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BioC 3.3: INSTALL report for SNPRelate on moscato2

This page was generated on 2016-10-13 12:53:02 -0700 (Thu, 13 Oct 2016).

Package 1093/1210HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
SNPRelate 1.6.6
Xiuwen Zheng
Snapshot Date: 2016-10-12 17:20:15 -0700 (Wed, 12 Oct 2016)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_3/madman/Rpacks/SNPRelate
Last Changed Rev: 121113 / Revision: 122332
Last Changed Date: 2016-09-18 21:45:27 -0700 (Sun, 18 Sep 2016)
zin2 Linux (Ubuntu 14.04.2 LTS) / x86_64  OK  OK  OK UNNEEDED, same version exists in internal repository
moscato2 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64 [ OK ] OK  OK  OK UNNEEDED, same version exists in internal repository
oaxaca Mac OS X Mavericks (10.9.5) / x86_64  OK  OK  OK  OK UNNEEDED, same version exists in internal repository

Summary

Package: SNPRelate
Version: 1.6.6
Command: rm -rf SNPRelate.buildbin-libdir && mkdir SNPRelate.buildbin-libdir && C:\cygwin\bin\curl.exe -O http://zin2/BBS/3.3/bioc/src/contrib/SNPRelate_1.6.6.tar.gz && E:\biocbld\bbs-3.3-bioc\R\bin\R.exe CMD INSTALL --build --library=SNPRelate.buildbin-libdir --merge-multiarch SNPRelate_1.6.6.tar.gz && E:\biocbld\bbs-3.3-bioc\R\bin\R.exe CMD INSTALL SNPRelate_1.6.6.zip && rm SNPRelate_1.6.6.tar.gz SNPRelate_1.6.6.zip
StartedAt: 2016-10-12 18:37:29 -0700 (Wed, 12 Oct 2016)
EndedAt: 2016-10-12 18:40:53 -0700 (Wed, 12 Oct 2016)
EllapsedTime: 203.4 seconds
RetCode: 0
Status:  OK  

Command output

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###
### Running command:
###
###   rm -rf SNPRelate.buildbin-libdir && mkdir SNPRelate.buildbin-libdir  && C:\cygwin\bin\curl.exe -O http://zin2/BBS/3.3/bioc/src/contrib/SNPRelate_1.6.6.tar.gz && E:\biocbld\bbs-3.3-bioc\R\bin\R.exe CMD INSTALL --build --library=SNPRelate.buildbin-libdir --merge-multiarch SNPRelate_1.6.6.tar.gz && E:\biocbld\bbs-3.3-bioc\R\bin\R.exe CMD INSTALL SNPRelate_1.6.6.zip  && rm SNPRelate_1.6.6.tar.gz SNPRelate_1.6.6.zip
###
##############################################################################
##############################################################################




