Xiuwen Zheng
| Snapshot Date: 2018-04-11 16:45:18 -0400 (Wed, 11 Apr 2018) |
| URL: https://git.bioconductor.org/packages/SNPRelate |
| Branch: RELEASE_3_6 |
| Last Commit: dce2e2b |
| Last Changed Date: 2017-12-16 01:52:15 -0400 (Sat, 16 Dec 2017) |
| Back to Multiple platform build/check report for BioC 3.6 |
|
This page was generated on 2018-04-12 13:24:52 -0400 (Thu, 12 Apr 2018).
| Package 1320/1472 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| SNPRelate 1.12.2 Xiuwen Zheng
| malbec1 | Linux (Ubuntu 16.04.1 LTS) / x86_64 | OK | OK | OK | | ||||||
| tokay1 | Windows Server 2012 R2 Standard / x64 | [ OK ] | OK | OK | OK | | ||||||
| veracruz1 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK | |
| Package: SNPRelate |
| Version: 1.12.2 |
| Command: rm -rf SNPRelate.buildbin-libdir && mkdir SNPRelate.buildbin-libdir && C:\cygwin\bin\curl.exe -O https://malbec1.bioconductor.org/BBS/3.6/bioc/src/contrib/SNPRelate_1.12.2.tar.gz && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD INSTALL --build --library=SNPRelate.buildbin-libdir --merge-multiarch SNPRelate_1.12.2.tar.gz && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD INSTALL SNPRelate_1.12.2.zip && rm SNPRelate_1.12.2.tar.gz SNPRelate_1.12.2.zip |
| StartedAt: 2018-04-11 18:17:53 -0400 (Wed, 11 Apr 2018) |
| EndedAt: 2018-04-11 18:21:59 -0400 (Wed, 11 Apr 2018) |
| EllapsedTime: 246.2 seconds |
| RetCode: 0 |
| Status: OK |
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### Running command:
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### rm -rf SNPRelate.buildbin-libdir && mkdir SNPRelate.buildbin-libdir && C:\cygwin\bin\curl.exe -O https://malbec1.bioconductor.org/BBS/3.6/bioc/src/contrib/SNPRelate_1.12.2.tar.gz && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD INSTALL --build --library=SNPRelate.buildbin-libdir --merge-multiarch SNPRelate_1.12.2.tar.gz && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD INSTALL SNPRelate_1.12.2.zip && rm SNPRelate_1.12.2.tar.gz SNPRelate_1.12.2.zip
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% Total % Received % Xferd Average Speed Time Time Time Current
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install for i386
* installing *source* package 'SNPRelate' ...
** libs
C:/Rtools/mingw_32/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.6-B/R/include" -DNDEBUG -DUSING_R -I. -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/gdsfmt/include" -I"C:/local323/include" -O2 -Wall -mtune=generic -c ConvToGDS.cpp -o ConvToGDS.o
C:/Rtools/mingw_32/bin/gcc -I"C:/Users/BIOCBU˜1/BBS-3˜1.6-B/R/include" -DNDEBUG -DUSING_R -I. -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/gdsfmt/include" -I"C:/local323/include" -O3 -Wall -std=gnu99 -mtune=generic -c R_SNPRelate.c -o R_SNPRelate.o
C:/Rtools/mingw_32/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.6-B/R/include" -DNDEBUG -DUSING_R -I. -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/gdsfmt/include" -I"C:/local323/include" -O2 -Wall -mtune=generic -c SNPRelate.cpp -o SNPRelate.o
C:/Rtools/mingw_32/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.6-B/R/include" -DNDEBUG -DUSING_R -I. -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/gdsfmt/include" -I"C:/local323/include" -O2 -Wall -mtune=generic -c ThreadPool.cpp -o ThreadPool.o
C:/Rtools/mingw_32/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.6-B/R/include" -DNDEBUG -DUSING_R -I. -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/gdsfmt/include" -I"C:/local323/include" -O2 -Wall -mtune=generic -c dGenGWAS.cpp -o dGenGWAS.o
C:/Rtools/mingw_32/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.6-B/R/include" -DNDEBUG -DUSING_R -I. -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/gdsfmt/include" -I"C:/local323/include" -O2 -Wall -mtune=generic -c dVect.cpp -o dVect.o
C:/Rtools/mingw_32/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.6-B/R/include" -DNDEBUG -DUSING_R -I. -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/gdsfmt/include" -I"C:/local323/include" -O2 -Wall -mtune=generic -c genBeta.cpp -o genBeta.o
C:/Rtools/mingw_32/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.6-B/R/include" -DNDEBUG -DUSING_R -I. -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/gdsfmt/include" -I"C:/local323/include" -O2 -Wall -mtune=generic -c genEIGMIX.cpp -o genEIGMIX.o
