUG -I'D:/RCompile/CRANpkg/lib/4.5/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.5/RcppArmadillo/include' -I'D:/RCompile/CRANpkg/lib/4.5/rmio/include' -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include" -I../inst/include -fopenmp -DARMA_DONT_PRINT_OPENMP_WARNING -DARMA_DONT_PRINT_CXX11_WARNING -DARMA_64BIT_WORD=1 -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c biglassoLin.cpp -o biglassoLin.o g++ -std=gnu++17 -I"D:/RCompile/recent/R/include" -DNDEBUG -I'D:/RCompile/CRANpkg/lib/4.5/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.5/RcppArmadillo/include' -I'D:/RCompile/CRANpkg/lib/4.5/rmio/include' -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include" -I../inst/include -fopenmp -DARMA_DONT_PRINT_OPENMP_WARNING -DARMA_DONT_PRINT_CXX11_WARNING -DARMA_64BIT_WORD=1 -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c biglassoLog.cpp -o biglassoLog.o In file included from biglassoLog.cpp:4: ../inst/include/bigstatsr/biglasso/logistic.hpp: In function 'Rcpp::List bigstatsr::biglassoLog::COPY_cdfit_binomial_hsr(C, const Rcpp::NumericVector&, const Rcpp::NumericVector&, const Rcpp::NumericVector&, const Rcpp::NumericVector&, const Rcpp::NumericVector&, const Rcpp::NumericVector&, Rcpp::NumericVector&, double, double, int, int, C, const Rcpp::NumericVector&, const Rcpp::NumericVector&, int, int) [with C = RawSubMatCovAcc]': ../inst/include/bigstatsr/biglasso/logistic.hpp:212:41: warning: 'sum_s' may be used uninitialized [-Wmaybe-uninitialized] 212 | violations = COPY_check_strong_set( | ~~~~~~~~~~~~~~~~~~~~~^ 213 | in_A, in_S, z, macc, center, scale, pf, beta_old, l1, l2, s, sum_s); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../inst/include/bigstatsr/biglasso/logistic.hpp:76:21: note: 'sum_s' was declared here 76 | double sumWResid, sum_s, sum_wx_sq, sum_wx, sum_w, x, xw; | ^~~~~ ../inst/include/bigstatsr/biglasso/logistic.hpp: In function 'Rcpp::List bigstatsr::biglassoLog::COPY_cdfit_binomial_hsr(C, const Rcpp::NumericVector&, const Rcpp::NumericVector&, const Rcpp::NumericVector&, const Rcpp::NumericVector&, const Rcpp::NumericVector&, const Rcpp::NumericVector&, Rcpp::NumericVector&, double, double, int, int, C, const Rcpp::NumericVector&, const Rcpp::NumericVector&, int, int) [with C = SubMatCovAcc]': ../inst/include/bigstatsr/biglasso/logistic.hpp:212:41: warning: 'sum_s' may be used uninitialized [-Wmaybe-uninitialized] 212 | violations = COPY_check_strong_set( | ~~~~~~~~~~~~~~~~~~~~~^ 213 | in_A, in_S, z, macc, center, scale, pf, beta_old, l1, l2, s, sum_s); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../inst/include/bigstatsr/biglasso/logistic.hpp:76:21: note: 'sum_s' was declared here 76 | double sumWResid, sum_s, sum_wx_sq, sum_wx, sum_w, x, xw; | ^~~~~ ../inst/include/bigstatsr/biglasso/logistic.hpp: In function 'Rcpp::List bigstatsr::biglassoLog::COPY_cdfit_binomial_hsr(C, const Rcpp::NumericVector&, const Rcpp::NumericVector&, const Rcpp::NumericVector&, const Rcpp::NumericVector&, const Rcpp::NumericVector&, const Rcpp::NumericVector&, Rcpp::NumericVector&, double, double, int, int, C, const Rcpp::NumericVector&, const Rcpp::NumericVector&, int, int) [with C = SubMatCovAcc]': ../inst/include/bigstatsr/biglasso/logistic.hpp:212:41: warning: 'sum_s' may be used uninitialized [-Wmaybe-uninitialized] 212 | violations = COPY_check_strong_set( | ~~~~~~~~~~~~~~~~~~~~~^ 213 | in_A, in_S, z, macc, center, scale, pf, beta_old, l1, l2, s, sum_s); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../inst/include/bigstatsr/biglasso/logistic.hpp:76:21: note: 'sum_s' was declared here 76 | double sumWResid, sum_s, sum_wx_sq, sum_wx, sum_w, x, xw; | ^~~~~ ../inst/include/bigstatsr/biglasso/logistic.hpp: In function 'Rcpp::List bigstatsr::biglassoLog::COPY_cdfit_binomial_hsr(C, const Rcpp::NumericVector&, const