############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/R/R/bin/R CMD INSTALL SNPRelate ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/R/R-4.4.2/site-library’ * installing *source* package ‘SNPRelate’ ... ** using staged installation ** libs using C compiler: ‘aarch64-unknown-linux-gnu-gcc (GCC) 14.2.0’ using C++ compiler: ‘aarch64-unknown-linux-gnu-g++ (GCC) 14.2.0’ /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R/include" -DNDEBUG -DUSING_R -DUSE_FC_LEN_T -I. -I'/home/biocbuild/R/R-4.4.2/site-library/gdsfmt/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -c ConvToGDS.cpp -o ConvToGDS.o /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -I"/home/biocbuild/R/R/include" -DNDEBUG -DUSING_R -DUSE_FC_LEN_T -I. -I'/home/biocbuild/R/R-4.4.2/site-library/gdsfmt/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -c R_SNPRelate.c -o R_SNPRelate.o /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R/include" -DNDEBUG -DUSING_R -DUSE_FC_LEN_T -I. -I'/home/biocbuild/R/R-4.4.2/site-library/gdsfmt/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -c SNPRelate.cpp -o SNPRelate.o /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R/include" -DNDEBUG -DUSING_R -DUSE_FC_LEN_T -I. -I'/home/biocbuild/R/R-4.4.2/site-library/gdsfmt/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -c ThreadPool.cpp -o ThreadPool.o /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R/include" -DNDEBUG -DUSING_R -DUSE_FC_LEN_T -I. -I'/home/biocbuild/R/R-4.4.2/site-library/gdsfmt/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -c dGenGWAS.cpp -o dGenGWAS.o /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R/include" -DNDEBUG -DUSING_R -DUSE_FC_LEN_T -I. -I'/home/biocbuild/R/R-4.4.2/site-library/gdsfmt/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -c dVect.cpp -o dVect.o /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R/include" -DNDEBUG -DUSING_R -DUSE_FC_LEN_T -I. -I'/home/biocbuild/R/R-4.4.2/site-library/gdsfmt/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -c genBeta.cpp -o genBeta.o /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R/include" -DNDEBUG -DUSING_R -DUSE_FC_LEN_T -I. -I'/home/biocbuild/R/R-4.4.2/site-library/gdsfmt/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -c genEIGMIX.cpp -o genEIGMIX.o /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R/include" -DNDEBUG -DUSING_R -DUSE_FC_LEN_T -I. -I'/home/biocbuild/R/R-4.4.2/site-library/gdsfmt/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -c genFst.cpp -o genFst.o /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R/include" -DNDEBUG -DUSING_R -DUSE_FC_LEN_T -I. -I'/home/biocbuild/R/R-4.4.2/site-library/gdsfmt/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -c genHWE.cpp -o genHWE.o /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R/include" -DNDEBUG -DUSING_R -DUSE_FC_LEN_T -I. -I'/home/biocbuild/R/R-4.4.2/site-library/gdsfmt/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -c genIBD.cpp -o genIBD.o /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R/include" -DNDEBUG -DUSING_R -DUSE_FC_LEN_T -I. -I'/home/biocbuild/R/R-4.4.2/site-library/gdsfmt/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -c genIBS.cpp -o genIBS.o /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R/include" -DNDEBUG -DUSING_R -DUSE_FC_LEN_T -I. -I'/home/biocbuild/R/R-4.4.2/site-library/gdsfmt/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -c genKING.cpp -o genKING.o /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R/include" -DNDEBUG -DUSING_R -DUSE_FC_LEN_T -I. -I'/home/biocbuild/R/R-4.4.2/site-library/gdsfmt/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -c genLD.cpp -o genLD.o /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R/include" -DNDEBUG -DUSING_R -DUSE_FC_LEN_T -I. -I'/home/biocbuild/R/R-4.4.2/site-library/gdsfmt/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -c genPCA.cpp -o genPCA.o /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R/include" -DNDEBUG -DUSING_R -DUSE_FC_LEN_T -I. -I'/home/biocbuild/R/R-4.4.2/site-library/gdsfmt/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -c genSlideWin.cpp -o genSlideWin.o /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -shared -L/home/biocbuild/R/R/lib -L/usr/local/lib -o SNPRelate.so ConvToGDS.o R_SNPRelate.o SNPRelate.o ThreadPool.o dGenGWAS.o dVect.o genBeta.o genEIGMIX.o genFst.o genHWE.o genIBD.o genIBS.o genKING.o genLD.o genPCA.o genSlideWin.o -lpthread -lopenblas -L/usr/lib/gcc/aarch64-openEuler-linux/12 -lgfortran -lm -L/home/biocbuild/R/R/lib -lR installing to /home/biocbuild/R/R-4.4.2/site-library/00LOCK-SNPRelate/00new/SNPRelate/libs ** 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 ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (SNPRelate)