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INSTALL report for MineICA on tokay1

This page was generated on 2019-04-13 11:22:39 -0400 (Sat, 13 Apr 2019).

Package 959/1649HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
MineICA 1.22.0
Anne Biton
Snapshot Date: 2019-04-12 17:01:30 -0400 (Fri, 12 Apr 2019)
URL: https://git.bioconductor.org/packages/MineICA
Branch: RELEASE_3_8
Last Commit: 7e79aff
Last Changed Date: 2018-10-30 11:41:50 -0400 (Tue, 30 Oct 2018)
malbec1 Linux (Ubuntu 16.04.6 LTS) / x86_64  OK  OK  OK UNNEEDED, same version exists in internal repository
tokay1 Windows Server 2012 R2 Standard / x64 [ OK ] OK  WARNINGS  OK UNNEEDED, same version exists in internal repository
merida1 OS X 10.11.6 El Capitan / x86_64  OK  OK  OK  OK UNNEEDED, same version exists in internal repository

Summary

Package: MineICA
Version: 1.22.0
Command: C:\cygwin\bin\curl.exe -O https://malbec1.bioconductor.org/BBS/3.8/bioc/src/contrib/MineICA_1.22.0.tar.gz && rm -rf MineICA.buildbin-libdir && mkdir MineICA.buildbin-libdir && C:\Users\biocbuild\bbs-3.8-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=MineICA.buildbin-libdir MineICA_1.22.0.tar.gz && C:\Users\biocbuild\bbs-3.8-bioc\R\bin\R.exe CMD INSTALL MineICA_1.22.0.zip && rm MineICA_1.22.0.tar.gz MineICA_1.22.0.zip
StartedAt: 2019-04-12 20:35:42 -0400 (Fri, 12 Apr 2019)
EndedAt: 2019-04-12 20:37:14 -0400 (Fri, 12 Apr 2019)
EllapsedTime: 91.8 seconds
RetCode: 0
Status:  OK  

Command output

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###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O https://malbec1.bioconductor.org/BBS/3.8/bioc/src/contrib/MineICA_1.22.0.tar.gz && rm -rf MineICA.buildbin-libdir && mkdir MineICA.buildbin-libdir && C:\Users\biocbuild\bbs-3.8-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=MineICA.buildbin-libdir MineICA_1.22.0.tar.gz && C:\Users\biocbuild\bbs-3.8-bioc\R\bin\R.exe CMD INSTALL MineICA_1.22.0.zip && rm MineICA_1.22.0.tar.gz MineICA_1.22.0.zip
###
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100  722k  100  722k    0     0  15.0M      0 --:--:-- --:--:-- --:--:-- 16.4M

install for i386

* installing *source* package 'MineICA' ...
** R
** data
** byte-compile and prepare package for lazy loading
Creating a new generic function for 'sampleNames<-' in package 'MineICA'
** help
*** installing help indices
  converting help for package 'MineICA'
    finding HTML links ... done
    A                                       html  
    Alist                                   html  
    Slist                                   html  
    addGenesToGoReport                      html  
    annot2Color                             html  
    annotCarbayo                            html  
    annotFeatures                           html  
    annotFeaturesComp                       html  
    annotFeaturesWithBiomaRt                html  
    annotInGene                             html  
    annotReciprocal                         html  
    buildIcaSet                             html  
    buildMineICAParams                      html  
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpkLPvdS/R.INSTALL242ca8e4598/MineICA/man/buildMineICAParams.Rd:50: file link 'MineICAParams-class' in package 'MineICA' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpkLPvdS/R.INSTALL242ca8e4598/MineICA/man/buildMineICAParams.Rd:54: file link 'IcaSet-class' in package 'MineICA' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpkLPvdS/R.INSTALL242ca8e4598/MineICA/man/buildMineICAParams.Rd:67: file link 'MineICAParams-class' in package 'MineICA' does not exist and so has been treated as a topic
    build_sortHeatmap                       html  
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpkLPvdS/R.INSTALL242ca8e4598/MineICA/man/build_sortHeatmap.Rd:45: file link 'IcaSet-class' in package 'MineICA' does not exist and so has been treated as a topic
    class-IcaSet                            html  
    finding level-2 HTML links ... done

