H. Pagès
| Snapshot Date: 2019-04-08 17:01:18 -0400 (Mon, 08 Apr 2019) |
| URL: https://git.bioconductor.org/packages/SplicingGraphs |
| Branch: master |
| Last Commit: 4d72c72 |
| Last Changed Date: 2019-03-04 13:39:51 -0400 (Mon, 04 Mar 2019) |
| Back to Multiple platform build/check report for BioC 3.9 |
|
This page was generated on 2019-04-09 12:04:07 -0400 (Tue, 09 Apr 2019).
| Package 1542/1703 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| SplicingGraphs 1.23.3 H. Pagès
| malbec2 | Linux (Ubuntu 18.04.2 LTS) / x86_64 | OK | OK | WARNINGS | | ||||||
| tokay2 | Windows Server 2012 R2 Standard / x64 | [ OK ] | OK | WARNINGS | OK | | ||||||
| celaya2 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | WARNINGS | OK | | ||||||
| merida2 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | WARNINGS | OK |
| Package: SplicingGraphs |
| Version: 1.23.3 |
| Command: C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.9/bioc/src/contrib/SplicingGraphs_1.23.3.tar.gz && rm -rf SplicingGraphs.buildbin-libdir && mkdir SplicingGraphs.buildbin-libdir && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=SplicingGraphs.buildbin-libdir SplicingGraphs_1.23.3.tar.gz && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL SplicingGraphs_1.23.3.zip && rm SplicingGraphs_1.23.3.tar.gz SplicingGraphs_1.23.3.zip |
| StartedAt: 2019-04-08 20:23:46 -0400 (Mon, 08 Apr 2019) |
| EndedAt: 2019-04-08 20:24:55 -0400 (Mon, 08 Apr 2019) |
| EllapsedTime: 68.6 seconds |
| RetCode: 0 |
| Status: OK |
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###
### Running command:
###
### C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.9/bioc/src/contrib/SplicingGraphs_1.23.3.tar.gz && rm -rf SplicingGraphs.buildbin-libdir && mkdir SplicingGraphs.buildbin-libdir && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=SplicingGraphs.buildbin-libdir SplicingGraphs_1.23.3.tar.gz && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL SplicingGraphs_1.23.3.zip && rm SplicingGraphs_1.23.3.tar.gz SplicingGraphs_1.23.3.zip
###
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% Total % Received % Xferd Average Speed Time Time Time Current
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100 45.5M 100 45.5M 0 0 66.8M 0 --:--:-- --:--:-- --:--:-- 67.5M
install for i386
* installing *source* package 'SplicingGraphs' ...
** R
** inst
** byte-compile and prepare package for lazy loading
Warning: replacing previous import 'IRanges::from' by 'Rgraphviz::from' when loading 'SplicingGraphs'
Warning: replacing previous import 'IRanges::to' by 'Rgraphviz::to' when loading 'SplicingGraphs'
** help
*** installing help indices
converting help for package 'SplicingGraphs'
finding HTML links ... done
SplicingGraphs-class html
Rd warning: C:/Users/biocbuild/bbs-3.9-bioc/tmpdir/RtmpGOT1ky/R.INSTALL1abc23177c4/SplicingGraphs/man/SplicingGraphs-class.Rd:69: 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/RtmpGOT1ky/R.INSTALL1abc23177c4/SplicingGraphs/man/SplicingGraphs-class.Rd:71: file link 'TxDb' in package 'GenomicFeatures' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.9-bioc/tmpdir/RtmpGOT1ky/R.INSTALL1abc23177c4/SplicingGraphs/man/SplicingGraphs-class.Rd:97: 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/RtmpGOT1ky/R.INSTALL1abc23177c4/SplicingGraphs/man/SplicingGraphs-class.Rd:106: 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/RtmpGOT1ky/R.INSTALL1abc23177c4/SplicingGraphs/man/SplicingGraphs-class.Rd:123: 