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) |
| Back to Multiple platform build/check report for BioC 3.9 |
|
This page was generated on 2019-10-16 12:31:00 -0400 (Wed, 16 Oct 2019).
| Package 1552/1741 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| SNPRelate 1.18.1 Xiuwen Zheng
| malbec2 | Linux (Ubuntu 18.04.2 LTS) / x86_64 | OK | OK | OK | | ||||||
| tokay2 | Windows Server 2012 R2 Standard / x64 | [ OK ] | OK | OK | OK | | ||||||
| celaya2 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK | |
| Package: SNPRelate |
| Version: 1.18.1 |
| Command: C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.9/bioc/src/contrib/SNPRelate_1.18.1.tar.gz && rm -rf SNPRelate.buildbin-libdir && mkdir SNPRelate.buildbin-libdir && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=SNPRelate.buildbin-libdir SNPRelate_1.18.1.tar.gz && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL SNPRelate_1.18.1.zip && rm SNPRelate_1.18.1.tar.gz SNPRelate_1.18.1.zip |
| StartedAt: 2019-10-15 18:49:05 -0400 (Tue, 15 Oct 2019) |
| EndedAt: 2019-10-15 18:51:39 -0400 (Tue, 15 Oct 2019) |
| EllapsedTime: 153.8 seconds |
| RetCode: 0 |
| Status: OK |
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### Running command:
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### C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.9/bioc/src/contrib/SNPRelate_1.18.1.tar.gz && rm -rf SNPRelate.buildbin-libdir && mkdir SNPRelate.buildbin-libdir && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=SNPRelate.buildbin-libdir SNPRelate_1.18.1.tar.gz && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL SNPRelate_1.18.1.zip && rm SNPRelate_1.18.1.tar.gz SNPRelate_1.18.1.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' ...
** using staged installation
** libs
C:/Rtools/mingw_32/bin/g++ -I"C:/Users/BIOCBU~1/BBS-3~1.9-B/R/include" -DNDEBUG -DUSING_R -I. -I"C:/Users/biocbuild/bbs-3.9-bioc/R/library/gdsfmt/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c ConvToGDS.cpp -o ConvToGDS.o
C:/Rtools/mingw_32/bin/gcc -I"C:/Users/BIOCBU~1/BBS-3~1.9-B/R/include" -DNDEBUG -DUSING_R -I. -I"C:/Users/biocbuild/bbs-3.9-bioc/R/library/gdsfmt/include" -I"C:/extsoft/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-3~1.9-B/R/include" -DNDEBUG -DUSING_R -I. -I"C:/Users/biocbuild/bbs-3.9-bioc/R/library/gdsfmt/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c SNPRelate.cpp -o SNPRelate.o
C:/Rtools/mingw_32/bin/g++ -I"C:/Users/BIOCBU~1/BBS-3~1.9-B/R/include" -DNDEBUG -DUSING_R -I. -I"C:/Users/biocbuild/bbs-3.9-bioc/R/library/gdsfmt/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c ThreadPool.cpp -o ThreadPool.o
C:/Rtools/mingw_32/bin/g++ -I"C:/Users/BIOCBU~1/BBS-3~1.9-B/R/include" -DNDEBUG -DUSING_R -I. -I"C:/Users/biocbuild/bbs-3.9-bioc/R/library/gdsfmt/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c dGenGWAS.cpp -o dGenGWAS.o
C:/Rtools/mingw_32/bin/g++ -I"C:/Users/BIOCBU~1/BBS-3~1.9-B/R/include" -DNDEBUG -DUSING_R -I. -I"C:/Users/biocbuild/bbs-3.9-bioc/R/library/gdsfmt/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c dVect.cpp -o dVect.o
C:/Rtools/mingw_32/bin/g++ -I"C:/Users/BIOCBU~1/BBS-3~1.9-B/R/include" -DNDEBUG -DUSING_R -I. -I"C:/Users/biocbuild/bbs-3.9-bioc/R/library/gdsfmt/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c genBeta.cpp -o genBeta.o