    class-MineICAParams                     html  
    clusVarAnalysis                         html  
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpkLPvdS/R.INSTALL242ca8e4598/MineICA/man/clusVarAnalysis.Rd:16: file link 'IcaSet-class' in package 'MineICA' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpkLPvdS/R.INSTALL242ca8e4598/MineICA/man/clusVarAnalysis.Rd:19: file link 'MineICAParams-class' in package 'MineICA' does not exist and so has been treated as a topic
    clusterFastICARuns                      html  
    clusterSamplesByComp                    html  
    clusterSamplesByComp_multiple           html  
    compareAn                               html  
    compareAn2graphfile                     html  
    compareGenes                            html  
    cor2An                                  html  
    correl2Comp                             html  
    dat                                     html  
    dataCarbayo                             html  
    doEnrichment                            html  
    getComp                                 html  
    getProj                                 html  
    getSdExpr                               html  
    hgOver                                  html  
    hypergeoAn                              html  
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpkLPvdS/R.INSTALL242ca8e4598/MineICA/man/hypergeoAn.Rd:53: file link 'GOstats' in package 'GOstats' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpkLPvdS/R.INSTALL242ca8e4598/MineICA/man/hypergeoAn.Rd:14: file link 'MineICAParams-class' in package 'MineICA' does not exist and so has been treated as a topic
    icaSetCarbayo                           html  
    icaSetKim                               html  
    icaSetRiester                           html  
    icaSetStransky                          html  
    indComp                                 html  
    mergeGostatsResults                     html  
    nbOccByGeneInComp                       html  
    nbOccInComp                             html  
    nbOccInComp_simple                      html  
    nodeAttrs                               html  
    plotAllMix                              html  
    plotCorGraph                            html  
    plotDens2classInComp_plotOnly           html  
    plotDensAllAnnotInAllComp               html  
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpkLPvdS/R.INSTALL242ca8e4598/MineICA/man/plotDensAllAnnotInAllComp.Rd:14: file link 'IcaSet-class' in package 'MineICA' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpkLPvdS/R.INSTALL242ca8e4598/MineICA/man/plotDensAllAnnotInAllComp.Rd:17: file link 'MineICAParams-class' in package 'MineICA' does not exist and so has been treated as a topic
    plotDensOneAnnotInAllComp               html  
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpkLPvdS/R.INSTALL242ca8e4598/MineICA/man/plotDensOneAnnotInAllComp.Rd:12: file link 'IcaSet-class' in package 'MineICA' does not exist and so has been treated as a topic
    plotMclust                              html  
    plotMix                                 html  
    plotPosAnnotInComp                      html  
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpkLPvdS/R.INSTALL242ca8e4598/MineICA/man/plotPosAnnotInComp.Rd:80: file link 'IcaSet-class' in package 'MineICA' does not exist and so has been treated as a topic
    plotPosOneAnnotInComp_ggplot            html  
    plotPosOneAnnotLevInComp_ggplot         html  
    plotPosSamplesInComp                    html  
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpkLPvdS/R.INSTALL242ca8e4598/MineICA/man/plotPosSamplesInComp.Rd:60: file link 'IcaSet-class' in package 'MineICA' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpkLPvdS/R.INSTALL242ca8e4598/MineICA/man/plotPosSamplesInComp.Rd:22: file link 'IcaSet-class' in package 'MineICA' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpkLPvdS/R.INSTALL242ca8e4598/MineICA/man/plotPosSamplesInComp.Rd:101: file link 'IcaSet-class' in package 'MineICA' does not exist and so has been treated as a topic
    plot_heatmapsOnSel                      html  
    qualVarAnalysis                         html  
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpkLPvdS/R.INSTALL242ca8e4598/MineICA/man/qualVarAnalysis.Rd:17: file link 'MineICAParams-class' in package 'MineICA' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpkLPvdS/R.INSTALL242ca8e4598/MineICA/man/qualVarAnalysis.Rd:21: file link 'IcaSet-class' in package 'MineICA' does not exist and so has been treated as a topic
    quantVarAnalysis                        html  
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpkLPvdS/R.INSTALL242ca8e4598/MineICA/man/quantVarAnalysis.Rd:17: file link 'MineICAParams-class' in package 'MineICA' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpkLPvdS/R.INSTALL242ca8e4598/MineICA/man/quantVarAnalysis.Rd:21: file link 'IcaSet-class' in package 'MineICA' does not exist and so has been treated as a topic
    readA                                   html  
    readS                                   html  
    relativePath                            html  
    runAn                                   html  
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpkLPvdS/R.INSTALL242ca8e4598/MineICA/man/runAn.Rd:22: file link 'MineICAParams-class' in package 'MineICA' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpkLPvdS/R.INSTALL242ca8e4598/MineICA/man/runAn.Rd:26: file link 'IcaSet-class' in package 'MineICA' does not exist and so has been treated as a topic
    runCompareIcaSets                       html  
    runEnrich                               html  
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpkLPvdS/R.INSTALL242ca8e4598/MineICA/man/runEnrich.Rd:11: file link 'IcaSet-class' in package 'MineICA' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpkLPvdS/R.INSTALL242ca8e4598/MineICA/man/runEnrich.Rd:14: file link 'MineICAParams-class' in package 'MineICA' does not exist and so has been treated as a topic
    runICA                                  html  
    selectContrib                           html  
    selectFeatures_IQR                      html  
    selectWitnessGenes                      html  
    wilcoxOrKruskalOnA                      html  
    writeGenes                              html  
    writeGostatsHtmltable                   html  
    writeHtmlResTestsByAnnot                html  
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpkLPvdS/R.INSTALL242ca8e4598/MineICA/man/writeHtmlResTestsByAnnot.Rd:14: file link 'MineICAParams-class' in package 'MineICA' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpkLPvdS/R.INSTALL242ca8e4598/MineICA/man/writeHtmlResTestsByAnnot.Rd:18: file link 'IcaSet-class' in package 'MineICA' does not exist and so has been treated as a topic
    writeProjByComp                         html  
    writeRnkFiles                           html  
** building package indices
** installing vignettes
** testing if installed package can be loaded
In R CMD INSTALL

install for x64

* installing *source* package 'MineICA' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'MineICA' as MineICA_1.22.0.zip
* DONE (MineICA)
In R CMD INSTALL
In R CMD INSTALL
* installing to library 'C:/Users/biocbuild/bbs-3.8-bioc/R/library'
package 'MineICA' successfully unpacked and MD5 sums checked
In R CMD INSTALL