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INSTALL report for AGDEX on tokay2

This page was generated on 2018-10-17 08:35:44 -0400 (Wed, 17 Oct 2018).

Package 31/1561HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
AGDEX 1.28.0
Cuilan lani Gao
Snapshot Date: 2018-10-15 16:45:08 -0400 (Mon, 15 Oct 2018)
URL: https://git.bioconductor.org/packages/AGDEX
Branch: RELEASE_3_7
Last Commit: 7d78ee4
Last Changed Date: 2018-04-30 10:35:21 -0400 (Mon, 30 Apr 2018)
malbec2 Linux (Ubuntu 16.04.1 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
merida2 OS X 10.11.6 El Capitan / x86_64  OK  OK  OK  OK UNNEEDED, same version exists in internal repository

Summary

Package: AGDEX
Version: 1.28.0
Command: C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.7/bioc/src/contrib/AGDEX_1.28.0.tar.gz && rm -rf AGDEX.buildbin-libdir && mkdir AGDEX.buildbin-libdir && C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=AGDEX.buildbin-libdir AGDEX_1.28.0.tar.gz && C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD INSTALL AGDEX_1.28.0.zip && rm AGDEX_1.28.0.tar.gz AGDEX_1.28.0.zip
StartedAt: 2018-10-16 18:57:50 -0400 (Tue, 16 Oct 2018)
EndedAt: 2018-10-16 18:58:23 -0400 (Tue, 16 Oct 2018)
EllapsedTime: 33.3 seconds
RetCode: 0
Status:  OK  

Command output

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###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.7/bioc/src/contrib/AGDEX_1.28.0.tar.gz && rm -rf AGDEX.buildbin-libdir && mkdir AGDEX.buildbin-libdir && C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=AGDEX.buildbin-libdir AGDEX_1.28.0.tar.gz && C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD INSTALL AGDEX_1.28.0.zip && rm AGDEX_1.28.0.tar.gz AGDEX_1.28.0.zip
###
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install for i386

* installing *source* package 'AGDEX' ...
** R
** data
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'AGDEX'
    finding HTML links ... done
    AGDEX-package                           html  
    agdex                                   html  
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpAb61ym/R.INSTALL9d82ea42848/AGDEX/man/agdex.Rd:91: file link 'ExpressionSet' in package 'Biobase' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpAb61ym/R.INSTALL9d82ea42848/AGDEX/man/agdex.Rd:93: file link 'GeneSetCollection' in package 'GSEABase' does not exist and so has been treated as a topic
    agdex.res                               html  
    agdex.scatterplot                       html  
    get.gset.result.details                 html  
    gset.data                               html  
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpAb61ym/R.INSTALL9d82ea42848/AGDEX/man/gset.data.Rd:24: file link 'GeneSetCollection' in package 'GSEABase' does not exist and so has been treated as a topic
    human.data                              html  
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpAb61ym/R.INSTALL9d82ea42848/AGDEX/man/human.data.Rd:35: file link 'ExpressionSet' in package 'Biobase' does not exist and so has been treated as a topic
    make.dex.set.object                     html  
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpAb61ym/R.INSTALL9d82ea42848/AGDEX/man/make.dex.set.object.Rd:37: file link 'ExpressionSet' in package 'Biobase' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpAb61ym/R.INSTALL9d82ea42848/AGDEX/man/make.dex.set.object.Rd:39: file link 'GeneSetCollection' in package 'GSEABase' does not exist and so has been treated as a topic
    map.data                                html  
    mouse.data                              html  
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpAb61ym/R.INSTALL9d82ea42848/AGDEX/man/mouse.data.Rd:35: file link 'ExpressionSet' in package 'Biobase' does not exist and so has been treated as a topic
    read.agdex.gset.details                 html  
    read.agdex.result                       html  
    write.agdex.gset.details                html  
    write.agdex.result                      html  
** building package indices
** installing vignettes
** testing if installed package can be loaded
In R CMD INSTALL

install for x64

* installing *source* package 'AGDEX' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'AGDEX' as AGDEX_1.28.0.zip
* DONE (AGDEX)
In R CMD INSTALL
In R CMD INSTALL
* installing to library 'C:/Users/biocbuild/bbs-3.7-bioc/R/library'
package 'AGDEX' successfully unpacked and MD5 sums checked
In R CMD INSTALL