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INSTALL report for chromstaR on tokay2

This page was generated on 2019-10-16 12:36:07 -0400 (Wed, 16 Oct 2019).

Package 273/1741HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
chromstaR 1.10.0
Aaron Taudt
Snapshot Date: 2019-10-15 17:01:26 -0400 (Tue, 15 Oct 2019)
URL: https://git.bioconductor.org/packages/chromstaR
Branch: RELEASE_3_9
Last Commit: 78fa695
Last Changed Date: 2019-05-02 11:54:02 -0400 (Thu, 02 May 2019)
malbec2 Linux (Ubuntu 18.04.2 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
celaya2 OS X 10.11.6 El Capitan / x86_64  OK  OK  OK  OK UNNEEDED, same version exists in internal repository

Summary

Package: chromstaR
Version: 1.10.0
Command: C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.9/bioc/src/contrib/chromstaR_1.10.0.tar.gz && rm -rf chromstaR.buildbin-libdir && mkdir chromstaR.buildbin-libdir && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=chromstaR.buildbin-libdir chromstaR_1.10.0.tar.gz && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL chromstaR_1.10.0.zip && rm chromstaR_1.10.0.tar.gz chromstaR_1.10.0.zip
StartedAt: 2019-10-15 20:11:07 -0400 (Tue, 15 Oct 2019)
EndedAt: 2019-10-15 20:12:40 -0400 (Tue, 15 Oct 2019)
EllapsedTime: 92.9 seconds
RetCode: 0
Status:  OK  

Command output

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###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.9/bioc/src/contrib/chromstaR_1.10.0.tar.gz && rm -rf chromstaR.buildbin-libdir && mkdir chromstaR.buildbin-libdir && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=chromstaR.buildbin-libdir chromstaR_1.10.0.tar.gz && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL chromstaR_1.10.0.zip && rm chromstaR_1.10.0.tar.gz chromstaR_1.10.0.zip
###
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100 6684k  100 6684k    0     0  57.8M      0 --:--:-- --:--:-- --:--:-- 61.0M

install for i386

* installing *source* package 'chromstaR' ...
** using staged installation
** libs
C:/Rtools/mingw_32/bin/g++  -I"C:/Users/BIOCBU~1/BBS-3~1.9-B/R/include" -DNDEBUG     -I"C:/extsoft/include"  -fopenmp   -O2 -Wall  -mtune=generic -c R_interface.cpp -o R_interface.o
C:/Rtools/mingw_32/bin/g++  -I"C:/Users/BIOCBU~1/BBS-3~1.9-B/R/include" -DNDEBUG     -I"C:/extsoft/include"  -fopenmp   -O2 -Wall  -mtune=generic -c densities.cpp -o densities.o
C:/Rtools/mingw_32/bin/g++  -I"C:/Users/BIOCBU~1/BBS-3~1.9-B/R/include" -DNDEBUG     -I"C:/extsoft/include"  -fopenmp   -O2 -Wall  -mtune=generic -c init.cpp -o init.o
C:/Rtools/mingw_32/bin/g++  -I"C:/Users/BIOCBU~1/BBS-3~1.9-B/R/include" -DNDEBUG     -I"C:/extsoft/include"  -fopenmp   -O2 -Wall  -mtune=generic -c scalehmm.cpp -o scalehmm.o
C:/Rtools/mingw_32/bin/g++  -I"C:/Users/BIOCBU~1/BBS-3~1.9-B/R/include" -DNDEBUG     -I"C:/extsoft/include"  -fopenmp   -O2 -Wall  -mtune=generic -c utility.cpp -o utility.o
C:/Rtools/mingw_32/bin/g++ -shared -s -static-libgcc -o chromstaR.dll tmp.def R_interface.o densities.o init.o scalehmm.o utility.o -fopenmp -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/chromstaR.buildbin-libdir/00LOCK-chromstaR/00new/chromstaR/libs/i386
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'chromstaR'
    finding HTML links ... done
    Chromstar                               html  
    binReads                                html  
    finding level-2 HTML links ... done

