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###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O http://155.52.207.165/BBS/3.13/bioc/src/contrib/PureCN_1.22.2.tar.gz && rm -rf PureCN.buildbin-libdir && mkdir PureCN.buildbin-libdir && C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=PureCN.buildbin-libdir PureCN_1.22.2.tar.gz && C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL PureCN_1.22.2.zip && rm PureCN_1.22.2.tar.gz PureCN_1.22.2.zip
###
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  0     0    0     0    0     0      0      0 --:--:-- --:--:-- --:--:--     0
 43 2906k   43 1256k    0     0  1394k      0  0:00:02 --:--:--  0:00:02 1393k
100 2906k  100 2906k    0     0  1861k      0  0:00:01  0:00:01 --:--:-- 1863k

install for i386

* installing *source* package 'PureCN' ...
** using staged installation
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'PureCN'
    finding HTML links ... done
    PureCN-defunct                          html  
    PureCN-deprecated                       html  
    annotateTargets                         html  
    bootstrapResults                        html  
    calculateBamCoverageByInterval          html  
    calculateLogRatio                       html  
    calculateMappingBiasGatk4               html  
    calculateMappingBiasVcf                 html  
    calculatePowerDetectSomatic             html  
    calculateTangentNormal                  html  
    callAlterations                         html  
    callAlterationsFromSegmentation         html  
    callAmplificationsInLowPurity           html  
    callCIN                                 html  
    callLOH                                 html  
    callMutationBurden                      html  
    centromeres                             html  
    correctCoverageBias                     html  
    createCurationFile                      html  
    createNormalDatabase                    html  
    filterIntervals                         html  
    filterVcfBasic                          html  
    filterVcfMuTect                         html  
    filterVcfMuTect2                        html  
    findFocal                               html  
    getSexFromCoverage                      html  
    getSexFromVcf                           html  
    plotAbs                                 html  
    poolCoverage                            html  
    predictSomatic                          html  
    preprocessIntervals                     html  
    processMultipleSamples                  html  
    purecn.DNAcopy.bdry                     html  
    purecn.example.output                   html  
    readAllelicCountsFile                   html  
    readCoverageFile                        html  
    readCurationFile                        html  
    readLogRatioFile                        html  
    readSegmentationFile                    html  
    runAbsoluteCN                           html  
    segmentationCBS                         html  
    segmentationGATK4                       html  
    segmentationHclust                      html  
    segmentationPSCBS                       html  
    setMappingBiasVcf                       html  
    setPriorVcf                             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 'PureCN' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'PureCN' as PureCN_1.22.2.zip
* DONE (PureCN)
* installing to library 'C:/Users/biocbuild/bbs-3.13-bioc/R/library'
package 'PureCN' successfully unpacked and MD5 sums checked