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INSTALL report for made4 on tokay2

This page was generated on 2020-10-17 11:56:59 -0400 (Sat, 17 Oct 2020).

TO THE DEVELOPERS/MAINTAINERS OF THE made4 PACKAGE: Please make sure to use the following settings in order to reproduce any error or warning you see on this page.
Package 973/1905HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
made4 1.62.0
Aedin Culhane
Snapshot Date: 2020-10-16 14:40:19 -0400 (Fri, 16 Oct 2020)
URL: https://git.bioconductor.org/packages/made4
Branch: RELEASE_3_11
Last Commit: 2112e97
Last Changed Date: 2020-04-27 14:10:56 -0400 (Mon, 27 Apr 2020)
malbec2 Linux (Ubuntu 18.04.4 LTS) / x86_64  OK  OK  ERROR 
tokay2 Windows Server 2012 R2 Standard / x64 [ OK ] OK  ERROR  OK 
machv2 macOS 10.14.6 Mojave / x86_64  OK  OK  ERROR  OK 

Summary

Package: made4
Version: 1.62.0
Command: C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.11/bioc/src/contrib/made4_1.62.0.tar.gz && rm -rf made4.buildbin-libdir && mkdir made4.buildbin-libdir && C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=made4.buildbin-libdir made4_1.62.0.tar.gz && C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD INSTALL made4_1.62.0.zip && rm made4_1.62.0.tar.gz made4_1.62.0.zip
StartedAt: 2020-10-16 18:10:47 -0400 (Fri, 16 Oct 2020)
EndedAt: 2020-10-16 18:12:17 -0400 (Fri, 16 Oct 2020)
EllapsedTime: 90.0 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/made4_1.62.0.tar.gz && rm -rf made4.buildbin-libdir && mkdir made4.buildbin-libdir && C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=made4.buildbin-libdir made4_1.62.0.tar.gz && C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD INSTALL made4_1.62.0.zip && rm made4_1.62.0.tar.gz made4_1.62.0.zip
###
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  % Total    % Received % Xferd  Average Speed   Time    Time     Time  Current
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  0     0    0     0    0     0      0      0 --:--:-- --:--:-- --:--:--     0
100  344k  100  344k    0     0  5364k      0 --:--:-- --:--:-- --:--:-- 5940k

