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INSTALL report for PharmacoGx on tokay2

This page was generated on 2019-04-09 12:27:08 -0400 (Tue, 09 Apr 2019).

Package 1178/1703HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
PharmacoGx 1.13.0
Benjamin Haibe-Kains
Snapshot Date: 2019-04-08 17:01:18 -0400 (Mon, 08 Apr 2019)
URL: https://git.bioconductor.org/packages/PharmacoGx
Branch: master
Last Commit: 24cb9de
Last Changed Date: 2018-10-30 11:54:36 -0400 (Tue, 30 Oct 2018)
malbec2 Linux (Ubuntu 18.04.2 LTS) / x86_64  ERROR  ERROR  skipped 
tokay2 Windows Server 2012 R2 Standard / x64 [ ERROR ] ERROR  skipped  skipped 
celaya2 OS X 10.11.6 El Capitan / x86_64  ERROR  ERROR  skipped  skipped 
merida2 OS X 10.11.6 El Capitan / x86_64  OK  OK  OK  OK 

Summary

Package: PharmacoGx
Version: 1.13.0
Command: C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.9/bioc/src/contrib/PharmacoGx_1.13.0.tar.gz && rm -rf PharmacoGx.buildbin-libdir && mkdir PharmacoGx.buildbin-libdir && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=PharmacoGx.buildbin-libdir PharmacoGx_1.13.0.tar.gz && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL PharmacoGx_1.13.0.zip && rm PharmacoGx_1.13.0.tar.gz PharmacoGx_1.13.0.zip
StartedAt: 2019-04-08 19:28:14 -0400 (Mon, 08 Apr 2019)
EndedAt: 2019-04-08 19:29:04 -0400 (Mon, 08 Apr 2019)
EllapsedTime: 50.0 seconds
RetCode: 1
Status:  ERROR  

Command output

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###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.9/bioc/src/contrib/PharmacoGx_1.13.0.tar.gz && rm -rf PharmacoGx.buildbin-libdir && mkdir PharmacoGx.buildbin-libdir && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=PharmacoGx.buildbin-libdir PharmacoGx_1.13.0.tar.gz && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL PharmacoGx_1.13.0.zip && rm PharmacoGx_1.13.0.tar.gz PharmacoGx_1.13.0.zip
###
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  % 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 4116k  100 4116k    0     0  19.1M      0 --:--:-- --:--:-- --:--:-- 19.6M

install for i386

* installing *source* package 'PharmacoGx' ...
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'PharmacoGx'
    finding HTML links ... done
    CCLEsmall                               html  
    CMAPsmall                               html  
    GDSCsmall                               html  
    HDAC_genes                              html  
    LogLogisticRegression                   html  
    PharmacoSet-class                       html  
    PharmacoSet                             html  
    amcc                                    html  
    availablePSets                          html  
    cellInfo-set                            html  
    cellInfo                                html  
    cellNames-set                           html  
    cellNames                               html  
    checkPSetStructure                      html  
    computeABC                              html  
    computeAUC                              html  
    computeAmax                             html  
    computeICn                              html  
    computeSlope                            html  
    connectivityScore                       html  
    cosinePerm                              html  
    dateCreated                             html  
    dim-PharmacoSet-method                  html  
    downloadPSet                            html  
    downloadPertSig                         html  
    drugDoseResponseCurve                   html  
    drugInfo-set                            html  
    drugInfo                                html  
    drugNames-set                           html  
    drugNames                               html  
    drugPerturbationSig                     html  
    drugSensitivitySig                      html  
    fNames                                  html  
    featureInfo-set                         html  
    featureInfo                             html  
    filterNoisyCurves                       html  
    gwc                                     html  
    intersectList                           html  
    intersectPSet                           html  
    mDataNames                              html  
    mcc                                     html  
    molecularProfiles-set                   html  
    molecularProfiles                       html  
    pSetName                                html  
    pertNumber-set                          html  
    pertNumber                              html  
    phenoInfo-set                           html  
    phenoInfo                               html  
    sensNumber-set                          html  
    sensNumber                              html  
    sensitivityInfo-set                     html  
    sensitivityInfo                         html  
    sensitivityMeasures                     html  
    sensitivityProfiles-set                 html  
    sensitivityProfiles                     html  
    show-PharmacoSet-method                 html  
    show-PharmacoSig-method                 html  
    showSigAnnot                            html  
    sub-PharmacoSet-ANY-ANY-ANY-method      html  
    subsetTo                                html  
    summarizeMolecularProfiles              html  
    summarizeSensitivityProfiles            html  
    symSetDiffList                          html  
    unionList                               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
ERROR: hard-coded installation path: please report to the package maintainer and use '--no-staged-install'
* removing 'C:/Users/biocbuild/bbs-3.9-bioc/meat/PharmacoGx.buildbin-libdir/PharmacoGx'