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INSTALL report for SNPRelate on celaya2

This page was generated on 2019-10-16 12:53:53 -0400 (Wed, 16 Oct 2019).

Package 1552/1741HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
SNPRelate 1.18.1
Xiuwen Zheng
Snapshot Date: 2019-10-15 17:01:26 -0400 (Tue, 15 Oct 2019)
URL: https://git.bioconductor.org/packages/SNPRelate
Branch: RELEASE_3_9
Last Commit: 81c581b
Last Changed Date: 2019-07-03 14:00:19 -0400 (Wed, 03 Jul 2019)
malbec2 Linux (Ubuntu 18.04.2 LTS) / x86_64  OK  OK  OK UNNEEDED, same version exists in internal repository
tokay2 Windows Server 2012 R2 Standard / x64  OK  OK  OK  OK UNNEEDED, same version exists in internal repository
celaya2 OS X 10.11.6 El Capitan / x86_64 [ OK ] OK  OK  OK UNNEEDED, same version exists in internal repository

Summary

Package: SNPRelate
Version: 1.18.1
Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD INSTALL SNPRelate
StartedAt: 2019-10-15 18:19:19 -0400 (Tue, 15 Oct 2019)
EndedAt: 2019-10-15 18:19:59 -0400 (Tue, 15 Oct 2019)
EllapsedTime: 39.6 seconds
RetCode: 0
Status:  OK 

Command output

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### Running command:
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###   /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD INSTALL SNPRelate
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* installing to library ‘/Library/Frameworks/R.framework/Versions/3.6/Resources/library’
* installing *source* package ‘SNPRelate’ ...
** using staged installation
** libs
clang++ -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DUSING_R -I. -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/gdsfmt/include" -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include  -fPIC  -Wall -g -O2  -c ConvToGDS.cpp -o ConvToGDS.o
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DUSING_R -I. -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/gdsfmt/include" -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include  -fPIC  -Wall -g -O2  -c R_SNPRelate.c -o R_SNPRelate.o
clang++ -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DUSING_R -I. -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/gdsfmt/include" -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include  -fPIC  -Wall -g -O2  -c SNPRelate.cpp -o SNPRelate.o
clang++ -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DUSING_R -I. -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/gdsfmt/include" -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include  -fPIC  -Wall -g -O2  -c ThreadPool.cpp -o ThreadPool.o
clang++ -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DUSING_R -I. -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/gdsfmt/include" -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include  -fPIC  -Wall -g -O2  -c dGenGWAS.cpp -o dGenGWAS.o
clang++ -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DUSING_R -I. -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/gdsfmt/include" -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include  -fPIC  -Wall -g -O2  -c dVect.cpp -o dVect.o
clang++ -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DUSING_R -I. -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/gdsfmt/include" -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include  -fPIC  -Wall -g -O2  -c genBeta.cpp -o genBeta.o
clang++ -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DUSING_R -I. -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/gdsfmt/include" -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include  -fPIC  -Wall -g -O2  -c genEIGMIX.cpp -o genEIGMIX.o
clang++ -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DUSING_R -I. -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/gdsfmt/include" -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include  -fPIC  -Wall -g -O2  -c genFst.cpp -o genFst.o
clang++ -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DUSING_R -I. -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/gdsfmt/include" -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include  -fPIC  -Wall -g -O2  -c genHWE.cpp -o genHWE.o
clang++ -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DUSING_R -I. -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/gdsfmt/include" -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include  -fPIC  -Wall -g -O2  -c genIBD.cpp -o genIBD.o
clang++ -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DUSING_R -I. -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/gdsfmt/include" -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include  -fPIC  -Wall -g -O2  -c genIBS.cpp -o genIBS.o
clang++ -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DUSING_R -I. -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/gdsfmt/include" -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include  -fPIC  -Wall -g -O2  -c genKING.cpp -o genKING.o
clang++ -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DUSING_R -I. -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/gdsfmt/include" -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include  -fPIC  -Wall -g -O2  -c genLD.cpp -o genLD.o
clang++ -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DUSING_R -I. -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/gdsfmt/include" -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include  -fPIC  -Wall -g -O2  -c genPCA.cpp -o genPCA.o
clang++ -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DUSING_R -I. -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/gdsfmt/include" -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include  -fPIC  -Wall -g -O2  -c genSlideWin.cpp -o genSlideWin.o
clang++ -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/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 -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin15/6.1.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Library/Frameworks/R.framework/Versions/3.6/Resources/library/00LOCK-SNPRelate/00new/SNPRelate/libs
** 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
** 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)