C:/Rtools/mingw_32/bin/g++ -I"C:/Users/BIOCBU~1/BBS-3~1.9-B/R/include" -DNDEBUG -DUSING_R -I. -I"C:/Users/biocbuild/bbs-3.9-bioc/R/library/gdsfmt/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c genEIGMIX.cpp -o genEIGMIX.o
C:/Rtools/mingw_32/bin/g++ -I"C:/Users/BIOCBU~1/BBS-3~1.9-B/R/include" -DNDEBUG -DUSING_R -I. -I"C:/Users/biocbuild/bbs-3.9-bioc/R/library/gdsfmt/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c genFst.cpp -o genFst.o
C:/Rtools/mingw_32/bin/g++ -I"C:/Users/BIOCBU~1/BBS-3~1.9-B/R/include" -DNDEBUG -DUSING_R -I. -I"C:/Users/biocbuild/bbs-3.9-bioc/R/library/gdsfmt/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c genHWE.cpp -o genHWE.o
C:/Rtools/mingw_32/bin/g++ -I"C:/Users/BIOCBU~1/BBS-3~1.9-B/R/include" -DNDEBUG -DUSING_R -I. -I"C:/Users/biocbuild/bbs-3.9-bioc/R/library/gdsfmt/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c genIBD.cpp -o genIBD.o
C:/Rtools/mingw_32/bin/g++ -I"C:/Users/BIOCBU~1/BBS-3~1.9-B/R/include" -DNDEBUG -DUSING_R -I. -I"C:/Users/biocbuild/bbs-3.9-bioc/R/library/gdsfmt/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c genIBS.cpp -o genIBS.o
C:/Rtools/mingw_32/bin/g++ -I"C:/Users/BIOCBU~1/BBS-3~1.9-B/R/include" -DNDEBUG -DUSING_R -I. -I"C:/Users/biocbuild/bbs-3.9-bioc/R/library/gdsfmt/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c genKING.cpp -o genKING.o
C:/Rtools/mingw_32/bin/g++ -I"C:/Users/BIOCBU~1/BBS-3~1.9-B/R/include" -DNDEBUG -DUSING_R -I. -I"C:/Users/biocbuild/bbs-3.9-bioc/R/library/gdsfmt/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c genLD.cpp -o genLD.o
C:/Rtools/mingw_32/bin/g++ -I"C:/Users/BIOCBU~1/BBS-3~1.9-B/R/include" -DNDEBUG -DUSING_R -I. -I"C:/Users/biocbuild/bbs-3.9-bioc/R/library/gdsfmt/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c genPCA.cpp -o genPCA.o
C:/Rtools/mingw_32/bin/g++ -I"C:/Users/BIOCBU~1/BBS-3~1.9-B/R/include" -DNDEBUG -DUSING_R -I. -I"C:/Users/biocbuild/bbs-3.9-bioc/R/library/gdsfmt/include" -I"C:/extsoft/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 -LC:/Users/BIOCBU~1/BBS-3~1.9-B/R/bin/i386 -lRlapack -LC:/Users/BIOCBU~1/BBS-3~1.9-B/R/bin/i386 -lRblas -lgfortran -lm -lquadmath -LC:/extsoft/lib/i386 -LC:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.9-B/R/bin/i386 -lR
installing to C:/Users/biocbuild/bbs-3.9-bioc/meat/SNPRelate.buildbin-libdir/00LOCK-SNPRelate/00new/SNPRelate/libs/i386
** R
** data
** inst
** byte-compile and prepare 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
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 from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
install for x64
* installing *source* package 'SNPRelate' ...
** libs
C:/Rtools/mingw_64/bin/g++ -I"C:/Users/BIOCBU~1/BBS-3~1.9-B/R/include" -DNDEBUG -DUSING_R -I. -I"C:/Users/biocbuild/bbs-3.9-bioc/R/library/gdsfmt/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c ConvToGDS.cpp -o ConvToGDS.o
C:/Rtools/mingw_64/bin/gcc -I"C:/Users/BIOCBU~1/BBS-3~1.9-B/R/include" -DNDEBUG -DUSING_R -I. -I"C:/Users/biocbuild/bbs-3.9-bioc/R/library/gdsfmt/include" -I"C:/extsoft/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-3~1.9-B/R/include" -DNDEBUG -DUSING_R -I. -I"C:/Users/biocbuild/bbs-3.9-bioc/R/library/gdsfmt/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c SNPRelate.cpp -o SNPRelate.o