install for i386

* installing *source* package 'made4' ...
** using staged installation
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'made4'
    finding HTML links ... done
    NCI60                                   html  
    array2ade4                              html  
Rd warning: C:/Users/biocbuild/bbs-3.11-bioc/tmpdir/Rtmp8ezGqt/R.INSTALL1eb8460d5685/made4/man/array2ade4.Rd:15: file link 'ExpressionSet-class' in package 'Biobase' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.11-bioc/tmpdir/Rtmp8ezGqt/R.INSTALL1eb8460d5685/made4/man/array2ade4.Rd:30: file link 'ExpressionSet-class' in package 'Biobase' does not exist and so has been treated as a topic
    bet.coinertia                           html  
Rd warning: C:/Users/biocbuild/bbs-3.11-bioc/tmpdir/Rtmp8ezGqt/R.INSTALL1eb8460d5685/made4/man/bet.coinertia.Rd:14: file link 'ExpressionSet-class' in package 'Biobase' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.11-bioc/tmpdir/Rtmp8ezGqt/R.INSTALL1eb8460d5685/made4/man/bet.coinertia.Rd:21: file link 'ExpressionSet-class' in package 'Biobase' does not exist and so has been treated as a topic
    between.graph                           html  
    bga                                     html  
Rd warning: C:/Users/biocbuild/bbs-3.11-bioc/tmpdir/Rtmp8ezGqt/R.INSTALL1eb8460d5685/made4/man/bga.Rd:16: file link 'ExpressionSet-class' in package 'Biobase' does not exist and so has been treated as a topic
    bga.jackknife                           html  
Rd warning: C:/Users/biocbuild/bbs-3.11-bioc/tmpdir/Rtmp8ezGqt/R.INSTALL1eb8460d5685/made4/man/bga.jackknife.Rd:37: file link 'plot.bga' in package 'made4' does not exist and so has been treated as a topic
    bga.suppl                               html  
Rd warning: C:/Users/biocbuild/bbs-3.11-bioc/tmpdir/Rtmp8ezGqt/R.INSTALL1eb8460d5685/made4/man/bga.suppl.Rd:13: file link 'ExpressionSet-class' in package 'Biobase' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.11-bioc/tmpdir/Rtmp8ezGqt/R.INSTALL1eb8460d5685/made4/man/bga.suppl.Rd:19: file link 'ExpressionSet-class' in package 'Biobase' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.11-bioc/tmpdir/Rtmp8ezGqt/R.INSTALL1eb8460d5685/made4/man/bga.suppl.Rd:45: file link 'plot.bga' in package 'made4' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.11-bioc/tmpdir/Rtmp8ezGqt/R.INSTALL1eb8460d5685/made4/man/bga.suppl.Rd:63: file link 'plot.bga' in package 'made4' does not exist and so has been treated as a topic
    checkfac                                html  
    chime3D                                 html  
    cia                                     html  
Rd warning: C:/Users/biocbuild/bbs-3.11-bioc/tmpdir/Rtmp8ezGqt/R.INSTALL1eb8460d5685/made4/man/cia.Rd:14: file link 'ExpressionSet-class' in package 'Biobase' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.11-bioc/tmpdir/Rtmp8ezGqt/R.INSTALL1eb8460d5685/made4/man/cia.Rd:20: file link 'ExpressionSet-class' in package 'Biobase' does not exist and so has been treated as a topic
    commonMap                               html  
    comparelists                            html  
    do3d                                    html  
    dudi.rwcoa                              html  
    forrwcoa                                html  
    genes                                   html  
    genes1d                                 html  
    getcol                                  html  
    getdata                                 html  
Rd warning: C:/Users/biocbuild/bbs-3.11-bioc/tmpdir/Rtmp8ezGqt/R.INSTALL1eb8460d5685/made4/man/getdata.Rd:14: file link 'ExpressionSet-class' in package 'Biobase' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.11-bioc/tmpdir/Rtmp8ezGqt/R.INSTALL1eb8460d5685/made4/man/getdata.Rd:25: file link 'ExpressionSet-class' in package 'Biobase' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.11-bioc/tmpdir/Rtmp8ezGqt/R.INSTALL1eb8460d5685/made4/man/getdata.Rd:29: missing file link 'vsn'
    graph1D                                 html  
    heatplot                                html  
Rd warning: C:/Users/biocbuild/bbs-3.11-bioc/tmpdir/Rtmp8ezGqt/R.INSTALL1eb8460d5685/made4/man/heatplot.Rd:14: file link 'ExpressionSet-class' in package 'Biobase' does not exist and so has been treated as a topic
    html3D                                  html  
    jmol3D                                  html  
    khan                                    html  
    ord                                     html  
Rd warning: C:/Users/biocbuild/bbs-3.11-bioc/tmpdir/Rtmp8ezGqt/R.INSTALL1eb8460d5685/made4/man/ord.Rd:13: file link 'ExpressionSet-class' in package 'Biobase' does not exist and so has been treated as a topic
    overview                                html  
Rd warning: C:/Users/biocbuild/bbs-3.11-bioc/tmpdir/Rtmp8ezGqt/R.INSTALL1eb8460d5685/made4/man/overview.Rd:10: file link 'ExpressionSet-class' in package 'Biobase' does not exist and so has been treated as a topic
    plotarrays                              html  
Rd warning: C:/Users/biocbuild/bbs-3.11-bioc/tmpdir/Rtmp8ezGqt/R.INSTALL1eb8460d5685/made4/man/plotarrays.Rd:45: file link 's.groups' in package 'made4' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.11-bioc/tmpdir/Rtmp8ezGqt/R.INSTALL1eb8460d5685/made4/man/plotarrays.Rd:46: file link 's.match.col' in package 'made4' does not exist and so has been treated as a topic
    plotgenes                               html  
    prettyDend                              html  
Rd warning: C:/Users/biocbuild/bbs-3.11-bioc/tmpdir/Rtmp8ezGqt/R.INSTALL1eb8460d5685/made4/man/prettyDend.Rd:11: file link 'ExpressionSet-class' in package 'Biobase' does not exist and so has been treated as a topic
    randomiser                              html  
    s.var                                   html  
Rd warning: C:/Users/biocbuild/bbs-3.11-bioc/tmpdir/Rtmp8ezGqt/R.INSTALL1eb8460d5685/made4/man/s.var.Rd:65: file link 'plot.bga' in package 'made4' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.11-bioc/tmpdir/Rtmp8ezGqt/R.INSTALL1eb8460d5685/made4/man/s.var.Rd:65: file link 'plot.cia' in package 'made4' does not exist and so has been treated as a topic
    sumstats                                html  
    suppl                                   html  
Rd warning: C:/Users/biocbuild/bbs-3.11-bioc/tmpdir/Rtmp8ezGqt/R.INSTALL1eb8460d5685/made4/man/suppl.Rd:17: file link 'ExpressionSet-class' in package 'Biobase' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.11-bioc/tmpdir/Rtmp8ezGqt/R.INSTALL1eb8460d5685/made4/man/suppl.Rd:38: file link 'plot.bga' in package 'made4' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.11-bioc/tmpdir/Rtmp8ezGqt/R.INSTALL1eb8460d5685/made4/man/suppl.Rd:47: file link 'plot.bga' in package 'made4' does not exist and so has been treated as a topic
    topgenes                                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 'made4' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'made4' as made4_1.62.0.zip
* DONE (made4)
* installing to library 'C:/Users/biocbuild/bbs-3.11-bioc/R/library'
package 'made4' successfully unpacked and MD5 sums checked