Back to Multiple platform build/check report for BioC 3.12 |
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This page was generated on 2021-05-06 12:30:12 -0400 (Thu, 06 May 2021).
To the developers/maintainers of the chimera package: Please make sure to use the following settings in order to reproduce any error or warning you see on this page. |
Package 280/1974 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
Raffaele A Calogero
| malbec1 | Linux (Ubuntu 18.04.5 LTS) / x86_64 | OK | OK | WARNINGS | |||||||||
tokay1 | Windows Server 2012 R2 Standard / x64 | OK | ERROR | skipped | skipped | |||||||||
merida1 | macOS 10.14.6 Mojave / x86_64 | OK | OK | WARNINGS | OK | |||||||||
Package: chimera |
Version: 1.32.0 |
Command: C:\cygwin\bin\curl.exe -O http://172.29.0.3/BBS/3.12/bioc/src/contrib/chimera_1.32.0.tar.gz && rm -rf chimera.buildbin-libdir && mkdir chimera.buildbin-libdir && C:\Users\biocbuild\bbs-3.12-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=chimera.buildbin-libdir chimera_1.32.0.tar.gz && C:\Users\biocbuild\bbs-3.12-bioc\R\bin\R.exe CMD INSTALL chimera_1.32.0.zip && rm chimera_1.32.0.tar.gz chimera_1.32.0.zip |
StartedAt: 2021-05-05 18:22:32 -0400 (Wed, 05 May 2021) |
EndedAt: 2021-05-05 18:24:19 -0400 (Wed, 05 May 2021) |
EllapsedTime: 107.5 seconds |
RetCode: 0 |
Status: OK |
############################################################################## ############################################################################## ### ### Running command: ### ### C:\cygwin\bin\curl.exe -O http://172.29.0.3/BBS/3.12/bioc/src/contrib/chimera_1.32.0.tar.gz && rm -rf chimera.buildbin-libdir && mkdir chimera.buildbin-libdir && C:\Users\biocbuild\bbs-3.12-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=chimera.buildbin-libdir chimera_1.32.0.tar.gz && C:\Users\biocbuild\bbs-3.12-bioc\R\bin\R.exe CMD INSTALL chimera_1.32.0.zip && rm chimera_1.32.0.tar.gz chimera_1.32.0.zip ### ############################################################################## ############################################################################## % Total % Received % Xferd Average Speed Time Time Time Current Dload Upload Total Spent Left Speed 0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0 0 2016k 0 14355 0 0 35701 0 0:00:57 --:--:-- 0:00:57 35708 100 2016k 100 2016k 0 0 4227k 0 --:--:-- --:--:-- --:--:-- 4227k install for i386 * installing *source* package 'chimera' ... ** using staged installation ** libs "C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c StarParser.cpp -o StarParser.o C:/rtools40/mingw32/bin/g++ -std=gnu++11 -shared -s -static-libgcc -o chimera.dll tmp.def StarParser.o -LC:/extsoft/lib/i386 -LC:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.12-/R/bin/i386 -lR installing to C:/Users/biocbuild/bbs-3.12-bioc/meat/chimera.buildbin-libdir/00LOCK-chimera/00new/chimera/libs/i386 ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices converting help for package 'chimera' finding HTML links ... done MHmakeRandomString html bam2fastq html breakpointOverlaps html chimera-package html chimeraSeqSet html chimeraSeqs html class.fSet html defuseTPTN html filterList html filterSamReads html fusionName html fusionPeptides html gapfillerInstallation html gapfillerRun html gapfillerWrap html importFusionData html is.fSet html newfSet html oncofuseInstallation html oncofuseRun html picardInstallation html plotCoverage html prettyPrint html removingErrorLine html starInstallation html starReads html starRun html subreadRun html supportingReads html tophatInstallation html tophatRun html validateSamFile html ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location Warning: Package 'chimera' is deprecated and will be removed from Bioconductor version 3.13 ** testing if installed package can be loaded from final location Warning: Package 'chimera' is deprecated and will be removed from Bioconductor version 3.13 ** testing if installed package keeps a record of temporary installation path install for x64 * installing *source* package 'chimera' ... ** libs "C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c StarParser.cpp -o StarParser.o C:/rtools40/mingw64/bin/g++ -std=gnu++11 -shared -s -static-libgcc -o chimera.dll tmp.def StarParser.o -LC:/extsoft/lib/x64 -LC:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.12-/R/bin/x64 -lR installing to C:/Users/biocbuild/bbs-3.12-bioc/meat/chimera.buildbin-libdir/chimera/libs/x64 ** testing if installed package can be loaded Warning: Package 'chimera' is deprecated and will be removed from Bioconductor version 3.13 * MD5 sums packaged installation of 'chimera' as chimera_1.32.0.zip * DONE (chimera) * installing to library 'C:/Users/biocbuild/bbs-3.12-bioc/R/library' package 'chimera' successfully unpacked and MD5 sums checked