    binned.data                             html  
    callPeaksMultivariate                   html  
    callPeaksReplicates                     html  
    callPeaksUnivariate                     html  
    callPeaksUnivariateAllChr               html  
    changeMaxPostCutoff                     html  
    changePostCutoff                        html  
    chromstaR-objects                       html  
    chromstaR-package                       html  
    collapseBins                            html  
    combinatorialStates                     html  
    combineMultivariates                    html  
    combinedMultiHMM                        html  
    conversion                              html  
    enrichmentAtAnnotation                  html  
    enrichment_analysis                     html  
    experiment.table                        html  
    exportFiles                             html  
    exportGRangesAsBedFile                  html  
    fixedWidthBins                          html  
    genes_rn4                               html  
    genomicFrequencies                      html  
    getCombinations                         html  
    getDistinctColors                       html  
    getStateColors                          html  
    heatmapCombinations                     html  
    heatmapCountCorrelation                 html  
    heatmapTransitionProbs                  html  
    loadHmmsFromFiles                       html  
    mergeChroms                             html  
    model.combined                          html  
    model.multivariate                      html  
    model.univariate                        html  
    multiHMM                                html  
    multivariateSegmentation                html  
    plotExpression                          html  
    plotGenomeBrowser                       html  
    plotHistogram                           html  
    plotHistograms                          html  
    plotting                                html  
    print.combinedMultiHMM                  html  
    print.multiHMM                          html  
    print.uniHMM                            html  
    readBamFileAsGRanges                    html  
    readBedFileAsGRanges                    html  
    readConfig                              html  
    readCustomBedFile                       html  
    removeCondition                         html  
    scanBinsizes                            html  
    scores                                  html  
    simulateMultivariate                    html  
    simulateReadsFromCounts                 html  
    simulateUnivariate                      html  
    state.brewer                            html  
    stateBrewer                             html  
    subsample                               html  
    transitionFrequencies                   html  
    uniHMM                                  html  
    unis2pseudomulti                        html  
    variableWidthBins                       html  
    writeConfig                             html  
    zinbinom                                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 'chromstaR' ...
** libs
C:/Rtools/mingw_64/bin/g++  -I"C:/Users/BIOCBU~1/BBS-3~1.9-B/R/include" -DNDEBUG     -I"C:/extsoft/include"  -fopenmp   -O2 -Wall  -mtune=generic -c R_interface.cpp -o R_interface.o
C:/Rtools/mingw_64/bin/g++  -I"C:/Users/BIOCBU~1/BBS-3~1.9-B/R/include" -DNDEBUG     -I"C:/extsoft/include"  -fopenmp   -O2 -Wall  -mtune=generic -c densities.cpp -o densities.o
C:/Rtools/mingw_64/bin/g++  -I"C:/Users/BIOCBU~1/BBS-3~1.9-B/R/include" -DNDEBUG     -I"C:/extsoft/include"  -fopenmp   -O2 -Wall  -mtune=generic -c init.cpp -o init.o
C:/Rtools/mingw_64/bin/g++  -I"C:/Users/BIOCBU~1/BBS-3~1.9-B/R/include" -DNDEBUG     -I"C:/extsoft/include"  -fopenmp   -O2 -Wall  -mtune=generic -c scalehmm.cpp -o scalehmm.o
C:/Rtools/mingw_64/bin/g++  -I"C:/Users/BIOCBU~1/BBS-3~1.9-B/R/include" -DNDEBUG     -I"C:/extsoft/include"  -fopenmp   -O2 -Wall  -mtune=generic -c utility.cpp -o utility.o
C:/Rtools/mingw_64/bin/g++ -shared -s -static-libgcc -o chromstaR.dll tmp.def R_interface.o densities.o init.o scalehmm.o utility.o -fopenmp -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/chromstaR.buildbin-libdir/chromstaR/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'chromstaR' as chromstaR_1.10.0.zip
* DONE (chromstaR)
* installing to library 'C:/Users/biocbuild/bbs-3.9-bioc/R/library'
package 'chromstaR' successfully unpacked and MD5 sums checked