Back to Multiple platform build/check report for BioC 3.14 |
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This page was generated on 2022-04-13 12:07:23 -0400 (Wed, 13 Apr 2022).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo2 | Linux (Ubuntu 20.04.4 LTS) | x86_64 | 4.1.3 (2022-03-10) -- "One Push-Up" | 4324 |
tokay2 | Windows Server 2012 R2 Standard | x64 | 4.1.3 (2022-03-10) -- "One Push-Up" | 4077 |
machv2 | macOS 10.14.6 Mojave | x86_64 | 4.1.3 (2022-03-10) -- "One Push-Up" | 4137 |
Click on any hostname to see more info about the system (e.g. compilers) (*) as reported by 'uname -p', except on Windows and Mac OS X |
To the developers/maintainers of the SNPRelate package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/SNPRelate.git to reflect on this report. See How and When does the builder pull? When will my changes propagate? for more information. - Make sure to use the following settings in order to reproduce any error or warning you see on this page. |
Package 1831/2083 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
SNPRelate 1.28.0 (landing page) Xiuwen Zheng
| nebbiolo2 | Linux (Ubuntu 20.04.4 LTS) / x86_64 | OK | OK | OK | |||||||||
tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | OK | OK | |||||||||
machv2 | macOS 10.14.6 Mojave / x86_64 | OK | OK | OK | OK | |||||||||
Package: SNPRelate |
Version: 1.28.0 |
Command: rm -rf SNPRelate.buildbin-libdir && mkdir SNPRelate.buildbin-libdir && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=SNPRelate.buildbin-libdir SNPRelate_1.28.0.tar.gz |
StartedAt: 2022-04-13 07:10:26 -0400 (Wed, 13 Apr 2022) |
EndedAt: 2022-04-13 07:12:12 -0400 (Wed, 13 Apr 2022) |
EllapsedTime: 105.6 seconds |
RetCode: 0 |
Status: OK |
PackageFile: SNPRelate_1.28.0.zip |
PackageFileSize: 3.135 MiB |
############################################################################## ############################################################################## ### ### Running command: ### ### rm -rf SNPRelate.buildbin-libdir && mkdir SNPRelate.buildbin-libdir && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=SNPRelate.buildbin-libdir SNPRelate_1.28.0.tar.gz ### ############################################################################## ############################################################################## install for i386 * installing *source* package 'SNPRelate' ... ** using staged installation ** libs "C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG -DUSING_R -I. -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/gdsfmt/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c ConvToGDS.cpp -o ConvToGDS.o "C:/rtools40/mingw32/bin/"gcc -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG -DUSING_R -I. -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/gdsfmt/include' -I"C:/extsoft/include" -O2 -Wall -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c R_SNPRelate.c -o R_SNPRelate.o "C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG -DUSING_R -I. -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/gdsfmt/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c SNPRelate.cpp -o SNPRelate.o "C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG -DUSING_R -I. -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/gdsfmt/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c ThreadPool.cpp -o ThreadPool.o "C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG -DUSING_R -I. -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/gdsfmt/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c dGenGWAS.cpp -o dGenGWAS.o "C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG -DUSING_R -I. -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/gdsfmt/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c dVect.cpp -o dVect.o "C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG -DUSING_R -I. -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/gdsfmt/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c genBeta.cpp -o genBeta.o "C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG -DUSING_R -I. -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/gdsfmt/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c genEIGMIX.cpp -o genEIGMIX.o "C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG -DUSING_R -I. -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/gdsfmt/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c genFst.cpp -o genFst.o "C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG -DUSING_R -I. -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/gdsfmt/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c genHWE.cpp -o genHWE.o "C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG -DUSING_R -I. -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/gdsfmt/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c genIBD.cpp -o genIBD.o "C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG -DUSING_R -I. -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/gdsfmt/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c genIBS.cpp -o genIBS.o "C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG -DUSING_R -I. -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/gdsfmt/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c genKING.cpp -o genKING.o "C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG -DUSING_R -I. -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/gdsfmt/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c genLD.cpp -o genLD.o "C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG -DUSING_R -I. -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/gdsfmt/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c genPCA.cpp -o genPCA.o "C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG -DUSING_R -I. -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/gdsfmt/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c genSlideWin.cpp -o genSlideWin.o C:/rtools40/mingw32/bin/g++ -std=gnu++11 -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-3~1.14-/R/bin/i386 -lRlapack -LC:/Users/BIOCBU~1/BBS-3~1.14-/R/bin/i386 -lRblas -lgfortran -lm -lquadmath -LC:/extsoft/lib/i386 -LC:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.14-/R/bin/i386 -lR installing to C:/Users/biocbuild/bbs-3.14-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:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG -DUSING_R -I. -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/gdsfmt/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c ConvToGDS.cpp -o ConvToGDS.o "C:/rtools40/mingw64/bin/"gcc -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG -DUSING_R -I. -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/gdsfmt/include' -I"C:/extsoft/include" -O2 -Wall -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c R_SNPRelate.c -o R_SNPRelate.o "C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG -DUSING_R -I. -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/gdsfmt/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c SNPRelate.cpp -o SNPRelate.o "C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG -DUSING_R -I. -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/gdsfmt/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c ThreadPool.cpp -o ThreadPool.o "C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG -DUSING_R -I. -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/gdsfmt/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c dGenGWAS.cpp -o dGenGWAS.o "C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG -DUSING_R -I. -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/gdsfmt/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c dVect.cpp -o dVect.o "C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG -DUSING_R -I. -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/gdsfmt/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c genBeta.cpp -o genBeta.o "C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG -DUSING_R -I. -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/gdsfmt/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c genEIGMIX.cpp -o genEIGMIX.o "C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG -DUSING_R -I. -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/gdsfmt/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c genFst.cpp -o genFst.o "C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG -DUSING_R -I. -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/gdsfmt/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c genHWE.cpp -o genHWE.o "C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG -DUSING_R -I. -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/gdsfmt/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c genIBD.cpp -o genIBD.o "C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG -DUSING_R -I. -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/gdsfmt/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c genIBS.cpp -o genIBS.o "C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG -DUSING_R -I. -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/gdsfmt/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c genKING.cpp -o genKING.o "C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG -DUSING_R -I. -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/gdsfmt/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c genLD.cpp -o genLD.o "C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG -DUSING_R -I. -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/gdsfmt/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c genPCA.cpp -o genPCA.o "C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG -DUSING_R -I. -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/gdsfmt/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c genSlideWin.cpp -o genSlideWin.o C:/rtools40/mingw64/bin/g++ -std=gnu++11 -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-3~1.14-/R/bin/x64 -lRlapack -LC:/Users/BIOCBU~1/BBS-3~1.14-/R/bin/x64 -lRblas -lgfortran -lm -lquadmath -LC:/extsoft/lib/x64 -LC:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.14-/R/bin/x64 -lR installing to C:/Users/biocbuild/bbs-3.14-bioc/meat/SNPRelate.buildbin-libdir/SNPRelate/libs/x64 ** testing if installed package can be loaded * MD5 sums packaged installation of 'SNPRelate' as SNPRelate_1.28.0.zip * DONE (SNPRelate)