C:/Rtools/mingw_64/bin/g++ -I"C:/Users/BIOCBU~1/BBS-3~1.9-B/R/include" -DNDEBUG -DUSING_R -I. -I"C:/Users/biocbuild/bbs-3.9-bioc/R/library/gdsfmt/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c ThreadPool.cpp -o ThreadPool.o
C:/Rtools/mingw_64/bin/g++ -I"C:/Users/BIOCBU~1/BBS-3~1.9-B/R/include" -DNDEBUG -DUSING_R -I. -I"C:/Users/biocbuild/bbs-3.9-bioc/R/library/gdsfmt/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c dGenGWAS.cpp -o dGenGWAS.o
C:/Rtools/mingw_64/bin/g++ -I"C:/Users/BIOCBU~1/BBS-3~1.9-B/R/include" -DNDEBUG -DUSING_R -I. -I"C:/Users/biocbuild/bbs-3.9-bioc/R/library/gdsfmt/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c dVect.cpp -o dVect.o
C:/Rtools/mingw_64/bin/g++ -I"C:/Users/BIOCBU~1/BBS-3~1.9-B/R/include" -DNDEBUG -DUSING_R -I. -I"C:/Users/biocbuild/bbs-3.9-bioc/R/library/gdsfmt/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c genBeta.cpp -o genBeta.o
C:/Rtools/mingw_64/bin/g++ -I"C:/Users/BIOCBU~1/BBS-3~1.9-B/R/include" -DNDEBUG -DUSING_R -I. -I"C:/Users/biocbuild/bbs-3.9-bioc/R/library/gdsfmt/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c genEIGMIX.cpp -o genEIGMIX.o
C:/Rtools/mingw_64/bin/g++ -I"C:/Users/BIOCBU~1/BBS-3~1.9-B/R/include" -DNDEBUG -DUSING_R -I. -I"C:/Users/biocbuild/bbs-3.9-bioc/R/library/gdsfmt/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c genFst.cpp -o genFst.o
C:/Rtools/mingw_64/bin/g++ -I"C:/Users/BIOCBU~1/BBS-3~1.9-B/R/include" -DNDEBUG -DUSING_R -I. -I"C:/Users/biocbuild/bbs-3.9-bioc/R/library/gdsfmt/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c genHWE.cpp -o genHWE.o
C:/Rtools/mingw_64/bin/g++ -I"C:/Users/BIOCBU~1/BBS-3~1.9-B/R/include" -DNDEBUG -DUSING_R -I. -I"C:/Users/biocbuild/bbs-3.9-bioc/R/library/gdsfmt/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c genIBD.cpp -o genIBD.o
C:/Rtools/mingw_64/bin/g++ -I"C:/Users/BIOCBU~1/BBS-3~1.9-B/R/include" -DNDEBUG -DUSING_R -I. -I"C:/Users/biocbuild/bbs-3.9-bioc/R/library/gdsfmt/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c genIBS.cpp -o genIBS.o
C:/Rtools/mingw_64/bin/g++ -I"C:/Users/BIOCBU~1/BBS-3~1.9-B/R/include" -DNDEBUG -DUSING_R -I. -I"C:/Users/biocbuild/bbs-3.9-bioc/R/library/gdsfmt/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c genKING.cpp -o genKING.o
C:/Rtools/mingw_64/bin/g++ -I"C:/Users/BIOCBU~1/BBS-3~1.9-B/R/include" -DNDEBUG -DUSING_R -I. -I"C:/Users/biocbuild/bbs-3.9-bioc/R/library/gdsfmt/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c genLD.cpp -o genLD.o
C:/Rtools/mingw_64/bin/g++ -I"C:/Users/BIOCBU~1/BBS-3~1.9-B/R/include" -DNDEBUG -DUSING_R -I. -I"C:/Users/biocbuild/bbs-3.9-bioc/R/library/gdsfmt/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c genPCA.cpp -o genPCA.o
C:/Rtools/mingw_64/bin/g++ -I"C:/Users/BIOCBU~1/BBS-3~1.9-B/R/include" -DNDEBUG -DUSING_R -I. -I"C:/Users/biocbuild/bbs-3.9-bioc/R/library/gdsfmt/include" -I"C:/extsoft/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 -LC:/Users/BIOCBU~1/BBS-3~1.9-B/R/bin/x64 -lRlapack -LC:/Users/BIOCBU~1/BBS-3~1.9-B/R/bin/x64 -lRblas -lgfortran -lm -lquadmath -LC:/extsoft/lib/x64 -LC:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.9-B/R/bin/x64 -lR
installing to C:/Users/biocbuild/bbs-3.9-bioc/meat/SNPRelate.buildbin-libdir/SNPRelate/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'SNPRelate' as SNPRelate_1.18.1.zip
* DONE (SNPRelate)
* installing to library 'C:/Users/biocbuild/bbs-3.9-bioc/R/library'
package 'SNPRelate' successfully unpacked and MD5 sums checked