Armen R. Karapetyan
| Snapshot Date: 2020-04-14 16:46:13 -0400 (Tue, 14 Apr 2020) |
| URL: https://git.bioconductor.org/packages/transcriptR |
| Branch: RELEASE_3_10 |
| Last Commit: 894be86 |
| Last Changed Date: 2019-10-29 13:09:31 -0400 (Tue, 29 Oct 2019) |
| Back to Multiple platform build/check report for BioC 3.10 |
|
This page was generated on 2020-04-15 12:25:51 -0400 (Wed, 15 Apr 2020).
| Package 1745/1823 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| transcriptR 1.14.0 Armen R. Karapetyan
| malbec1 | Linux (Ubuntu 18.04.4 LTS) / x86_64 | OK | OK | OK | | ||||||
| tokay1 | Windows Server 2012 R2 Standard / x64 | [ OK ] | OK | WARNINGS | OK | | ||||||
| merida1 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK | |
| Package: transcriptR |
| Version: 1.14.0 |
| Command: C:\cygwin\bin\curl.exe -O https://malbec1.bioconductor.org/BBS/3.10/bioc/src/contrib/transcriptR_1.14.0.tar.gz && rm -rf transcriptR.buildbin-libdir && mkdir transcriptR.buildbin-libdir && C:\Users\biocbuild\bbs-3.10-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=transcriptR.buildbin-libdir transcriptR_1.14.0.tar.gz && C:\Users\biocbuild\bbs-3.10-bioc\R\bin\R.exe CMD INSTALL transcriptR_1.14.0.zip && rm transcriptR_1.14.0.tar.gz transcriptR_1.14.0.zip |
| StartedAt: 2020-04-14 20:00:25 -0400 (Tue, 14 Apr 2020) |
| EndedAt: 2020-04-14 20:01:32 -0400 (Tue, 14 Apr 2020) |
| EllapsedTime: 67.5 seconds |
| RetCode: 0 |
| Status: OK |
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### Running command:
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### C:\cygwin\bin\curl.exe -O https://malbec1.bioconductor.org/BBS/3.10/bioc/src/contrib/transcriptR_1.14.0.tar.gz && rm -rf transcriptR.buildbin-libdir && mkdir transcriptR.buildbin-libdir && C:\Users\biocbuild\bbs-3.10-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=transcriptR.buildbin-libdir transcriptR_1.14.0.tar.gz && C:\Users\biocbuild\bbs-3.10-bioc\R\bin\R.exe CMD INSTALL transcriptR_1.14.0.zip && rm transcriptR_1.14.0.tar.gz transcriptR_1.14.0.zip
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install for i386
* installing *source* package 'transcriptR' ...
** using staged installation
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package 'transcriptR'
finding HTML links ... done
ChipDataSet-class html
Rd warning: C:/Users/biocbuild/bbs-3.10-bioc/tmpdir/RtmpuAYumc/R.INSTALL2008225251d6/transcriptR/man/ChipDataSet-class.Rd:15: file link 'GRanges' in package 'GenomicRanges' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.10-bioc/tmpdir/RtmpuAYumc/R.INSTALL2008225251d6/transcriptR/man/ChipDataSet-class.Rd:17: file link 'GRanges' in package 'GenomicRanges' does not exist and so has been treated as a topic
TranscriptionDataSet-class html
Rd warning: C:/Users/biocbuild/bbs-3.10-bioc/tmpdir/RtmpuAYumc/R.INSTALL2008225251d6/transcriptR/man/TranscriptionDataSet-class.Rd:18: file link 'GRanges' in package 'GenomicRanges' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.10-bioc/tmpdir/RtmpuAYumc/R.INSTALL2008225251d6/transcriptR/man/TranscriptionDataSet-class.Rd:23: file link 'GRanges' in package 'GenomicRanges' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.10-bioc/tmpdir/RtmpuAYumc/R.INSTALL2008225251d6/transcriptR/man/TranscriptionDataSet-class.Rd:26: file link 'RleList' in package 'IRanges' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.10-bioc/tmpdir/RtmpuAYumc/R.INSTALL2008225251d6/transcriptR/man/TranscriptionDataSet-class.Rd:29: file link 'RleList' in package 'IRanges' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.10-bioc/tmpdir/RtmpuAYumc/R.INSTALL2008225251d6/transcriptR/man/TranscriptionDataSet-class.Rd:43: file link 'GRanges' in package 'GenomicRanges' does not exist and so has been treated as a topic
addFeature-methods html
annot html
finding level-2 HTML links ... done
annotateTranscripts-methods html
