Back to Multiple platform build/check report for BioC 3.7
ABCDEFGH[I]JKLMNOPQRSTUVWXYZ

INSTALL report for IsoformSwitchAnalyzeR on tokay2

This page was generated on 2018-10-17 08:44:04 -0400 (Wed, 17 Oct 2018).

Package 755/1561HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
IsoformSwitchAnalyzeR 1.2.0
Kristoffer Vitting-Seerup
Snapshot Date: 2018-10-15 16:45:08 -0400 (Mon, 15 Oct 2018)
URL: https://git.bioconductor.org/packages/IsoformSwitchAnalyzeR
Branch: RELEASE_3_7
Last Commit: 78f93d0
Last Changed Date: 2018-04-30 10:35:47 -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  WARNINGS  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: IsoformSwitchAnalyzeR
Version: 1.2.0
Command: C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.7/bioc/src/contrib/IsoformSwitchAnalyzeR_1.2.0.tar.gz && rm -rf IsoformSwitchAnalyzeR.buildbin-libdir && mkdir IsoformSwitchAnalyzeR.buildbin-libdir && C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=IsoformSwitchAnalyzeR.buildbin-libdir IsoformSwitchAnalyzeR_1.2.0.tar.gz && C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD INSTALL IsoformSwitchAnalyzeR_1.2.0.zip && rm IsoformSwitchAnalyzeR_1.2.0.tar.gz IsoformSwitchAnalyzeR_1.2.0.zip
StartedAt: 2018-10-16 20:38:45 -0400 (Tue, 16 Oct 2018)
EndedAt: 2018-10-16 20:40:31 -0400 (Tue, 16 Oct 2018)
EllapsedTime: 105.9 seconds
RetCode: 0
Status:  OK  

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.7/bioc/src/contrib/IsoformSwitchAnalyzeR_1.2.0.tar.gz && rm -rf IsoformSwitchAnalyzeR.buildbin-libdir && mkdir IsoformSwitchAnalyzeR.buildbin-libdir && C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=IsoformSwitchAnalyzeR.buildbin-libdir IsoformSwitchAnalyzeR_1.2.0.tar.gz && C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD INSTALL IsoformSwitchAnalyzeR_1.2.0.zip && rm IsoformSwitchAnalyzeR_1.2.0.tar.gz IsoformSwitchAnalyzeR_1.2.0.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
100 1032k  100 1032k    0     0  13.5M      0 --:--:-- --:--:-- --:--:-- 14.8M

install for i386

* installing *source* package 'IsoformSwitchAnalyzeR' ...
** libs
C:/Rtools/mingw_32/bin/gcc  -I"C:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O3 -Wall  -std=gnu99 -mtune=generic -c utils.c -o utils.o
C:/Rtools/mingw_32/bin/gcc -shared -s -static-libgcc -o IsoformSwitchAnalyzeR.dll tmp.def utils.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/IsoformSwitchAnalyzeR.buildbin-libdir/IsoformSwitchAnalyzeR/libs/i386
** R
** data
** inst
** byte-compile and prepare package for lazy loading
Warning: replacing previous import 'plyr::desc' by 'IRanges::desc' when loading 'IsoformSwitchAnalyzeR'
Warning: replacing previous import 'GenomicRanges::promoters' by 'cummeRbund::promoters' when loading 'IsoformSwitchAnalyzeR'
Warning: replacing previous import 'plyr::count' by 'cummeRbund::count' when loading 'IsoformSwitchAnalyzeR'
Warning: replacing previous import 'cummeRbund::samples' by 'DRIMSeq::samples' when loading 'IsoformSwitchAnalyzeR'
** help
*** installing help indices
  converting help for package 'IsoformSwitchAnalyzeR'
    finding HTML links ... done
    CDSSet                                  html  
    IsoformSwitchTestDRIMSeq                html  
    finding level-2 HTML links ... done

    analyzeAlternativSplicing               html  
    analyzeCPAT                             html  
    analyzeORF                              html  
    analyzePFAM                             html  
    analyzeSignalP                          html  
    analyzeSwitchConsequences               html  
    expressionAnalysisPlots                 html  
    extractCallibarionStatus                html  
    extractConsequenceEnrichment            html  
    extractConsequenceEnrichmentComparison
                                            html  
    extractConsequenceSummary               html  
    extractExpressionMatrix                 html  
    extractGenomeWideAnalysis               html  
    extractGenomeWideSplicingAnalysis       html  
    extractSequence                         html  
    extractSplicingEnrichment               html  
    extractSplicingEnrichmentComparison     html  
    extractSplicingSummary                  html  
    extractSwitchOverlap                    html  
    extractSwitchSummary                    html  
    extractTopSwitches                      html  
    getCDS                                  html  
    importCufflinksData                     html  
    importCufflinksGalaxyData               html  
    importGTF                               html  
    importIsoformExpression                 html  
    importRdata                             html  
    isoformSwitchAnalysisCombined           html  
    isoformSwitchAnalysisPart1              html  
    isoformSwitchAnalysisPart2              html  
    isoformSwitchTest                       html  
    isoformToGeneExp                        html  
    preFilter                               html  
    prepareCuffExample                      html  
    subsetSwitchAnalyzeRlist                html  
    switchAnalyzeRlist                      html  
    switchPlot                              html  
    switchPlotTopSwitches                   html  
    switchPlotTranscript                    html  
    testData                                html  
** building package indices
** installing vignettes
** testing if installed package can be loaded
Warning: replacing previous import 'plyr::desc' by 'IRanges::desc' when loading 'IsoformSwitchAnalyzeR'
Warning: replacing previous import 'GenomicRanges::promoters' by 'cummeRbund::promoters' when loading 'IsoformSwitchAnalyzeR'
Warning: replacing previous import 'plyr::count' by 'cummeRbund::count' when loading 'IsoformSwitchAnalyzeR'
Warning: replacing previous import 'cummeRbund::samples' by 'DRIMSeq::samples' when loading 'IsoformSwitchAnalyzeR'
In R CMD INSTALL

install for x64

* installing *source* package 'IsoformSwitchAnalyzeR' ...
** libs
C:/Rtools/mingw_64/bin/gcc  -I"C:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mtune=generic -c utils.c -o utils.o
C:/Rtools/mingw_64/bin/gcc -shared -s -static-libgcc -o IsoformSwitchAnalyzeR.dll tmp.def utils.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/IsoformSwitchAnalyzeR.buildbin-libdir/IsoformSwitchAnalyzeR/libs/x64
** testing if installed package can be loaded
Warning: replacing previous import 'plyr::desc' by 'IRanges::desc' when loading 'IsoformSwitchAnalyzeR'
Warning: replacing previous import 'plyr::count' by 'cummeRbund::count' when loading 'IsoformSwitchAnalyzeR'
Warning: replacing previous import 'GenomicRanges::promoters' by 'cummeRbund::promoters' when loading 'IsoformSwitchAnalyzeR'
Warning: replacing previous import 'cummeRbund::samples' by 'DRIMSeq::samples' when loading 'IsoformSwitchAnalyzeR'
* MD5 sums
packaged installation of 'IsoformSwitchAnalyzeR' as IsoformSwitchAnalyzeR_1.2.0.zip
* DONE (IsoformSwitchAnalyzeR)
In R CMD INSTALL
In R CMD INSTALL
* installing to library 'C:/Users/biocbuild/bbs-3.7-bioc/R/library'
package 'IsoformSwitchAnalyzeR' successfully unpacked and MD5 sums checked
In R CMD INSTALL