Rcpp::NumericVector&, const Rcpp::NumericVector&, const Rcpp::NumericVector&, const Rcpp::NumericVector&, const Rcpp::NumericVector&, Rcpp::NumericVector&, double, double, int, int, C, const Rcpp::NumericVector&, const Rcpp::NumericVector&, int, int) [with C = SubMatCovAcc]': ../inst/include/bigstatsr/biglasso/logistic.hpp:212:41: warning: 'sum_s' may be used uninitialized [-Wmaybe-uninitialized] 212 | violations = COPY_check_strong_set( | ~~~~~~~~~~~~~~~~~~~~~^ 213 | in_A, in_S, z, macc, center, scale, pf, beta_old, l1, l2, s, sum_s); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../inst/include/bigstatsr/biglasso/logistic.hpp:76:21: note: 'sum_s' was declared here 76 | double sumWResid, sum_s, sum_wx_sq, sum_wx, sum_w, x, xw; | ^~~~~ ../inst/include/bigstatsr/biglasso/logistic.hpp: In function 'Rcpp::List bigstatsr::biglassoLog::COPY_cdfit_binomial_hsr(C, const Rcpp::NumericVector&, const Rcpp::NumericVector&, const Rcpp::NumericVector&, const Rcpp::NumericVector&, const Rcpp::NumericVector&, const Rcpp::NumericVector&, Rcpp::NumericVector&, double, double, int, int, C, const Rcpp::NumericVector&, const Rcpp::NumericVector&, int, int) [with C = SubMatCovAcc]': ../inst/include/bigstatsr/biglasso/logistic.hpp:212:41: warning: 'sum_s' may be used uninitialized [-Wmaybe-uninitialized] 212 | violations = COPY_check_strong_set( | ~~~~~~~~~~~~~~~~~~~~~^ 213 | in_A, in_S, z, macc, center, scale, pf, beta_old, l1, l2, s, sum_s); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../inst/include/bigstatsr/biglasso/logistic.hpp:76:21: note: 'sum_s' was declared here 76 | double sumWResid, sum_s, sum_wx_sq, sum_wx, sum_w, x, xw; | ^~~~~ ../inst/include/bigstatsr/biglasso/logistic.hpp: In function 'Rcpp::List bigstatsr::biglassoLog::COPY_cdfit_binomial_hsr(C, const Rcpp::NumericVector&, const Rcpp::NumericVector&, const Rcpp::NumericVector&, const Rcpp::NumericVector&, const Rcpp::NumericVector&, const Rcpp::NumericVector&, Rcpp::NumericVector&, double, double, int, int, C, const Rcpp::NumericVector&, const Rcpp::NumericVector&, int, int) [with C = SubMatCovAcc]': ../inst/include/bigstatsr/biglasso/logistic.hpp:212:41: warning: 'sum_s' may be used uninitialized [-Wmaybe-uninitialized] 212 | violations = COPY_check_strong_set( | ~~~~~~~~~~~~~~~~~~~~~^ 213 | in_A, in_S, z, macc, center, scale, pf, beta_old, l1, l2, s, sum_s); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ../inst/include/bigstatsr/biglasso/logistic.hpp:76:21: note: 'sum_s' was declared here 76 | double sumWResid, sum_s, sum_wx_sq, sum_wx, sum_w, x, xw; | ^~~~~ g++ -std=gnu++17 -I"D:/RCompile/recent/R/include" -DNDEBUG -I'D:/RCompile/CRANpkg/lib/4.5/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.5/RcppArmadillo/include' -I'D:/RCompile/CRANpkg/lib/4.5/rmio/include' -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include" -I../inst/include -fopenmp -DARMA_DONT_PRINT_OPENMP_WARNING -DARMA_DONT_PRINT_CXX11_WARNING -DARMA_64BIT_WORD=1 -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c biglassoUtils.cpp -o biglassoUtils.o g++ -std=gnu++17 -I"D:/RCompile/recent/R/include" -DNDEBUG -I'D:/RCompile/CRANpkg/lib/4.5/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.5/RcppArmadillo/include' -I'D:/RCompile/CRANpkg/lib/4.5/rmio/include' -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include" -I../inst/include -fopenmp -DARMA_DONT_PRINT_OPENMP_WARNING -DARMA_DONT_PRINT_CXX11_WARNING -DARMA_64BIT_WORD=1 -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c colstats.cpp -o colstats.o g++ -std=gnu++17 -I"D:/RCompile/recent/R/include" -DNDEBUG -I'D:/RCompile/CRANpkg/lib/4.5/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.5/RcppArmadillo/include' -I'D:/RCompile/CRANpkg/lib/4.5/rmio/include' -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include" -I../inst/include -fopenmp -DARMA_DONT_PRINT_OPENMP_WARNING -DARMA_DONT_PRINT_CXX11_WARNING -DARMA_64BIT_WORD=1 -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c counts.cpp -o counts.o g++ -std=gnu++17 -I"D:/RCompile/recent/R/include" -DNDEBUG -I'D:/RCompile/CRANpkg/lib/4.5/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.5/RcppArmadillo/include' -I'D:/RCompile/CRANpkg/lib/4.5/rmio/include' -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include" -I../inst/include -fopenmp -DARMA_DONT_PRINT_OPENMP_WARNING -DARMA_DONT_PRINT_CXX11_WARNING -DARMA_64BIT_WORD=1 -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c errorMsgs.cpp -o errorMsgs.o g++ -std=gnu++17 -I"D:/RCompile/recent/R/include" -DNDEBUG -I'D:/RCompile/CRANpkg/lib/4.5/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.5/RcppArmadillo/include' -I'D:/RCompile/CRANpkg/lib/4.5/rmio/include' -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include" -I../inst/include -fopenmp -DARMA_DONT_PRINT_OPENMP_WARNING -DARMA_DONT_PRINT_CXX11_WARNING -DARMA_64BIT_WORD=1 -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c prodMatVec.cpp -o prodMatVec.o g++ -std=gnu++17 -I"D:/RCompile/recent/R/include" -DNDEBUG -I'D:/RCompile/CRANpkg/lib/4.5/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.5/RcppArmadillo/include' -I'D:/RCompile/CRANpkg/lib/4.5/rmio/include' -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include" -I../inst/include -fopenmp -DARMA_DONT_PRINT_OPENMP_WARNING -DARMA_DONT_PRINT_CXX11_WARNING -DARMA_64BIT_WORD=1 -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c transpose.cpp -o transpose.o g++ -std=gnu++17 -I"D:/RCompile/recent/R/include" -DNDEBUG -I'D:/RCompile/CRANpkg/lib/4.5/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.5/RcppArmadillo/include' -I'D:/RCompile/CRANpkg/lib/4.5/rmio/include' -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include" -I../inst/include -fopenmp -DARMA_DONT_PRINT_OPENMP_WARNING -DARMA_DONT_PRINT_CXX11_WARNING -DARMA_64BIT_WORD=1 -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c univRegLin5.cpp -o univRegLin5.o g++ -std=gnu++17 -I"D:/RCompile/recent/R/include" -DNDEBUG -I'D:/RCompile/CRANpkg/lib/4.5/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.5/RcppArmadillo/include' -I'D:/RCompile/CRANpkg/lib/4.5/rmio/include' -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include" -I../inst/include -fopenmp -DARMA_DONT_PRINT_OPENMP_WARNING -DARMA_DONT_PRINT_CXX11_WARNING -DARMA_64BIT_WORD=1 -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c univRegLog.cpp -o univRegLog.o g++ -std=gnu++17 -I"D:/RCompile/recent/R/include" -DNDEBUG -I'D:/RCompile/CRANpkg/lib/4.5/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.5/RcppArmadillo/include' -I'D:/RCompile/CRANpkg/lib/4.5/rmio/include' -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include" -I../inst/include -fopenmp -DARMA_DONT_PRINT_OPENMP_WARNING -DARMA_DONT_PRINT_CXX11_WARNING -DARMA_64BIT_WORD=1 -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c utils-mat.cpp -o utils-mat.o g++ -std=gnu++17 -shared -s -static-libgcc -o bigstatsr.dll tmp.def AUC.o FBM-extract.o FBM-replace.o FBM-xptr.o RcppExports.o arma-prod-self-sub.o arma-prod-sub.o arma-prod.o biglassoLin.o biglassoLog.o biglassoUtils.o colstats.o counts.o errorMsgs.o prodMatVec.o transpose.o univRegLin5.o univRegLog.o utils-mat.o -fopenmp -LD:/RCompile/recent/R/bin/x64 -lRlapack -LD:/RCompile/recent/R/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/bin/x64 -lR installing to d:/RCompile/CRANincoming/R-devel/lib/00LOCK-bigstatsr/00new/bigstatsr/libs/x64 ** R ** inst ** byte-compile and prepare package for lazy loading Creating a generic function for 'typeof' from package 'base' in package 'bigstatsr' Creating a generic function for 'diag' from package 'base' in package 'bigstatsr' ** 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 * DONE (bigstatsr)