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INSTALL report for nucleR on tokay2

This page was generated on 2018-10-17 08:35:33 -0400 (Wed, 17 Oct 2018).

Package 1005/1561HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
nucleR 2.12.1
Ricard Illa
Snapshot Date: 2018-10-15 16:45:08 -0400 (Mon, 15 Oct 2018)
URL: https://git.bioconductor.org/packages/nucleR
Branch: RELEASE_3_7
Last Commit: 8357444
Last Changed Date: 2018-07-05 15:28:34 -0400 (Thu, 05 Jul 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: nucleR
Version: 2.12.1
Command: C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.7/bioc/src/contrib/nucleR_2.12.1.tar.gz && rm -rf nucleR.buildbin-libdir && mkdir nucleR.buildbin-libdir && C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=nucleR.buildbin-libdir nucleR_2.12.1.tar.gz && C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD INSTALL nucleR_2.12.1.zip && rm nucleR_2.12.1.tar.gz nucleR_2.12.1.zip
StartedAt: 2018-10-16 19:40:24 -0400 (Tue, 16 Oct 2018)
EndedAt: 2018-10-16 19:41:26 -0400 (Tue, 16 Oct 2018)
EllapsedTime: 61.9 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/nucleR_2.12.1.tar.gz && rm -rf nucleR.buildbin-libdir && mkdir nucleR.buildbin-libdir && C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=nucleR.buildbin-libdir nucleR_2.12.1.tar.gz && C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD INSTALL nucleR_2.12.1.zip && rm nucleR_2.12.1.tar.gz nucleR_2.12.1.zip
###
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install for i386

* installing *source* package 'nucleR' ...
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'nucleR'
    finding HTML links ... done
    controlCorrection                       html  
    coverage.rpm                            html  
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpyUZHI4/R.INSTALL1fa0655de90/nucleR/man/coverage.rpm.Rd:35: file link 'GRanges' in package 'GenomicRanges' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpyUZHI4/R.INSTALL1fa0655de90/nucleR/man/coverage.rpm.Rd:36: file link 'IRanges' in package 'IRanges' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpyUZHI4/R.INSTALL1fa0655de90/nucleR/man/coverage.rpm.Rd:23: file link 'GenomicRanges' in package 'GenomicRanges' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpyUZHI4/R.INSTALL1fa0655de90/nucleR/man/coverage.rpm.Rd:23: file link 'IRanges' in package 'IRanges' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpyUZHI4/R.INSTALL1fa0655de90/nucleR/man/coverage.rpm.Rd:52: file link 'coverage' in package 'IRanges' does not exist and so has been treated as a topic
    export.bed                              html  
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpyUZHI4/R.INSTALL1fa0655de90/nucleR/man/export.bed.Rd:28: file link 'IRanges' in package 'IRanges' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpyUZHI4/R.INSTALL1fa0655de90/nucleR/man/export.bed.Rd:29: file link 'IRangesList' in package 'IRanges' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpyUZHI4/R.INSTALL1fa0655de90/nucleR/man/export.bed.Rd:29: file link 'GRanges' in package 'GenomicRanges' does not exist and so has been treated as a topic
    export.wig                              html  
    filterFFT                               html  
    fragmentLenDetect                       html  
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpyUZHI4/R.INSTALL1fa0655de90/nucleR/man/fragmentLenDetect.Rd:27: file link 'GRanges' in package 'GenomicRanges' does not exist and so has been treated as a topic
    mergeCalls                              html  
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpyUZHI4/R.INSTALL1fa0655de90/nucleR/man/mergeCalls.Rd:16: file link 'GRanges' in package 'GenomicRanges' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpyUZHI4/R.INSTALL1fa0655de90/nucleR/man/mergeCalls.Rd:28: file link 'GRanges' in package 'GenomicRanges' does not exist and so has been treated as a topic
    nucleR-package                          html  
    nucleosome_htseq                        html  
    nucleosome_tiling                       html  
    pcKeepCompDetect                        html  
    peakDetection                           html  
    peakScoring                             html  
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpyUZHI4/R.INSTALL1fa0655de90/nucleR/man/peakScoring.Rd:63: file link 'GRanges' in package 'GenomicRanges' does not exist and so has been treated as a topic
    plotPeaks                               html  
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpyUZHI4/R.INSTALL1fa0655de90/nucleR/man/plotPeaks.Rd:67: file link 'geom_rect' in package 'ggplot2' does not exist and so has been treated as a topic
    processReads                            html  
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpyUZHI4/R.INSTALL1fa0655de90/nucleR/man/processReads.Rd:29: file link 'GRanges' in package 'GenomicRanges' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpyUZHI4/R.INSTALL1fa0655de90/nucleR/man/processReads.Rd:54: file link 'GRanges' in package 'GenomicRanges' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpyUZHI4/R.INSTALL1fa0655de90/nucleR/man/processReads.Rd:44: file link 'GRanges' in package 'GenomicRanges' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpyUZHI4/R.INSTALL1fa0655de90/nucleR/man/processReads.Rd:114: file link 'GRanges' in package 'GenomicRanges' does not exist and so has been treated as a topic
    processTilingArray                      html  
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpyUZHI4/R.INSTALL1fa0655de90/nucleR/man/processTilingArray.Rd:123: file link 'ExpressionSet' in package 'Biobase' does not exist and so has been treated as a topic
    readBAM                                 html  
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpyUZHI4/R.INSTALL1fa0655de90/nucleR/man/readBAM.Rd:16: file link 'GRangesList' in package 'GenomicRanges' does not exist and so has been treated as a topic
    readBowtie                              html  
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpyUZHI4/R.INSTALL1fa0655de90/nucleR/man/readBowtie.Rd:16: file link 'GRangesList' in package 'GenomicRanges' does not exist and so has been treated as a topic
    syntheticNucMap                         html  
** building package indices
** installing vignettes
** testing if installed package can be loaded
In R CMD INSTALL

install for x64

* installing *source* package 'nucleR' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'nucleR' as nucleR_2.12.1.zip
* DONE (nucleR)
In R CMD INSTALL
In R CMD INSTALL
* installing to library 'C:/Users/biocbuild/bbs-3.7-bioc/R/library'
package 'nucleR' successfully unpacked and MD5 sums checked
In R CMD INSTALL