C:/Rtools/mingw_32/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.6-B/R/include" -DNDEBUG -DUSING_R -I. -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/gdsfmt/include" -I"C:/local323/include" -O2 -Wall -mtune=generic -c genFst.cpp -o genFst.o
C:/Rtools/mingw_32/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.6-B/R/include" -DNDEBUG -DUSING_R -I. -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/gdsfmt/include" -I"C:/local323/include" -O2 -Wall -mtune=generic -c genHWE.cpp -o genHWE.o
C:/Rtools/mingw_32/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.6-B/R/include" -DNDEBUG -DUSING_R -I. -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/gdsfmt/include" -I"C:/local323/include" -O2 -Wall -mtune=generic -c genIBD.cpp -o genIBD.o
C:/Rtools/mingw_32/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.6-B/R/include" -DNDEBUG -DUSING_R -I. -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/gdsfmt/include" -I"C:/local323/include" -O2 -Wall -mtune=generic -c genIBS.cpp -o genIBS.o
C:/Rtools/mingw_32/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.6-B/R/include" -DNDEBUG -DUSING_R -I. -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/gdsfmt/include" -I"C:/local323/include" -O2 -Wall -mtune=generic -c genKING.cpp -o genKING.o
C:/Rtools/mingw_32/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.6-B/R/include" -DNDEBUG -DUSING_R -I. -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/gdsfmt/include" -I"C:/local323/include" -O2 -Wall -mtune=generic -c genLD.cpp -o genLD.o
C:/Rtools/mingw_32/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.6-B/R/include" -DNDEBUG -DUSING_R -I. -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/gdsfmt/include" -I"C:/local323/include" -O2 -Wall -mtune=generic -c genPCA.cpp -o genPCA.o
C:/Rtools/mingw_32/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.6-B/R/include" -DNDEBUG -DUSING_R -I. -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/gdsfmt/include" -I"C:/local323/include" -O2 -Wall -mtune=generic -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 genBeta.o genEIGMIX.o genFst.o genHWE.o genIBD.o genIBS.o genKING.o genLD.o genPCA.o genSlideWin.o -lgfortran -lm -lquadmath -LC:/Users/BIOCBU˜1/BBS-3˜1.6-B/R/bin/i386 -lRblas -LC:/Users/BIOCBU˜1/BBS-3˜1.6-B/R/bin/i386 -lRlapack -LC:/local323/lib/i386 -LC:/local323/lib -LC:/Users/BIOCBU˜1/BBS-3˜1.6-B/R/bin/i386 -lR
installing to C:/Users/biocbuild/bbs-3.6-bioc/meat/SNPRelate.buildbin-libdir/SNPRelate/libs/i386
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
converting help for package 'SNPRelate'
finding HTML links ... done
SNPGDSFileClass-class html
SNPRelate-package html
hapmap_geno html
snpgdsAdmixPlot html
snpgdsAdmixProp html
snpgdsAlleleSwitch html
snpgdsApartSelection html
snpgdsBED2GDS html
finding level-2 HTML links ... done
snpgdsClose html
snpgdsCombineGeno html
snpgdsCreateGeno html
snpgdsCreateGenoSet html
snpgdsCutTree html
snpgdsDiss html
snpgdsDrawTree html
snpgdsEIGMIX html
snpgdsErrMsg html
snpgdsExampleFileName html
snpgdsFst html
snpgdsGDS2BED html
snpgdsGDS2Eigen html
snpgdsGDS2PED html
snpgdsGEN2GDS html
snpgdsGRM html
snpgdsGetGeno html
snpgdsHCluster html
snpgdsHWE html
snpgdsIBDKING html
snpgdsIBDMLE html
snpgdsIBDMLELogLik html
snpgdsIBDMoM html
snpgdsIBDSelection html
snpgdsIBS html
snpgdsIBSNum html
snpgdsIndInb html
snpgdsIndInbCoef html
snpgdsIndivBeta html
snpgdsLDMat html
snpgdsLDpair html
snpgdsLDpruning html
snpgdsMergeGRM html
snpgdsOpen html
snpgdsOption html
snpgdsPCA html
snpgdsPCACorr html
snpgdsPCASNPLoading html
snpgdsPCASampLoading html
snpgdsPED2GDS html
snpgdsPairIBD html
snpgdsPairIBDMLELogLik html
snpgdsPairScore html
snpgdsSNPList html
snpgdsSNPListClass html
snpgdsSNPListIntersect html
snpgdsSNPListStrand html
snpgdsSNPRateFreq html
snpgdsSampMissRate html
snpgdsSelectSNP html
snpgdsSlidingWindow html
snpgdsSummary html
snpgdsTranspose html
snpgdsVCF2GDS html
snpgdsVCF2GDS_R html
** building package indices
** installing vignettes
** testing if installed package can be loaded
In R CMD INSTALL
install for x64
* installing *source* package 'SNPRelate' ...
