Package: RaggedExperiment

Version: 1.7.5

Command: C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.9/bioc/src/contrib/RaggedExperiment_1.7.5.tar.gz && rm -rf RaggedExperiment.buildbin-libdir && mkdir RaggedExperiment.buildbin-libdir && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=RaggedExperiment.buildbin-libdir RaggedExperiment_1.7.5.tar.gz && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL RaggedExperiment_1.7.5.zip && rm RaggedExperiment_1.7.5.tar.gz RaggedExperiment_1.7.5.zip

StartedAt: 2019-04-08 19:45:33 -0400 (Mon, 08 Apr 2019)

EndedAt: 2019-04-08 19:46:20 -0400 (Mon, 08 Apr 2019)

EllapsedTime: 47.0 seconds

RetCode: 0

Status:  OK

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### Running command:
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###   C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.9/bioc/src/contrib/RaggedExperiment_1.7.5.tar.gz && rm -rf RaggedExperiment.buildbin-libdir && mkdir RaggedExperiment.buildbin-libdir && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=RaggedExperiment.buildbin-libdir RaggedExperiment_1.7.5.tar.gz && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL RaggedExperiment_1.7.5.zip && rm RaggedExperiment_1.7.5.tar.gz RaggedExperiment_1.7.5.zip
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install for i386

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

Rd warning: C:/Users/biocbuild/bbs-3.9-bioc/tmpdir/RtmpiQTWWH/R.INSTALL1f0837bd7c53/RaggedExperiment/man/RaggedExperiment-class.Rd:107: 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/RtmpiQTWWH/R.INSTALL1f0837bd7c53/RaggedExperiment/man/RaggedExperiment-class.Rd:131: 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/RtmpiQTWWH/R.INSTALL1f0837bd7c53/RaggedExperiment/man/RaggedExperiment-class.Rd:132: file link 'GAlignmentPairs' in package 'GenomicAlignments' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.9-bioc/tmpdir/RtmpiQTWWH/R.INSTALL1f0837bd7c53/RaggedExperiment/man/RaggedExperiment-class.Rd:133: file link 'GAlignmentsList' in package 'GenomicAlignments' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.9-bioc/tmpdir/RtmpiQTWWH/R.INSTALL1f0837bd7c53/RaggedExperiment/man/RaggedExperiment-class.Rd:142: 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/RtmpiQTWWH/R.INSTALL1f0837bd7c53/RaggedExperiment/man/RaggedExperiment-class.Rd:144: file link 'exonsBy' in package 'GenomicFeatures' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.9-bioc/tmpdir/RtmpiQTWWH/R.INSTALL1f0837bd7c53/RaggedExperiment/man/RaggedExperiment-class.Rd:157: 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/RtmpiQTWWH/R.INSTALL1f0837bd7c53/RaggedExperiment/man/RaggedExperiment-class.Rd:162: 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/RtmpiQTWWH/R.INSTALL1f0837bd7c53/RaggedExperiment/man/RaggedExperiment-class.Rd:163: file link 'GAlignments' in package 'GenomicAlignments' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.9-bioc/tmpdir/RtmpiQTWWH/R.INSTALL1f0837bd7c53/RaggedExperiment/man/RaggedExperiment-class.Rd:172: 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/RtmpiQTWWH/R.INSTALL1f0837bd7c53/RaggedExperiment/man/RaggedExperiment-class.Rd:405: file link 'SimpleList' in package 'S4Vectors' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.9-bioc/tmpdir/RtmpiQTWWH/R.INSTALL1f0837bd7c53/RaggedExperiment/man/RaggedExperiment-class.Rd:419: file link 'DataFrame' in package 'S4Vectors' does not exist and so has been treated as a topic
    RaggedExperiment-package                html  
    assay-functions                         html  
    coerce-functions                        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 'RaggedExperiment' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'RaggedExperiment' as RaggedExperiment_1.7.5.zip
* DONE (RaggedExperiment)
* installing to library 'C:/Users/biocbuild/bbs-3.9-bioc/R/library'
package 'RaggedExperiment' successfully unpacked and MD5 sums checked