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/RtmpGOT1ky/R.INSTALL1abc23177c4/SplicingGraphs/man/SplicingGraphs-class.Rd:124: file link 'TxDb' in package 'GenomicFeatures' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.9-bioc/tmpdir/RtmpGOT1ky/R.INSTALL1abc23177c4/SplicingGraphs/man/SplicingGraphs-class.Rd:126: 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/RtmpGOT1ky/R.INSTALL1abc23177c4/SplicingGraphs/man/SplicingGraphs-class.Rd:130: file link 'TxDb' in package 'GenomicFeatures' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.9-bioc/tmpdir/RtmpGOT1ky/R.INSTALL1abc23177c4/SplicingGraphs/man/SplicingGraphs-class.Rd:131: 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/RtmpGOT1ky/R.INSTALL1abc23177c4/SplicingGraphs/man/SplicingGraphs-class.Rd:135: 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/RtmpGOT1ky/R.INSTALL1abc23177c4/SplicingGraphs/man/SplicingGraphs-class.Rd:137: 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/RtmpGOT1ky/R.INSTALL1abc23177c4/SplicingGraphs/man/SplicingGraphs-class.Rd:145: file link 'IntegerList' in package 'IRanges' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.9-bioc/tmpdir/RtmpGOT1ky/R.INSTALL1abc23177c4/SplicingGraphs/man/SplicingGraphs-class.Rd:145: file link 'CharacterList' in package 'IRanges' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.9-bioc/tmpdir/RtmpGOT1ky/R.INSTALL1abc23177c4/SplicingGraphs/man/SplicingGraphs-class.Rd:151: 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/RtmpGOT1ky/R.INSTALL1abc23177c4/SplicingGraphs/man/SplicingGraphs-class.Rd:159: 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/RtmpGOT1ky/R.INSTALL1abc23177c4/SplicingGraphs/man/SplicingGraphs-class.Rd:160: 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/RtmpGOT1ky/R.INSTALL1abc23177c4/SplicingGraphs/man/SplicingGraphs-class.Rd:163: 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/RtmpGOT1ky/R.INSTALL1abc23177c4/SplicingGraphs/man/SplicingGraphs-class.Rd:188: 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/RtmpGOT1ky/R.INSTALL1abc23177c4/SplicingGraphs/man/SplicingGraphs-class.Rd:189: file link 'TxDb' in package 'GenomicFeatures' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.9-bioc/tmpdir/RtmpGOT1ky/R.INSTALL1abc23177c4/SplicingGraphs/man/SplicingGraphs-class.Rd:220: 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/RtmpGOT1ky/R.INSTALL1abc23177c4/SplicingGraphs/man/SplicingGraphs-class.Rd:222: file link 'TxDb' in package 'GenomicFeatures' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.9-bioc/tmpdir/RtmpGOT1ky/R.INSTALL1abc23177c4/SplicingGraphs/man/SplicingGraphs-class.Rd:225: 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/RtmpGOT1ky/R.INSTALL1abc23177c4/SplicingGraphs/man/SplicingGraphs-class.Rd:228: file link 'IntegerList' in package 'IRanges' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.9-bioc/tmpdir/RtmpGOT1ky/R.INSTALL1abc23177c4/SplicingGraphs/man/SplicingGraphs-class.Rd:228: file link 'CharacterList' in package 'IRanges' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.9-bioc/tmpdir/RtmpGOT1ky/R.INSTALL1abc23177c4/SplicingGraphs/man/SplicingGraphs-class.Rd:231: file link 'DataFrame' in package 'S4Vectors' does not exist and so has been treated as a topic
SplicingGraphs-package html
TSPCsg html
assignReads html
