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INSTALL report for AGDEX on tokay1

This page was generated on 2020-04-15 12:20:12 -0400 (Wed, 15 Apr 2020).

Package 37/1823HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
AGDEX 1.34.0
Cuilan lani Gao
Snapshot Date: 2020-04-14 16:46:13 -0400 (Tue, 14 Apr 2020)
URL: https://git.bioconductor.org/packages/AGDEX
Branch: RELEASE_3_10
Last Commit: f34d12b
Last Changed Date: 2019-10-29 13:08:22 -0400 (Tue, 29 Oct 2019)
malbec1 Linux (Ubuntu 18.04.4 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: AGDEX
Version: 1.34.0
Command: C:\cygwin\bin\curl.exe -O https://malbec1.bioconductor.org/BBS/3.10/bioc/src/contrib/AGDEX_1.34.0.tar.gz && rm -rf AGDEX.buildbin-libdir && mkdir AGDEX.buildbin-libdir && C:\Users\biocbuild\bbs-3.10-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=AGDEX.buildbin-libdir AGDEX_1.34.0.tar.gz && C:\Users\biocbuild\bbs-3.10-bioc\R\bin\R.exe CMD INSTALL AGDEX_1.34.0.zip && rm AGDEX_1.34.0.tar.gz AGDEX_1.34.0.zip
StartedAt: 2020-04-14 18:48:59 -0400 (Tue, 14 Apr 2020)
EndedAt: 2020-04-14 18:49:32 -0400 (Tue, 14 Apr 2020)
EllapsedTime: 32.8 seconds
RetCode: 0
Status:  OK  

Command output

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###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O https://malbec1.bioconductor.org/BBS/3.10/bioc/src/contrib/AGDEX_1.34.0.tar.gz && rm -rf AGDEX.buildbin-libdir && mkdir AGDEX.buildbin-libdir && C:\Users\biocbuild\bbs-3.10-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=AGDEX.buildbin-libdir AGDEX_1.34.0.tar.gz && C:\Users\biocbuild\bbs-3.10-bioc\R\bin\R.exe CMD INSTALL AGDEX_1.34.0.zip && rm AGDEX_1.34.0.tar.gz AGDEX_1.34.0.zip
###
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100  330k  100  330k    0     0  7729k      0 --:--:-- --:--:-- --:--:-- 8471k

install for i386

* installing *source* package 'AGDEX' ...
** using staged installation
** 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-3.10-bioc/tmpdir/RtmpWQq39k/R.INSTALLd342a66aea/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-3.10-bioc/tmpdir/RtmpWQq39k/R.INSTALLd342a66aea/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-3.10-bioc/tmpdir/RtmpWQq39k/R.INSTALLd342a66aea/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-3.10-bioc/tmpdir/RtmpWQq39k/R.INSTALLd342a66aea/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-3.10-bioc/tmpdir/RtmpWQq39k/R.INSTALLd342a66aea/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-3.10-bioc/tmpdir/RtmpWQq39k/R.INSTALLd342a66aea/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-3.10-bioc/tmpdir/RtmpWQq39k/R.INSTALLd342a66aea/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 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 'AGDEX' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'AGDEX' as AGDEX_1.34.0.zip
* DONE (AGDEX)
* installing to library 'C:/Users/biocbuild/bbs-3.10-bioc/R/library'
package 'AGDEX' successfully unpacked and MD5 sums checked