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INSTALL report for SummarizedExperiment on tokay2

This page was generated on 2019-04-09 12:24:05 -0400 (Tue, 09 Apr 2019).

Package 1574/1703HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
SummarizedExperiment 1.13.0
Bioconductor Package Maintainer
Snapshot Date: 2019-04-08 17:01:18 -0400 (Mon, 08 Apr 2019)
URL: https://git.bioconductor.org/packages/SummarizedExperiment
Branch: master
Last Commit: eb16339
Last Changed Date: 2018-10-30 11:54:34 -0400 (Tue, 30 Oct 2018)
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
merida2 OS X 10.11.6 El Capitan / x86_64  OK  OK  OK  OK 

Summary

Package: SummarizedExperiment
Version: 1.13.0
Command: C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.9/bioc/src/contrib/SummarizedExperiment_1.13.0.tar.gz && rm -rf SummarizedExperiment.buildbin-libdir && mkdir SummarizedExperiment.buildbin-libdir && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=SummarizedExperiment.buildbin-libdir SummarizedExperiment_1.13.0.tar.gz && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL SummarizedExperiment_1.13.0.zip && rm SummarizedExperiment_1.13.0.tar.gz SummarizedExperiment_1.13.0.zip
StartedAt: 2019-04-08 19:43:21 -0400 (Mon, 08 Apr 2019)
EndedAt: 2019-04-08 19:44:30 -0400 (Mon, 08 Apr 2019)
EllapsedTime: 69.6 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/SummarizedExperiment_1.13.0.tar.gz && rm -rf SummarizedExperiment.buildbin-libdir && mkdir SummarizedExperiment.buildbin-libdir && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=SummarizedExperiment.buildbin-libdir SummarizedExperiment_1.13.0.tar.gz && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL SummarizedExperiment_1.13.0.zip && rm SummarizedExperiment_1.13.0.tar.gz SummarizedExperiment_1.13.0.zip
###
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install for i386

* installing *source* package 'SummarizedExperiment' ...
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'SummarizedExperiment'
    finding HTML links ... done
    Assays-class                            html  
    finding level-2 HTML links ... done