Rd warning: C:/Users/biocbuild/bbs-3.9-bioc/tmpdir/RtmpGOT1ky/R.INSTALL1abc23177c4/SplicingGraphs/man/assignReads.Rd:30: 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/RtmpGOT1ky/R.INSTALL1abc23177c4/SplicingGraphs/man/assignReads.Rd:31: 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/RtmpGOT1ky/R.INSTALL1abc23177c4/SplicingGraphs/man/assignReads.Rd:32: 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/RtmpGOT1ky/R.INSTALL1abc23177c4/SplicingGraphs/man/assignReads.Rd:51: file link 'readGAlignmentPairs' in package 'GenomicAlignments' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.9-bioc/tmpdir/RtmpGOT1ky/R.INSTALL1abc23177c4/SplicingGraphs/man/assignReads.Rd:69: file link 'readGAlignmentPairs' in package 'GenomicAlignments' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.9-bioc/tmpdir/RtmpGOT1ky/R.INSTALL1abc23177c4/SplicingGraphs/man/assignReads.Rd:74: file link 'scanBamFlag' in package 'Rsamtools' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.9-bioc/tmpdir/RtmpGOT1ky/R.INSTALL1abc23177c4/SplicingGraphs/man/assignReads.Rd:75: file link 'ScanBamParam' in package 'Rsamtools' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.9-bioc/tmpdir/RtmpGOT1ky/R.INSTALL1abc23177c4/SplicingGraphs/man/assignReads.Rd:86: file link 'scanBamFlag' in package 'Rsamtools' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.9-bioc/tmpdir/RtmpGOT1ky/R.INSTALL1abc23177c4/SplicingGraphs/man/assignReads.Rd:112: 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/RtmpGOT1ky/R.INSTALL1abc23177c4/SplicingGraphs/man/assignReads.Rd:115: 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/RtmpGOT1ky/R.INSTALL1abc23177c4/SplicingGraphs/man/assignReads.Rd:116: 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/RtmpGOT1ky/R.INSTALL1abc23177c4/SplicingGraphs/man/assignReads.Rd:118: file link 'readGAlignmentPairs' in package 'GenomicAlignments' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.9-bioc/tmpdir/RtmpGOT1ky/R.INSTALL1abc23177c4/SplicingGraphs/man/assignReads.Rd:122: file link 'ScanBamParam' in package 'Rsamtools' does not exist and so has been treated as a topic
bubbles-methods html
countReads-methods html
Rd warning: C:/Users/biocbuild/bbs-3.9-bioc/tmpdir/RtmpGOT1ky/R.INSTALL1abc23177c4/SplicingGraphs/man/countReads-methods.Rd:116: file link 'DataFrame' in package 'S4Vectors' does not exist and so has been treated as a topic
plotTranscripts-methods html
Rd warning: C:/Users/biocbuild/bbs-3.9-bioc/tmpdir/RtmpGOT1ky/R.INSTALL1abc23177c4/SplicingGraphs/man/plotTranscripts-methods.Rd:26: 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/RtmpGOT1ky/R.INSTALL1abc23177c4/SplicingGraphs/man/plotTranscripts-methods.Rd:28: file link 'TxDb' in package 'GenomicFeatures' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.9-bioc/tmpdir/RtmpGOT1ky/R.INSTALL1abc23177c4/SplicingGraphs/man/plotTranscripts-methods.Rd:32: 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/RtmpGOT1ky/R.INSTALL1abc23177c4/SplicingGraphs/man/plotTranscripts-methods.Rd:33: 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/RtmpGOT1ky/R.INSTALL1abc23177c4/SplicingGraphs/man/plotTranscripts-methods.Rd:66: 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/RtmpGOT1ky/R.INSTALL1abc23177c4/SplicingGraphs/man/plotTranscripts-methods.Rd:69: 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/RtmpGOT1ky/R.INSTALL1abc23177c4/SplicingGraphs/man/plotTranscripts-methods.Rd:70: 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/RtmpGOT1ky/R.INSTALL1abc23177c4/SplicingGraphs/man/plotTranscripts-methods.Rd:73: file link 'TxDb' in package 'GenomicFeatures' does not exist and so has been treated as a topic