** libs
C:/Rtools/mingw_64/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.6-B/R/include" -DNDEBUG -DUSING_R -I. -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/gdsfmt/include" -I"C:/local323/include" -O2 -Wall -mtune=generic -c ConvToGDS.cpp -o ConvToGDS.o
C:/Rtools/mingw_64/bin/gcc -I"C:/Users/BIOCBU˜1/BBS-3˜1.6-B/R/include" -DNDEBUG -DUSING_R -I. -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/gdsfmt/include" -I"C:/local323/include" -O2 -Wall -std=gnu99 -mtune=generic -c R_SNPRelate.c -o R_SNPRelate.o
C:/Rtools/mingw_64/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.6-B/R/include" -DNDEBUG -DUSING_R -I. -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/gdsfmt/include" -I"C:/local323/include" -O2 -Wall -mtune=generic -c SNPRelate.cpp -o SNPRelate.o
C:/Rtools/mingw_64/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.6-B/R/include" -DNDEBUG -DUSING_R -I. -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/gdsfmt/include" -I"C:/local323/include" -O2 -Wall -mtune=generic -c ThreadPool.cpp -o ThreadPool.o
C:/Rtools/mingw_64/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.6-B/R/include" -DNDEBUG -DUSING_R -I. -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/gdsfmt/include" -I"C:/local323/include" -O2 -Wall -mtune=generic -c dGenGWAS.cpp -o dGenGWAS.o
C:/Rtools/mingw_64/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.6-B/R/include" -DNDEBUG -DUSING_R -I. -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/gdsfmt/include" -I"C:/local323/include" -O2 -Wall -mtune=generic -c dVect.cpp -o dVect.o
C:/Rtools/mingw_64/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.6-B/R/include" -DNDEBUG -DUSING_R -I. -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/gdsfmt/include" -I"C:/local323/include" -O2 -Wall -mtune=generic -c genBeta.cpp -o genBeta.o
C:/Rtools/mingw_64/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.6-B/R/include" -DNDEBUG -DUSING_R -I. -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/gdsfmt/include" -I"C:/local323/include" -O2 -Wall -mtune=generic -c genEIGMIX.cpp -o genEIGMIX.o
C:/Rtools/mingw_64/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.6-B/R/include" -DNDEBUG -DUSING_R -I. -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/gdsfmt/include" -I"C:/local323/include" -O2 -Wall -mtune=generic -c genFst.cpp -o genFst.o
C:/Rtools/mingw_64/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.6-B/R/include" -DNDEBUG -DUSING_R -I. -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/gdsfmt/include" -I"C:/local323/include" -O2 -Wall -mtune=generic -c genHWE.cpp -o genHWE.o
C:/Rtools/mingw_64/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.6-B/R/include" -DNDEBUG -DUSING_R -I. -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/gdsfmt/include" -I"C:/local323/include" -O2 -Wall -mtune=generic -c genIBD.cpp -o genIBD.o
C:/Rtools/mingw_64/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.6-B/R/include" -DNDEBUG -DUSING_R -I. -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/gdsfmt/include" -I"C:/local323/include" -O2 -Wall -mtune=generic -c genIBS.cpp -o genIBS.o
C:/Rtools/mingw_64/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.6-B/R/include" -DNDEBUG -DUSING_R -I. -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/gdsfmt/include" -I"C:/local323/include" -O2 -Wall -mtune=generic -c genKING.cpp -o genKING.o
C:/Rtools/mingw_64/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.6-B/R/include" -DNDEBUG -DUSING_R -I. -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/gdsfmt/include" -I"C:/local323/include" -O2 -Wall -mtune=generic -c genLD.cpp -o genLD.o
C:/Rtools/mingw_64/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.6-B/R/include" -DNDEBUG -DUSING_R -I. -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/gdsfmt/include" -I"C:/local323/include" -O2 -Wall -mtune=generic -c genPCA.cpp -o genPCA.o
C:/Rtools/mingw_64/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.6-B/R/include" -DNDEBUG -DUSING_R -I. -I"C:/Users/biocbuild/bbs-3.6-bioc/R/library/gdsfmt/include" -I"C:/local323/include" -O2 -Wall -mtune=generic -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 genBeta.o genEIGMIX.o genFst.o genHWE.o genIBD.o genIBS.o genKING.o genLD.o genPCA.o genSlideWin.o -lgfortran -lm -lquadmath -LC:/Users/BIOCBU˜1/BBS-3˜1.6-B/R/bin/x64 -lRblas -LC:/Users/BIOCBU˜1/BBS-3˜1.6-B/R/bin/x64 -lRlapack -LC:/local323/lib/x64 -LC:/local323/lib -LC:/Users/BIOCBU˜1/BBS-3˜1.6-B/R/bin/x64 -lR
installing to C:/Users/biocbuild/bbs-3.6-bioc/meat/SNPRelate.buildbin-libdir/SNPRelate/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'SNPRelate' as SNPRelate_1.12.2.zip
* DONE (SNPRelate)
In R CMD INSTALL
In R CMD INSTALL
* installing to library 'C:/Users/biocbuild/bbs-3.6-bioc/R/library'
package 'SNPRelate' successfully unpacked and MD5 sums checked
In R CMD INSTALL