Rd warning: C:/Users/biocbuild/bbs-3.9-bioc/tmpdir/Rtmpuc87EB/R.INSTALL1a285d42488/SummarizedExperiment/man/Assays-class.Rd:118: file link 'SimpleList' in package 'S4Vectors' does not exist and so has been treated as a topic
    RangedSummarizedExperiment-class        html  
Rd warning: C:/Users/biocbuild/bbs-3.9-bioc/tmpdir/Rtmpuc87EB/R.INSTALL1a285d42488/SummarizedExperiment/man/RangedSummarizedExperiment-class.Rd:120: file link 'DataFrame' in package 'S4Vectors' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.9-bioc/tmpdir/Rtmpuc87EB/R.INSTALL1a285d42488/SummarizedExperiment/man/RangedSummarizedExperiment-class.Rd:123: file link 'DataFrame' in package 'S4Vectors' does not exist and so has been treated as a topic
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    SummarizedExperiment-class              html  
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Rd warning: C:/Users/biocbuild/bbs-3.9-bioc/tmpdir/Rtmpuc87EB/R.INSTALL1a285d42488/SummarizedExperiment/man/SummarizedExperiment-class.Rd:425: file link 'metadata' in package 'S4Vectors' does not exist and so has been treated as a topic
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    coverage-methods                        html  
Rd warning: C:/Users/biocbuild/bbs-3.9-bioc/tmpdir/Rtmpuc87EB/R.INSTALL1a285d42488/SummarizedExperiment/man/coverage-methods.Rd:26: file link 'coverage' in package 'GenomicRanges' does not exist and so has been treated as a topic
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Rd warning: C:/Users/biocbuild/bbs-3.9-bioc/tmpdir/Rtmpuc87EB/R.INSTALL1a285d42488/SummarizedExperiment/man/coverage-methods.Rd:40: file link 'coverage' in package 'GenomicRanges' does not exist and so has been treated as a topic
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    findOverlaps-methods                    html  
Rd warning: C:/Users/biocbuild/bbs-3.9-bioc/tmpdir/Rtmpuc87EB/R.INSTALL1a285d42488/SummarizedExperiment/man/findOverlaps-methods.Rd:43: file link 'findOverlaps' in package 'GenomicRanges' does not exist and so has been treated as a topic
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    inter-range-methods                     html  
Rd warning: C:/Users/biocbuild/bbs-3.9-bioc/tmpdir/Rtmpuc87EB/R.INSTALL1a285d42488/SummarizedExperiment/man/inter-range-methods.Rd:30: file link 'isDisjoint' in package 'GenomicRanges' does not exist and so has been treated as a topic
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    intra-range-methods                     html  
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    makeSummarizedExperimentFromDataFrame   html  
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    makeSummarizedExperimentFromExpressionSet
                                            html  
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Rd warning: C:/Users/biocbuild/bbs-3.9-bioc/tmpdir/Rtmpuc87EB/R.INSTALL1a285d42488/SummarizedExperiment/man/makeSummarizedExperimentFromExpressionSet.Rd:45: file link 'GRanges' in package 'GenomicRanges' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.9-bioc/tmpdir/Rtmpuc87EB/R.INSTALL1a285d42488/SummarizedExperiment/man/makeSummarizedExperimentFromExpressionSet.Rd:47: file link 'ExpressionSet' in package 'Biobase' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.9-bioc/tmpdir/Rtmpuc87EB/R.INSTALL1a285d42488/SummarizedExperiment/man/makeSummarizedExperimentFromExpressionSet.Rd:64: file link 'ExpressionSet' in package 'Biobase' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.9-bioc/tmpdir/Rtmpuc87EB/R.INSTALL1a285d42488/SummarizedExperiment/man/makeSummarizedExperimentFromExpressionSet.Rd:70: file link 'ExpressionSet' in package 'Biobase' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.9-bioc/tmpdir/Rtmpuc87EB/R.INSTALL1a285d42488/SummarizedExperiment/man/makeSummarizedExperimentFromExpressionSet.Rd:79: file link 'ExpressionSet' in package 'Biobase' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.9-bioc/tmpdir/Rtmpuc87EB/R.INSTALL1a285d42488/SummarizedExperiment/man/makeSummarizedExperimentFromExpressionSet.Rd:81: file link 'TxDb' in package 'GenomicFeatures' does not exist and so has been treated as a topic
    makeSummarizedExperimentFromLoom        html  
    nearest-methods                         html  
Rd warning: C:/Users/biocbuild/bbs-3.9-bioc/tmpdir/Rtmpuc87EB/R.INSTALL1a285d42488/SummarizedExperiment/man/nearest-methods.Rd:66: file link 'nearest' in package 'GenomicRanges' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.9-bioc/tmpdir/Rtmpuc87EB/R.INSTALL1a285d42488/SummarizedExperiment/man/nearest-methods.Rd:79: file link 'GenomicRanges' in package 'GenomicRanges' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.9-bioc/tmpdir/Rtmpuc87EB/R.INSTALL1a285d42488/SummarizedExperiment/man/nearest-methods.Rd:79: file link 'GRangesList' in package 'GenomicRanges' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.9-bioc/tmpdir/Rtmpuc87EB/R.INSTALL1a285d42488/SummarizedExperiment/man/nearest-methods.Rd:88: file link 'nearest' in package 'GenomicRanges' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.9-bioc/tmpdir/Rtmpuc87EB/R.INSTALL1a285d42488/SummarizedExperiment/man/nearest-methods.Rd:90: file link 'GenomicRanges' in package 'GenomicRanges' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.9-bioc/tmpdir/Rtmpuc87EB/R.INSTALL1a285d42488/SummarizedExperiment/man/nearest-methods.Rd:90: file link 'GRangesList' in package 'GenomicRanges' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.9-bioc/tmpdir/Rtmpuc87EB/R.INSTALL1a285d42488/SummarizedExperiment/man/nearest-methods.Rd:95: file link 'nearest' in package 'GenomicRanges' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.9-bioc/tmpdir/Rtmpuc87EB/R.INSTALL1a285d42488/SummarizedExperiment/man/nearest-methods.Rd:103: file link 'nearest' in package 'GenomicRanges' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.9-bioc/tmpdir/Rtmpuc87EB/R.INSTALL1a285d42488/SummarizedExperiment/man/nearest-methods.Rd:105: file link 'GenomicRanges' in package 'GenomicRanges' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.9-bioc/tmpdir/Rtmpuc87EB/R.INSTALL1a285d42488/SummarizedExperiment/man/nearest-methods.Rd:106: file link 'GRangesList' in package 'GenomicRanges' does not exist and so has been treated as a topic
    readKallisto                            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 'SummarizedExperiment' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'SummarizedExperiment' as SummarizedExperiment_1.13.0.zip
* DONE (SummarizedExperiment)
* installing to library 'C:/Users/biocbuild/bbs-3.9-bioc/R/library'
package 'SummarizedExperiment' successfully unpacked and MD5 sums checked