rsgedgesByGene-methods html
Rd warning: C:/Users/biocbuild/bbs-3.9-bioc/tmpdir/RtmpGOT1ky/R.INSTALL1abc23177c4/SplicingGraphs/man/rsgedgesByGene-methods.Rd:81: file link 'GRangesList' in package 'GenomicRanges' does not exist and so has been treated as a topic
sgedges-methods html
sgedgesByGene-methods html
Rd warning: C:/Users/biocbuild/bbs-3.9-bioc/tmpdir/RtmpGOT1ky/R.INSTALL1abc23177c4/SplicingGraphs/man/sgedgesByGene-methods.Rd:21: 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/RtmpGOT1ky/R.INSTALL1abc23177c4/SplicingGraphs/man/sgedgesByGene-methods.Rd:27: 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/RtmpGOT1ky/R.INSTALL1abc23177c4/SplicingGraphs/man/sgedgesByGene-methods.Rd:63: file link 'GRangesList' in package 'GenomicRanges' does not exist and so has been treated as a topic
sgraph-methods html
toy_data html
Rd warning: C:/Users/biocbuild/bbs-3.9-bioc/tmpdir/RtmpGOT1ky/R.INSTALL1abc23177c4/SplicingGraphs/man/toy_data.Rd:36: 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/RtmpGOT1ky/R.INSTALL1abc23177c4/SplicingGraphs/man/toy_data.Rd:39: 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/RtmpGOT1ky/R.INSTALL1abc23177c4/SplicingGraphs/man/toy_data.Rd:40: 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/RtmpGOT1ky/R.INSTALL1abc23177c4/SplicingGraphs/man/toy_data.Rd:44: file link 'TxDb' in package 'GenomicFeatures' does not exist and so has been treated as a topic
txpath-methods html
Rd warning: C:/Users/biocbuild/bbs-3.9-bioc/tmpdir/RtmpGOT1ky/R.INSTALL1abc23177c4/SplicingGraphs/man/txpath-methods.Rd:35: 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/RtmpGOT1ky/R.INSTALL1abc23177c4/SplicingGraphs/man/txpath-methods.Rd:69: 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/RtmpGOT1ky/R.INSTALL1abc23177c4/SplicingGraphs/man/txpath-methods.Rd:72: 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/RtmpGOT1ky/R.INSTALL1abc23177c4/SplicingGraphs/man/txpath-methods.Rd:73: 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/RtmpGOT1ky/R.INSTALL1abc23177c4/SplicingGraphs/man/txpath-methods.Rd:82: file link 'ScanBamParam' in package 'Rsamtools' does not exist and so has been treated as a topic
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
Warning: replacing previous import 'IRanges::from' by 'Rgraphviz::from' when loading 'SplicingGraphs'
Warning: replacing previous import 'IRanges::to' by 'Rgraphviz::to' when loading 'SplicingGraphs'
** testing if installed package can be loaded from final location
Warning: replacing previous import 'IRanges::from' by 'Rgraphviz::from' when loading 'SplicingGraphs'
Warning: replacing previous import 'IRanges::to' by 'Rgraphviz::to' when loading 'SplicingGraphs'
** testing if installed package keeps a record of temporary installation path
install for x64
* installing *source* package 'SplicingGraphs' ...
** testing if installed package can be loaded
Warning: replacing previous import 'IRanges::from' by 'Rgraphviz::from' when loading 'SplicingGraphs'
Warning: replacing previous import 'IRanges::to' by 'Rgraphviz::to' when loading 'SplicingGraphs'
* MD5 sums
packaged installation of 'SplicingGraphs' as SplicingGraphs_1.23.3.zip
* DONE (SplicingGraphs)
* installing to library 'C:/Users/biocbuild/bbs-3.9-bioc/R/library'
package 'SplicingGraphs' successfully unpacked and MD5 sums checked