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This page was generated on 2021-09-22 15:05:10 -0400 (Wed, 22 Sep 2021).

INSTALL results for chromstaR on tokay2

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raw results

Package 307/2041HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
chromstaR 1.18.0  (landing page)
Aaron Taudt
Snapshot Date: 2021-09-21 04:50:12 -0400 (Tue, 21 Sep 2021)
git_url: https://git.bioconductor.org/packages/chromstaR
git_branch: RELEASE_3_13
git_last_commit: 8f44dd4
git_last_commit_date: 2021-05-19 12:21:16 -0400 (Wed, 19 May 2021)
nebbiolo1Linux (Ubuntu 20.04.2 LTS) / x86_64  OK    ERROR  skipped
tokay2Windows Server 2012 R2 Standard / x64  OK    ERROR  skippedskipped
machv2macOS 10.14.6 Mojave / x86_64  OK    ERROR  skippedskipped

Summary

Package: chromstaR
Version: 1.18.0
Command: C:\cygwin\bin\curl.exe -O http://155.52.207.165/BBS/3.13/bioc/src/contrib/chromstaR_1.18.0.tar.gz && rm -rf chromstaR.buildbin-libdir && mkdir chromstaR.buildbin-libdir && C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=chromstaR.buildbin-libdir chromstaR_1.18.0.tar.gz && C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL chromstaR_1.18.0.zip && rm chromstaR_1.18.0.tar.gz chromstaR_1.18.0.zip
StartedAt: 2021-09-21 09:07:08 -0400 (Tue, 21 Sep 2021)
EndedAt: 2021-09-21 09:08:19 -0400 (Tue, 21 Sep 2021)
EllapsedTime: 71.1 seconds
RetCode: 0
Status:   OK  

Command output

##############################################################################
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###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O http://155.52.207.165/BBS/3.13/bioc/src/contrib/chromstaR_1.18.0.tar.gz && rm -rf chromstaR.buildbin-libdir && mkdir chromstaR.buildbin-libdir && C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=chromstaR.buildbin-libdir chromstaR_1.18.0.tar.gz && C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL chromstaR_1.18.0.zip && rm chromstaR_1.18.0.tar.gz chromstaR_1.18.0.zip
###
##############################################################################
##############################################################################


  % Total    % Received % Xferd  Average Speed   Time    Time     Time  Current
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  0     0    0     0    0     0      0      0 --:--:-- --:--:-- --:--:--     0
  0 6686k    0  3835    0     0  38686      0  0:02:56 --:--:--  0:02:56 38737
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100 6686k  100 6686k    0     0  3451k      0  0:00:01  0:00:01 --:--:-- 3452k

install for i386

* installing *source* package 'chromstaR' ...
** using staged installation
** libs
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11  -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG     -I"c:/extsoft/include"  -fopenmp   -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c R_interface.cpp -o R_interface.o
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11  -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG     -I"c:/extsoft/include"  -fopenmp   -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c densities.cpp -o densities.o
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11  -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG     -I"c:/extsoft/include"  -fopenmp   -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c init.cpp -o init.o
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11  -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG     -I"c:/extsoft/include"  -fopenmp   -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c scalehmm.cpp -o scalehmm.o
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11  -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG     -I"c:/extsoft/include"  -fopenmp   -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c utility.cpp -o utility.o
C:/rtools40/mingw32/bin/g++ -std=gnu++11 -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-3~1.13-/R/bin/i386 -lR
installing to C:/Users/biocbuild/bbs-3.13-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  
REDIRECT:topic	 Previous alias or file overwritten by alias: C:/Users/biocbuild/bbs-3.13-bioc/meat/chromstaR.buildbin-libdir/00LOCK-chromstaR/00new/chromstaR/help/chromstaR.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:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG     -I"C:/extsoft/include"  -fopenmp   -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c R_interface.cpp -o R_interface.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG     -I"C:/extsoft/include"  -fopenmp   -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c densities.cpp -o densities.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG     -I"C:/extsoft/include"  -fopenmp   -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c init.cpp -o init.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG     -I"C:/extsoft/include"  -fopenmp   -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c scalehmm.cpp -o scalehmm.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG     -I"C:/extsoft/include"  -fopenmp   -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c utility.cpp -o utility.o
C:/rtools40/mingw64/bin/g++ -std=gnu++11 -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-3~1.13-/R/bin/x64 -lR
installing to C:/Users/biocbuild/bbs-3.13-bioc/meat/chromstaR.buildbin-libdir/chromstaR/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'chromstaR' as chromstaR_1.18.0.zip
* DONE (chromstaR)
* installing to library 'C:/Users/biocbuild/bbs-3.13-bioc/R/library'
package 'chromstaR' successfully unpacked and MD5 sums checked