* installing *source* package 'MAGEE' ... ** using staged installation ** libs using C compiler: 'gcc.exe (GCC) 13.2.0' 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/4.4/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppArmadillo/include' -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include" -DARMA_64BIT_WORD -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c fitglmm.cpp -o fitglmm.o In file included from D:/RCompile/CRANpkg/lib/4.4/RcppArmadillo/include/armadillo:26, from D:/RCompile/CRANpkg/lib/4.4/RcppArmadillo/include/RcppArmadillo/interface/RcppArmadilloForward.h:57, from D:/RCompile/CRANpkg/lib/4.4/RcppArmadillo/include/RcppArmadillo.h:29, from fitglmm.cpp:27: D:/RCompile/CRANpkg/lib/4.4/RcppArmadillo/include/armadillo_bits/config.hpp:321:86: note: '#pragma message: INFO: support for ARMA_DONT_PRINT_ERRORS option has been removed' 321 | #pragma message ("INFO: support for ARMA_DONT_PRINT_ERRORS option has been removed") | ^ D:/RCompile/CRANpkg/lib/4.4/RcppArmadillo/include/armadillo_bits/config.hpp:326:75: note: '#pragma message: INFO: suggest to use ARMA_WARN_LEVEL option instead' 326 | #pragma message ("INFO: suggest to use ARMA_WARN_LEVEL option instead") | ^ D:/RCompile/CRANpkg/lib/4.4/RcppArmadillo/include/armadillo_bits/config.hpp:329:61: note: '#pragma message: INFO: see the documentation for details' 329 | #pragma message ("INFO: see the documentation for details") | ^ fitglmm.cpp: In function 'SEXPREC* glmm_gei_bgen13(SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP)': fitglmm.cpp:333:18: warning: unused variable 'missRate' [-Wunused-variable] 333 | double missRate = nmiss / (double)(n * 1.0); | ^~~~~~~~ fitglmm.cpp: In function 'SEXPREC* glmm_gei_bgen11(SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP)': fitglmm.cpp:877:16: warning: unused variable 'missRate' [-Wunused-variable] 877 | double missRate = nmiss / (double)(n * 1.0); | ^~~~~~~~ g++ -std=gnu++17 -I"D:/RCompile/recent/R/include" -DNDEBUG -I'D:/RCompile/CRANpkg/lib/4.4/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppArmadillo/include' -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include" -DARMA_64BIT_WORD -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c fitmagee.cpp -o fitmagee.o g++ -std=gnu++17 -I"D:/RCompile/recent/R/include" -DNDEBUG -I'D:/RCompile/CRANpkg/lib/4.4/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppArmadillo/include' -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include" -DARMA_64BIT_WORD -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c read_bgen.cpp -o read_bgen.o gcc -I"D:/RCompile/recent/R/include" -DNDEBUG -I'D:/RCompile/CRANpkg/lib/4.4/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppArmadillo/include' -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include" -pedantic -Wstrict-prototypes -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c registerDynamicSymbol.c -o registerDynamicSymbol.o gcc -I"D:/RCompile/recent/R/include" -DNDEBUG -I'D:/RCompile/CRANpkg/lib/4.4/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppArmadillo/include' -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include" -pedantic -Wstrict-prototypes -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c libdeflate/lib/arm/cpu_features.c -o libdeflate/lib/arm/cpu_features.o gcc -I"D:/RCompile/recent/R/include" -DNDEBUG -I'D:/RCompile/CRANpkg/lib/4.4/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppArmadillo/include' -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include" -pedantic -Wstrict-prototypes -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c libdeflate/lib/x86/cpu_features.c -o libdeflate/lib/x86/cpu_features.o gcc -I"D:/RCompile/recent/R/include" -DNDEBUG -I'D:/RCompile/CRANpkg/lib/4.4/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppArmadillo/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/include" -DNDEBUG -I'D:/RCompile/CRANpkg/lib/4.4/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppArmadillo/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/include" -DNDEBUG -I'D:/RCompile/CRANpkg/lib/4.4/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppArmadillo/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/include" -DNDEBUG -I'D:/RCompile/CRANpkg/lib/4.4/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppArmadillo/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/include" -DNDEBUG -I'D:/RCompile/CRANpkg/lib/4.4/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppArmadillo/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/include" -DNDEBUG -I'D:/RCompile/CRANpkg/lib/4.4/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppArmadillo/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/include" -DNDEBUG -I'D:/RCompile/CRANpkg/lib/4.4/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppArmadillo/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/include" -DNDEBUG -I'D:/RCompile/CRANpkg/lib/4.4/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppArmadillo/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/include" -DNDEBUG -I'D:/RCompile/CRANpkg/lib/4.4/Rcpp/include' -I'D:/RCompile/CRANpkg/lib/4.4/RcppArmadillo/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 g++ -std=gnu++17 -shared -s -static-libgcc -o MAGEE.dll tmp.def fitglmm.o fitmagee.o read_bgen.o registerDynamicSymbol.o -LD:/RCompile/recent/R/bin/x64 -lRlapack -LD:/RCompile/recent/R/bin/x64 -lRblas -lgfortran -lm -lquadmath -lz -lbz2 -lzstd libdeflate/lib/arm/cpu_features.o libdeflate/lib/x86/cpu_features.o libdeflate/lib/adler32.o libdeflate/lib/crc32.o libdeflate/lib/deflate_compress.o libdeflate/lib/deflate_decompress.o libdeflate/lib/gzip_compress.o libdeflate/lib/gzip_decompress.o libdeflate/lib/utils.o libdeflate/lib/zlib_compress.o libdeflate/lib/zlib_decompress.o -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-MAGEE/00new/MAGEE/libs/x64 ** R ** data ** 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 * DONE (MAGEE)