Rd warning: C:/Users/biocbuild/bbs-3.10-bioc/tmpdir/RtmpuAYumc/R.INSTALL2008225251d6/transcriptR/man/annotateTranscripts-methods.Rd:17: file link 'GRanges' in package 'GenomicRanges' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.10-bioc/tmpdir/RtmpuAYumc/R.INSTALL2008225251d6/transcriptR/man/annotateTranscripts-methods.Rd:24: file link 'GRanges' in package 'GenomicRanges' does not exist and so has been treated as a topic
breakTranscriptsByPeaks-methods html
Rd warning: C:/Users/biocbuild/bbs-3.10-bioc/tmpdir/RtmpuAYumc/R.INSTALL2008225251d6/transcriptR/man/breakTranscriptsByPeaks-methods.Rd:25: file link 'GRanges' in package 'GenomicRanges' does not exist and so has been treated as a topic
cds html
constructCDS html
Rd warning: C:/Users/biocbuild/bbs-3.10-bioc/tmpdir/RtmpuAYumc/R.INSTALL2008225251d6/transcriptR/man/constructCDS.Rd:18: file link 'GRanges' in package 'GenomicRanges' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.10-bioc/tmpdir/RtmpuAYumc/R.INSTALL2008225251d6/transcriptR/man/constructCDS.Rd:22: file link 'TxDb' in package 'GenomicFeatures' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.10-bioc/tmpdir/RtmpuAYumc/R.INSTALL2008225251d6/transcriptR/man/constructCDS.Rd:44: file link 'ScanBamParam' in package 'Rsamtools' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.10-bioc/tmpdir/RtmpuAYumc/R.INSTALL2008225251d6/transcriptR/man/constructCDS.Rd:65: file link 'GRanges' in package 'GenomicRanges' does not exist and so has been treated as a topic
constructTDS html
Rd warning: C:/Users/biocbuild/bbs-3.10-bioc/tmpdir/RtmpuAYumc/R.INSTALL2008225251d6/transcriptR/man/constructTDS.Rd:13: file link 'GRanges' in package 'GenomicRanges' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.10-bioc/tmpdir/RtmpuAYumc/R.INSTALL2008225251d6/transcriptR/man/constructTDS.Rd:29: file link 'ScanBamParam' in package 'Rsamtools' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.10-bioc/tmpdir/RtmpuAYumc/R.INSTALL2008225251d6/transcriptR/man/constructTDS.Rd:49: file link 'coverage' in package 'IRanges' does not exist and so has been treated as a topic
detectTranscripts-methods html
Rd warning: C:/Users/biocbuild/bbs-3.10-bioc/tmpdir/RtmpuAYumc/R.INSTALL2008225251d6/transcriptR/man/detectTranscripts-methods.Rd:42: file link 'GRanges' in package 'GenomicRanges' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.10-bioc/tmpdir/RtmpuAYumc/R.INSTALL2008225251d6/transcriptR/man/detectTranscripts-methods.Rd:47: file link 'GRanges' in package 'GenomicRanges' does not exist and so has been treated as a topic
estimateBackground-methods html
estimateGapDistance-methods html
Rd warning: C:/Users/biocbuild/bbs-3.10-bioc/tmpdir/RtmpuAYumc/R.INSTALL2008225251d6/transcriptR/man/estimateGapDistance-methods.Rd:20: file link 'GRanges' in package 'GenomicRanges' does not exist and so has been treated as a topic
exportCoverage-methods html
getConfusionMatrix-methods html
getGenomicAnnot-methods html
getPeaks-methods html
Rd warning: C:/Users/biocbuild/bbs-3.10-bioc/tmpdir/RtmpuAYumc/R.INSTALL2008225251d6/transcriptR/man/getPeaks-methods.Rd:17: file link 'GRanges' in package 'GenomicRanges' does not exist and so has been treated as a topic
getPredictorSignificance-methods html
getProbTreshold-methods html
getQuadProb-methods html
getTestedGapDistances-methods html
getTranscripts-methods html
Rd warning: C:/Users/biocbuild/bbs-3.10-bioc/tmpdir/RtmpuAYumc/R.INSTALL2008225251d6/transcriptR/man/getTranscripts-methods.Rd:26: file link 'GRanges' in package 'GenomicRanges' does not exist and so has been treated as a topic
peaksToBed-methods html
plotErrorRate-methods html
plotFeatures-methods html
plotGenomicAnnot-methods html
plotROC-methods html
predictStrand-methods html
predictTssOverlap-methods html
show html
tds html
transcriptsToBed-methods 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 'transcriptR' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'transcriptR' as transcriptR_1.14.0.zip
* DONE (transcriptR)
* installing to library 'C:/Users/biocbuild/bbs-3.10-bioc/R/library'
package 'transcriptR' successfully unpacked and MD5 sums checked