install for i386

* installing *source* package 'SNPRelate' ...
** libs
C:/Rtools/mingw_32/bin/g++  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -DUSING_R -I.   -I"E:/biocbld/bbs-3.3-bioc/R/library/gdsfmt/include" -I"c:/local323/include"     -O2 -Wall  -mtune=core2 -c ConvToGDS.cpp -o ConvToGDS.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -DUSING_R -I.   -I"E:/biocbld/bbs-3.3-bioc/R/library/gdsfmt/include" -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c R_SNPRelate.c -o R_SNPRelate.o
C:/Rtools/mingw_32/bin/g++  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -DUSING_R -I.   -I"E:/biocbld/bbs-3.3-bioc/R/library/gdsfmt/include" -I"c:/local323/include"     -O2 -Wall  -mtune=core2 -c SNPRelate.cpp -o SNPRelate.o
C:/Rtools/mingw_32/bin/g++  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -DUSING_R -I.   -I"E:/biocbld/bbs-3.3-bioc/R/library/gdsfmt/include" -I"c:/local323/include"     -O2 -Wall  -mtune=core2 -c ThreadPool.cpp -o ThreadPool.o
C:/Rtools/mingw_32/bin/g++  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -DUSING_R -I.   -I"E:/biocbld/bbs-3.3-bioc/R/library/gdsfmt/include" -I"c:/local323/include"     -O2 -Wall  -mtune=core2 -c dGenGWAS.cpp -o dGenGWAS.o
C:/Rtools/mingw_32/bin/g++  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -DUSING_R -I.   -I"E:/biocbld/bbs-3.3-bioc/R/library/gdsfmt/include" -I"c:/local323/include"     -O2 -Wall  -mtune=core2 -c dVect.cpp -o dVect.o
C:/Rtools/mingw_32/bin/g++  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -DUSING_R -I.   -I"E:/biocbld/bbs-3.3-bioc/R/library/gdsfmt/include" -I"c:/local323/include"     -O2 -Wall  -mtune=core2 -c genFst.cpp -o genFst.o
C:/Rtools/mingw_32/bin/g++  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -DUSING_R -I.   -I"E:/biocbld/bbs-3.3-bioc/R/library/gdsfmt/include" -I"c:/local323/include"     -O2 -Wall  -mtune=core2 -c genHWE.cpp -o genHWE.o
C:/Rtools/mingw_32/bin/g++  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -DUSING_R -I.   -I"E:/biocbld/bbs-3.3-bioc/R/library/gdsfmt/include" -I"c:/local323/include"     -O2 -Wall  -mtune=core2 -c genIBD.cpp -o genIBD.o
C:/Rtools/mingw_32/bin/g++  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -DUSING_R -I.   -I"E:/biocbld/bbs-3.3-bioc/R/library/gdsfmt/include" -I"c:/local323/include"     -O2 -Wall  -mtune=core2 -c genIBS.cpp -o genIBS.o
C:/Rtools/mingw_32/bin/g++  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -DUSING_R -I.   -I"E:/biocbld/bbs-3.3-bioc/R/library/gdsfmt/include" -I"c:/local323/include"     -O2 -Wall  -mtune=core2 -c genKING.cpp -o genKING.o
C:/Rtools/mingw_32/bin/g++  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -DUSING_R -I.   -I"E:/biocbld/bbs-3.3-bioc/R/library/gdsfmt/include" -I"c:/local323/include"     -O2 -Wall  -mtune=core2 -c genLD.cpp -o genLD.o
C:/Rtools/mingw_32/bin/g++  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -DUSING_R -I.   -I"E:/biocbld/bbs-3.3-bioc/R/library/gdsfmt/include" -I"c:/local323/include"     -O2 -Wall  -mtune=core2 -c genPCA.cpp -o genPCA.o
C:/Rtools/mingw_32/bin/g++  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -DUSING_R -I.   -I"E:/biocbld/bbs-3.3-bioc/R/library/gdsfmt/include" -I"c:/local323/include"     -O2 -Wall  -mtune=core2 -c genRec.cpp -o genRec.o
C:/Rtools/mingw_32/bin/g++  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -DUSING_R -I.   -I"E:/biocbld/bbs-3.3-bioc/R/library/gdsfmt/include" -I"c:/local323/include"     -O2 -Wall  -mtune=core2 -c genSlideWin.cpp -o genSlideWin.o
C:/Rtools/mingw_32/bin/g++ -shared -s -static-libgcc -o SNPRelate.dll tmp.def ConvToGDS.o R_SNPRelate.o SNPRelate.o ThreadPool.o dGenGWAS.o dVect.o genFst.o genHWE.o genIBD.o genIBS.o genKING.o genLD.o genPCA.o genRec.o genSlideWin.o -lgfortran -lm -lquadmath -LE:/biocbld/BBS-3˜1.3-B/R/bin/i386 -lRblas -LE:/biocbld/BBS-3˜1.3-B/R/bin/i386 -lRlapack -Lc:/local323/lib/i386 -Lc:/local323/lib -LE:/biocbld/BBS-3˜1.3-B/R/bin/i386 -lR
installing to E:/biocbld/bbs-3.3-bioc/meat/SNPRelate.buildbin-libdir/SNPRelate/libs/i386
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded

install for x64

* installing *source* package 'SNPRelate' ...
** libs
C:/Rtools/mingw_64/bin/g++  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -DUSING_R -I.   -I"E:/biocbld/bbs-3.3-bioc/R/library/gdsfmt/include" -I"c:/local323/include"     -O2 -Wall  -mtune=core2 -c ConvToGDS.cpp -o ConvToGDS.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -DUSING_R -I.   -I"E:/biocbld/bbs-3.3-bioc/R/library/gdsfmt/include" -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c R_SNPRelate.c -o R_SNPRelate.o
C:/Rtools/mingw_64/bin/g++  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -DUSING_R -I.   -I"E:/biocbld/bbs-3.3-bioc/R/library/gdsfmt/include" -I"c:/local323/include"     -O2 -Wall  -mtune=core2 -c SNPRelate.cpp -o SNPRelate.o
C:/Rtools/mingw_64/bin/g++  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -DUSING_R -I.   -I"E:/biocbld/bbs-3.3-bioc/R/library/gdsfmt/include" -I"c:/local323/include"     -O2 -Wall  -mtune=core2 -c ThreadPool.cpp -o ThreadPool.o
C:/Rtools/mingw_64/bin/g++  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -DUSING_R -I.   -I"E:/biocbld/bbs-3.3-bioc/R/library/gdsfmt/include" -I"c:/local323/include"     -O2 -Wall  -mtune=core2 -c dGenGWAS.cpp -o dGenGWAS.o
C:/Rtools/mingw_64/bin/g++  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -DUSING_R -I.   -I"E:/biocbld/bbs-3.3-bioc/R/library/gdsfmt/include" -I"c:/local323/include"     -O2 -Wall  -mtune=core2 -c dVect.cpp -o dVect.o
C:/Rtools/mingw_64/bin/g++  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -DUSING_R -I.   -I"E:/biocbld/bbs-3.3-bioc/R/library/gdsfmt/include" -I"c:/local323/include"     -O2 -Wall  -mtune=core2 -c genFst.cpp -o genFst.o
C:/Rtools/mingw_64/bin/g++  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -DUSING_R -I.   -I"E:/biocbld/bbs-3.3-bioc/R/library/gdsfmt/include" -I"c:/local323/include"     -O2 -Wall  -mtune=core2 -c genHWE.cpp -o genHWE.o
C:/Rtools/mingw_64/bin/g++  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -DUSING_R -I.   -I"E:/biocbld/bbs-3.3-bioc/R/library/gdsfmt/include" -I"c:/local323/include"     -O2 -Wall  -mtune=core2 -c genIBD.cpp -o genIBD.o
C:/Rtools/mingw_64/bin/g++  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -DUSING_R -I.   -I"E:/biocbld/bbs-3.3-bioc/R/library/gdsfmt/include" -I"c:/local323/include"     -O2 -Wall  -mtune=core2 -c genIBS.cpp -o genIBS.o
C:/Rtools/mingw_64/bin/g++  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -DUSING_R -I.   -I"E:/biocbld/bbs-3.3-bioc/R/library/gdsfmt/include" -I"c:/local323/include"     -O2 -Wall  -mtune=core2 -c genKING.cpp -o genKING.o
C:/Rtools/mingw_64/bin/g++  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -DUSING_R -I.   -I"E:/biocbld/bbs-3.3-bioc/R/library/gdsfmt/include" -I"c:/local323/include"     -O2 -Wall  -mtune=core2 -c genLD.cpp -o genLD.o
C:/Rtools/mingw_64/bin/g++  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -DUSING_R -I.   -I"E:/biocbld/bbs-3.3-bioc/R/library/gdsfmt/include" -I"c:/local323/include"     -O2 -Wall  -mtune=core2 -c genPCA.cpp -o genPCA.o
C:/Rtools/mingw_64/bin/g++  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -DUSING_R -I.   -I"E:/biocbld/bbs-3.3-bioc/R/library/gdsfmt/include" -I"c:/local323/include"     -O2 -Wall  -mtune=core2 -c genRec.cpp -o genRec.o
C:/Rtools/mingw_64/bin/g++  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -DUSING_R -I.   -I"E:/biocbld/bbs-3.3-bioc/R/library/gdsfmt/include" -I"c:/local323/include"     -O2 -Wall  -mtune=core2 -c genSlideWin.cpp -o genSlideWin.o
C:/Rtools/mingw_64/bin/g++ -shared -s -static-libgcc -o SNPRelate.dll tmp.def ConvToGDS.o R_SNPRelate.o SNPRelate.o ThreadPool.o dGenGWAS.o dVect.o genFst.o genHWE.o genIBD.o genIBS.o genKING.o genLD.o genPCA.o genRec.o genSlideWin.o -lgfortran -lm -lquadmath -LE:/biocbld/BBS-3˜1.3-B/R/bin/x64 -lRblas -LE:/biocbld/BBS-3˜1.3-B/R/bin/x64 -lRlapack -Lc:/local323/lib/x64 -Lc:/local323/lib -LE:/biocbld/BBS-3˜1.3-B/R/bin/x64 -lR
installing to E:/biocbld/bbs-3.3-bioc/meat/SNPRelate.buildbin-libdir/SNPRelate/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'SNPRelate' as SNPRelate_1.6.6.zip
* DONE (SNPRelate)
* installing to library 'E:/biocbld/bbs-3.3-bioc/R/library'
package 'SNPRelate' successfully unpacked and MD5 sums checked