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INSTALL report for stageR on tokay2

This page was generated on 2020-10-17 11:57:52 -0400 (Sat, 17 Oct 2020).

TO THE DEVELOPERS/MAINTAINERS OF THE stageR PACKAGE: Please make sure to use the following settings in order to reproduce any error or warning you see on this page.
Package 1739/1905HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
stageR 1.10.0
Koen Van den Berge
Snapshot Date: 2020-10-16 14:40:19 -0400 (Fri, 16 Oct 2020)
URL: https://git.bioconductor.org/packages/stageR
Branch: RELEASE_3_11
Last Commit: c821d27
Last Changed Date: 2020-04-27 15:11:40 -0400 (Mon, 27 Apr 2020)
malbec2 Linux (Ubuntu 18.04.4 LTS) / x86_64  OK  OK  WARNINGS UNNEEDED, same version exists in internal repository
tokay2 Windows Server 2012 R2 Standard / x64 [ OK ] OK  WARNINGS  NA 
machv2 macOS 10.14.6 Mojave / x86_64  OK  OK  WARNINGS  OK UNNEEDED, same version exists in internal repository

Summary

Package: stageR
Version: 1.10.0
Command: C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.11/bioc/src/contrib/stageR_1.10.0.tar.gz && rm -rf stageR.buildbin-libdir && mkdir stageR.buildbin-libdir && C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=stageR.buildbin-libdir stageR_1.10.0.tar.gz && C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD INSTALL stageR_1.10.0.zip && rm stageR_1.10.0.tar.gz stageR_1.10.0.zip
StartedAt: 2020-10-16 18:20:38 -0400 (Fri, 16 Oct 2020)
EndedAt: 2020-10-16 18:21:29 -0400 (Fri, 16 Oct 2020)
EllapsedTime: 51.0 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/stageR_1.10.0.tar.gz && rm -rf stageR.buildbin-libdir && mkdir stageR.buildbin-libdir && C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=stageR.buildbin-libdir stageR_1.10.0.tar.gz && C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD INSTALL stageR_1.10.0.zip && rm stageR_1.10.0.tar.gz stageR_1.10.0.zip
###
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100  909k  100  909k    0     0  5334k      0 --:--:-- --:--:-- --:--:-- 5547k

install for i386

* installing *source* package 'stageR' ...
** 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 'stageR'
    finding HTML links ... done
    adjustedAlphaLevel                      html  
    esetProstate                            html  
    getAdjustedPValues                      html  
    finding level-2 HTML links ... done

Rd warning: C:/Users/biocbuild/bbs-3.11-bioc/tmpdir/RtmpsVHDsz/R.INSTALL211013686b52/stageR/man/getAdjustedPValues.Rd:34: missing link 'stageWiseAdjustment,stageR,character,numeric-method'
    getAlpha                                html  
    getMethod                               html  
    getPConfirmation                        html  
    getPScreen                              html  
    getResults                              html  
    getSignificantGenes                     html  
    getSignificantTx                        html  
    getTx2gene                              html  
    hammer.eset                             html  
    isAdjusted                              html  
    isPScreenAdjusted                       html  
    stageR                                  html  
    stageRClass                             html  
Rd warning: C:/Users/biocbuild/bbs-3.11-bioc/tmpdir/RtmpsVHDsz/R.INSTALL211013686b52/stageR/man/stageRClass.Rd:19: missing link 'getAdjustedPValues,stageR,logical,logical-method'
Rd warning: C:/Users/biocbuild/bbs-3.11-bioc/tmpdir/RtmpsVHDsz/R.INSTALL211013686b52/stageR/man/stageRClass.Rd:19: missing link 'getResults,stageR-method'
    stageRTx                                html  
    stageWiseAdjustment                     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 'stageR' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'stageR' as stageR_1.10.0.zip
* DONE (stageR)
* installing to library 'C:/Users/biocbuild/bbs-3.11-bioc/R/library'
package 'stageR' successfully unpacked and MD5 sums checked