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INSTALL report for segmentSeq on tokay2

This page was generated on 2019-10-16 12:23:26 -0400 (Wed, 16 Oct 2019).

Package 1483/1741HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
segmentSeq 2.18.0
Thomas J. Hardcastle
Snapshot Date: 2019-10-15 17:01:26 -0400 (Tue, 15 Oct 2019)
URL: https://git.bioconductor.org/packages/segmentSeq
Branch: RELEASE_3_9
Last Commit: a799d33
Last Changed Date: 2019-05-02 11:53:13 -0400 (Thu, 02 May 2019)
malbec2 Linux (Ubuntu 18.04.2 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
celaya2 OS X 10.11.6 El Capitan / x86_64  OK  OK  OK  OK UNNEEDED, same version exists in internal repository

Summary

Package: segmentSeq
Version: 2.18.0
Command: C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.9/bioc/src/contrib/segmentSeq_2.18.0.tar.gz && rm -rf segmentSeq.buildbin-libdir && mkdir segmentSeq.buildbin-libdir && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=segmentSeq.buildbin-libdir segmentSeq_2.18.0.tar.gz && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL segmentSeq_2.18.0.zip && rm segmentSeq_2.18.0.tar.gz segmentSeq_2.18.0.zip
StartedAt: 2019-10-15 20:16:57 -0400 (Tue, 15 Oct 2019)
EndedAt: 2019-10-15 20:18:31 -0400 (Tue, 15 Oct 2019)
EllapsedTime: 93.5 seconds
RetCode: 0
Status:  OK  

Command output

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###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.9/bioc/src/contrib/segmentSeq_2.18.0.tar.gz && rm -rf segmentSeq.buildbin-libdir && mkdir segmentSeq.buildbin-libdir && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=segmentSeq.buildbin-libdir segmentSeq_2.18.0.tar.gz && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL segmentSeq_2.18.0.zip && rm segmentSeq_2.18.0.tar.gz segmentSeq_2.18.0.zip
###
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100 2355k  100 2355k    0     0  22.6M      0 --:--:-- --:--:-- --:--:-- 24.2M

install for i386

* installing *source* package 'segmentSeq' ...
** using staged installation
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'segmentSeq'
    finding HTML links ... done
    SL                                      html  
    alignmentClass-class                    html  
    alignmentData-class                     html  
    alignmentMeth-class                     html  
    averageMethylationRegions               html  
    finding level-2 HTML links ... done

    classifySeg                             html  
Rd warning: C:/Users/biocbuild/bbs-3.9-bioc/tmpdir/RtmpWOT3zp/R.INSTALL12cc7f7c2e09/segmentSeq/man/classifySeg.Rd:45: file link 'getPriors.NB' in package 'baySeq' does not exist and so has been treated as a topic
    findChunks                              html  
    getCounts                               html  
    getOverlaps                             html  
    givenExpression                         html  
    hSL                                     html  
    heuristicSeg                            html  
    lociData-class                          html  
    lociLikelihoods                         html  
Rd warning: C:/Users/biocbuild/bbs-3.9-bioc/tmpdir/RtmpWOT3zp/R.INSTALL12cc7f7c2e09/segmentSeq/man/lociLikelihoods.Rd:27: file link 'getLikelihoods.NB' in package 'baySeq' does not exist and so has been treated as a topic
    mergeMethSegs                           html  
    methData-class                          html  
    normaliseNC                             html  
    plotGenome                              html  
    plotMeth                                html  
    plotMethDistribution                    html  
    processAD                               html  
    readMethods                             html  
    readMeths                               html  
    segClass-class                          html  
Rd warning: C:/Users/biocbuild/bbs-3.9-bioc/tmpdir/RtmpWOT3zp/R.INSTALL12cc7f7c2e09/segmentSeq/man/segClass-class.Rd:23: file link 'GRanges' in package 'GenomicRanges' does not exist and so has been treated as a topic
    segData-class                           html  
Rd warning: C:/Users/biocbuild/bbs-3.9-bioc/tmpdir/RtmpWOT3zp/R.INSTALL12cc7f7c2e09/segmentSeq/man/segData-class.Rd:25: file link 'GRanges' in package 'GenomicRanges' does not exist and so has been treated as a topic
    segMeth-class                           html  
Rd warning: C:/Users/biocbuild/bbs-3.9-bioc/tmpdir/RtmpWOT3zp/R.INSTALL12cc7f7c2e09/segmentSeq/man/segMeth-class.Rd:25: file link 'GRanges' in package 'GenomicRanges' does not exist and so has been treated as a topic
    segmentSeq-package                      html  
    selectLoci                              html  
    summariseLoci                           html  
    thresholdFinder                         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 'segmentSeq' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'segmentSeq' as segmentSeq_2.18.0.zip
* DONE (segmentSeq)
* installing to library 'C:/Users/biocbuild/bbs-3.9-bioc/R/library'
package 'segmentSeq' successfully unpacked and MD5 sums checked