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INSTALL report for genefu on tokay2

This page was generated on 2020-10-17 11:56:38 -0400 (Sat, 17 Oct 2020).

TO THE DEVELOPERS/MAINTAINERS OF THE genefu PACKAGE: Please make sure to use the following settings in order to reproduce any error or warning you see on this page.
Package 680/1905HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
genefu 2.20.0
Benjamin Haibe-Kains
Snapshot Date: 2020-10-16 14:40:19 -0400 (Fri, 16 Oct 2020)
URL: https://git.bioconductor.org/packages/genefu
Branch: RELEASE_3_11
Last Commit: 4e5f5c7
Last Changed Date: 2020-04-27 14:25:01 -0400 (Mon, 27 Apr 2020)
malbec2 Linux (Ubuntu 18.04.4 LTS) / x86_64  OK  OK  OK UNNEEDED, same version exists in internal repository
tokay2 Windows Server 2012 R2 Standard / x64 [ OK ] OK  WARNINGS  OK UNNEEDED, same version exists in internal repository
machv2 macOS 10.14.6 Mojave / x86_64  OK  OK  OK  OK UNNEEDED, same version exists in internal repository

Summary

Package: genefu
Version: 2.20.0
Command: C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.11/bioc/src/contrib/genefu_2.20.0.tar.gz && rm -rf genefu.buildbin-libdir && mkdir genefu.buildbin-libdir && C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=genefu.buildbin-libdir genefu_2.20.0.tar.gz && C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD INSTALL genefu_2.20.0.zip && rm genefu_2.20.0.tar.gz genefu_2.20.0.zip
StartedAt: 2020-10-16 17:44:56 -0400 (Fri, 16 Oct 2020)
EndedAt: 2020-10-16 17:47:00 -0400 (Fri, 16 Oct 2020)
EllapsedTime: 124.3 seconds
RetCode: 0
Status:  OK  

Command output

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###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.11/bioc/src/contrib/genefu_2.20.0.tar.gz && rm -rf genefu.buildbin-libdir && mkdir genefu.buildbin-libdir && C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=genefu.buildbin-libdir genefu_2.20.0.tar.gz && C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD INSTALL genefu_2.20.0.zip && rm genefu_2.20.0.tar.gz genefu_2.20.0.zip
###
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  % Total    % Received % Xferd  Average Speed   Time    Time     Time  Current
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100 4331k  100 4331k    0     0  42.2M      0 --:--:-- --:--:-- --:--:-- 45.0M

install for i386

* installing *source* package 'genefu' ...
** using staged installation
** R
** data
*** moving datasets to lazyload DB
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'genefu'
    finding HTML links ... done
    bimod                                   html  
    boxplotplus2                            html  
    claudinLow                              html  
    claudinLowData                          html  
    collapseIDs                             html  
    compare.proto.cor                       html  
    compute.pairw.cor.meta                  html  
    compute.pairw.cor.z                     html  
    compute.proto.cor.meta                  html  
    cordiff.dep                             html  
Rd warning: C:/Users/biocbuild/bbs-3.11-bioc/tmpdir/RtmpKu2kEq/R.INSTALL18e41d594545/genefu/man/cordiff.dep.Rd:53: file link 'compareProtoCor' in package 'genefu' does not exist and so has been treated as a topic
    endoPredict                             html  
    expos                                   html  
Rd warning: C:/Users/biocbuild/bbs-3.11-bioc/tmpdir/RtmpKu2kEq/R.INSTALL18e41d594545/genefu/man/expos.Rd:23: file link 'data.expos' in package 'genefu' does not exist and so has been treated as a topic
    fuzzy.ttest                             html  
    gene70                                  html  
    gene76                                  html  
    genefu-package                          html  
    geneid.map                              html  
    genius                                  html  
    ggi                                     html  
    ihc4                                    html  
    intrinsic.cluster                       html  
    intrinsic.cluster.predict               html  
    map.datasets                            html  
    medianCtr                               html  
    mod1                                    html  
    mod2                                    html  
    modelOvcAngiogenic                      html  
    molecular.subtyping                     html  
    nkis                                    html  
Rd warning: C:/Users/biocbuild/bbs-3.11-bioc/tmpdir/RtmpKu2kEq/R.INSTALL18e41d594545/genefu/man/nkis.Rd:23: file link 'data.nkis' in package 'genefu' does not exist and so has been treated as a topic
    npi                                     html  
    oncotypedx                              html  
    ovcAngiogenic                           html  
    ovcCrijns                               html  
    ovcTCGA                                 html  
    ovcYoshihara                            html  
    overlapSets                             html  
    pam50                                   html  
    pik3cags                                html  
    power.cor                               html  
    ps.cluster                              html  
    read.m.file                             html  
Rd warning: C:/Users/biocbuild/bbs-3.11-bioc/tmpdir/RtmpKu2kEq/R.INSTALL18e41d594545/genefu/man/read.m.file.Rd:16: file link 'read.csv' in package 'utils' does not exist and so has been treated as a topic
    readArray                               html  
    rename.duplicate                        html  
    rescale                                 html  
    rorS                                    html  
    scmgene.robust                          html  
    scmod1.robust                           html  
    scmod2.robust                           html  
    setcolclass.df                          html  
    sig.endoPredict                         html  
    sig.gene70                              html  
    sig.gene76                              html  
    sig.genius                              html  
    sig.ggi                                 html  
    sig.oncotypedx                          html  
    sig.pik3cags                            html  
    sig.score                               html  
    sig.tamr13                              html  
    sigOvcAngiogenic                        html  
    sigOvcCrijns                            html  
    sigOvcSpentzos                          html  
    sigOvcTCGA                              html  
    sigOvcYoshihara                         html  
    spearmanCI                              html  
    ssp2003                                 html  
    ssp2006                                 html  
    st.gallen                               html  
    stab.fs                                 html  
    stab.fs.ranking                         html  
    strescR                                 html  
    subtype.cluster                         html  
    subtype.cluster.predict                 html  
    tamr13                                  html  
    tbrm                                    html  
    vdxs                                    html  
Rd warning: C:/Users/biocbuild/bbs-3.11-bioc/tmpdir/RtmpKu2kEq/R.INSTALL18e41d594545/genefu/man/vdxs.Rd:23: file link 'data.vdxs' in package 'genefu' does not exist and so has been treated as a topic
    weighted.meanvar                        html  
    write.m.file                            html  
Rd warning: C:/Users/biocbuild/bbs-3.11-bioc/tmpdir/RtmpKu2kEq/R.INSTALL18e41d594545/genefu/man/write.m.file.Rd:22: file link 'read.csv' in package 'utils' does not exist and so has been treated as a topic
** 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 'genefu' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'genefu' as genefu_2.20.0.zip
* DONE (genefu)
* installing to library 'C:/Users/biocbuild/bbs-3.11-bioc/R/library'
package 'genefu' successfully unpacked and MD5 sums checked