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INSTALL report for chimera on tokay2

This page was generated on 2018-10-17 08:36:58 -0400 (Wed, 17 Oct 2018).

Package 225/1561HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
chimera 1.22.0
Raffaele A Calogero
Snapshot Date: 2018-10-15 16:45:08 -0400 (Mon, 15 Oct 2018)
URL: https://git.bioconductor.org/packages/chimera
Branch: RELEASE_3_7
Last Commit: a334c3d
Last Changed Date: 2018-04-30 10:35:29 -0400 (Mon, 30 Apr 2018)
malbec2 Linux (Ubuntu 16.04.1 LTS) / x86_64  OK  OK  OK UNNEEDED, same version exists in internal repository
tokay2 Windows Server 2012 R2 Standard / x64 [ OK ] OK  OK  OK UNNEEDED, same version exists in internal repository
merida2 OS X 10.11.6 El Capitan / x86_64  OK  OK  OK  OK UNNEEDED, same version exists in internal repository

Summary

Package: chimera
Version: 1.22.0
Command: C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.7/bioc/src/contrib/chimera_1.22.0.tar.gz && rm -rf chimera.buildbin-libdir && mkdir chimera.buildbin-libdir && C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=chimera.buildbin-libdir chimera_1.22.0.tar.gz && C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD INSTALL chimera_1.22.0.zip && rm chimera_1.22.0.tar.gz chimera_1.22.0.zip
StartedAt: 2018-10-16 20:02:30 -0400 (Tue, 16 Oct 2018)
EndedAt: 2018-10-16 20:03:50 -0400 (Tue, 16 Oct 2018)
EllapsedTime: 79.6 seconds
RetCode: 0
Status:  OK  

Command output

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###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.7/bioc/src/contrib/chimera_1.22.0.tar.gz && rm -rf chimera.buildbin-libdir && mkdir chimera.buildbin-libdir && C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=chimera.buildbin-libdir chimera_1.22.0.tar.gz && C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD INSTALL chimera_1.22.0.zip && rm chimera_1.22.0.tar.gz chimera_1.22.0.zip
###
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install for i386

* installing *source* package 'chimera' ...
** libs
C:/Rtools/mingw_32/bin/g++  -I"C:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -mtune=generic -c StarParser.cpp -o StarParser.o
C:/Rtools/mingw_32/bin/g++ -shared -s -static-libgcc -o chimera.dll tmp.def StarParser.o -LC:/extsoft/lib/i386 -LC:/extsoft/lib -LC:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/bin/i386 -lR
installing to C:/Users/biocbuild/bbs-3.7-bioc/meat/chimera.buildbin-libdir/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
In R CMD INSTALL

install for x64

* installing *source* package 'chimera' ...
** libs
C:/Rtools/mingw_64/bin/g++  -I"C:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -mtune=generic -c StarParser.cpp -o StarParser.o
C:/Rtools/mingw_64/bin/g++ -shared -s -static-libgcc -o chimera.dll tmp.def StarParser.o -LC:/extsoft/lib/x64 -LC:/extsoft/lib -LC:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/bin/x64 -lR
installing to C:/Users/biocbuild/bbs-3.7-bioc/meat/chimera.buildbin-libdir/chimera/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'chimera' as chimera_1.22.0.zip
* DONE (chimera)
In R CMD INSTALL
In R CMD INSTALL
* installing to library 'C:/Users/biocbuild/bbs-3.7-bioc/R/library'
package 'chimera' successfully unpacked and MD5 sums checked
In R CMD INSTALL