H. Pagès
| Snapshot Date: 2019-04-12 17:01:30 -0400 (Fri, 12 Apr 2019) |
| URL: https://git.bioconductor.org/packages/BSgenome |
| Branch: RELEASE_3_8 |
| Last Commit: 4391075 |
| Last Changed Date: 2018-10-30 11:41:43 -0400 (Tue, 30 Oct 2018) |
| Back to Multiple platform build/check report for BioC 3.8 |
|
This page was generated on 2019-04-13 11:19:57 -0400 (Sat, 13 Apr 2019).
| Package 180/1649 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| BSgenome 1.50.0 H. Pagès
| malbec1 | Linux (Ubuntu 16.04.6 LTS) / x86_64 | OK | OK | WARNINGS | | ||||||
| tokay1 | Windows Server 2012 R2 Standard / x64 | OK | OK | ERROR | [ OK ] | |||||||
| merida1 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | WARNINGS | OK | |
| Package: BSgenome |
| Version: 1.50.0 |
| Command: rm -rf BSgenome.buildbin-libdir && mkdir BSgenome.buildbin-libdir && C:\Users\biocbuild\bbs-3.8-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=BSgenome.buildbin-libdir BSgenome_1.50.0.tar.gz |
| StartedAt: 2019-04-13 06:59:22 -0400 (Sat, 13 Apr 2019) |
| EndedAt: 2019-04-13 07:00:24 -0400 (Sat, 13 Apr 2019) |
| EllapsedTime: 62.5 seconds |
| RetCode: 0 |
| Status: OK |
| PackageFile: BSgenome_1.50.0.zip |
| PackageFileSize: 7.067 MiB |
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###
### Running command:
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### rm -rf BSgenome.buildbin-libdir && mkdir BSgenome.buildbin-libdir && C:\Users\biocbuild\bbs-3.8-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=BSgenome.buildbin-libdir BSgenome_1.50.0.tar.gz
###
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install for i386
* installing *source* package 'BSgenome' ...
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package 'BSgenome'
finding HTML links ... done
BSParams-class html
finding level-2 HTML links ... done
BSgenome-class html
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpaU7M3p/R.INSTALLa3041155971/BSgenome/man/BSgenome-class.Rd:46: file link 'GenomeDescription' in package 'GenomeInfoDb' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpaU7M3p/R.INSTALLa3041155971/BSgenome/man/BSgenome-class.Rd:47: file link 'GenomeDescription' in package 'GenomeInfoDb' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpaU7M3p/R.INSTALLa3041155971/BSgenome/man/BSgenome-class.Rd:58: file link 'DNAString' in package 'Biostrings' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpaU7M3p/R.INSTALLa3041155971/BSgenome/man/BSgenome-class.Rd:59: file link 'MaskedDNAString' in package 'Biostrings' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpaU7M3p/R.INSTALLa3041155971/BSgenome/man/BSgenome-class.Rd:68: file link 'length,XVector-method' in package 'XVector' does not exist and so has been treated as a topic
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Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpaU7M3p/R.INSTALLa3041155971/BSgenome/man/BSgenome-class.Rd:70: file link 'DNAString' in package 'Biostrings' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpaU7M3p/R.INSTALLa3041155971/BSgenome/man/BSgenome-class.Rd:71: file link 'MaskedDNAString' in package 'Biostrings' does not exist and so has been treated as a topic
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BSgenome-utils html
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Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpaU7M3p/R.INSTALLa3041155971/BSgenome/man/BSgenome-utils.Rd:121: file link 'DataFrame' in package 'S4Vectors' does not exist and so has been treated as a topic
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BSgenomeForge html
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BSgenomeViews-class html
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Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpaU7M3p/R.INSTALLa3041155971/BSgenome/man/BSgenomeViews-class.Rd:136: file link 'oligonucleotideFrequency' in package 'Biostrings' does not exist and so has been treated as a topic
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Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpaU7M3p/R.INSTALLa3041155971/BSgenome/man/BSgenomeViews-class.Rd:148: file link 'consensusMatrix' in package 'Biostrings' does not exist and so has been treated as a topic
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Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpaU7M3p/R.INSTALLa3041155971/BSgenome/man/BSgenomeViews-class.Rd:215: file link 'DNAStringSet' in package 'Biostrings' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpaU7M3p/R.INSTALLa3041155971/BSgenome/man/BSgenomeViews-class.Rd:241: file link 'DNAStringSet' in package 'Biostrings' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpaU7M3p/R.INSTALLa3041155971/BSgenome/man/BSgenomeViews-class.Rd:245: file link 'DNAStringSet' in package 'Biostrings' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpaU7M3p/R.INSTALLa3041155971/BSgenome/man/BSgenomeViews-class.Rd:246: file link 'DNAStringSet' in package 'Biostrings' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpaU7M3p/R.INSTALLa3041155971/BSgenome/man/BSgenomeViews-class.Rd:249: file link 'seqtype' in package 'Biostrings' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpaU7M3p/R.INSTALLa3041155971/BSgenome/man/BSgenomeViews-class.Rd:250: file link 'nchar,XStringSet-method' in package 'Biostrings' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpaU7M3p/R.INSTALLa3041155971/BSgenome/man/BSgenomeViews-class.Rd:251: file link 'unlist,XStringSet-method' in package 'Biostrings' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpaU7M3p/R.INSTALLa3041155971/BSgenome/man/BSgenomeViews-class.Rd:252: file link 'alphabetFrequency' in package 'Biostrings' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpaU7M3p/R.INSTALLa3041155971/BSgenome/man/BSgenomeViews-class.Rd:253: file link 'hasOnlyBaseLetters' in package 'Biostrings' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpaU7M3p/R.INSTALLa3041155971/BSgenome/man/BSgenomeViews-class.Rd:254: file link 'uniqueLetters' in package 'Biostrings' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpaU7M3p/R.INSTALLa3041155971/BSgenome/man/BSgenomeViews-class.Rd:256: file link 'oligonucleotideFrequency' in package 'Biostrings' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpaU7M3p/R.INSTALLa3041155971/BSgenome/man/BSgenomeViews-class.Rd:257: file link 'nucleotideFrequencyAt' in package 'Biostrings' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpaU7M3p/R.INSTALLa3041155971/BSgenome/man/BSgenomeViews-class.Rd:258: file link 'consensusMatrix' in package 'Biostrings' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpaU7M3p/R.INSTALLa3041155971/BSgenome/man/BSgenomeViews-class.Rd:259: file link 'consensusString' in package 'Biostrings' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpaU7M3p/R.INSTALLa3041155971/BSgenome/man/BSgenomeViews-class.Rd:271: file link 'GRanges' in package 'GenomicRanges' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpaU7M3p/R.INSTALLa3041155971/BSgenome/man/BSgenomeViews-class.Rd:274: file link 'DNAStringSet' in package 'Biostrings' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpaU7M3p/R.INSTALLa3041155971/BSgenome/man/BSgenomeViews-class.Rd:281: file link 'TxDb' in package 'GenomicFeatures' does not exist and so has been treated as a topic
SNPlocs-class html
Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpaU7M3p/R.INSTALLa3041155971/BSgenome/man/SNPlocs-class.Rd:111: file link 'subsetByOverlaps' in package 'IRanges' does not exist and so has been treated as a topic
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Rd warning: C:/Users/biocbuild/bbs-3.8-bioc/tmpdir/RtmpaU7M3p/R.INSTALLa3041155971/BSgenome/man/SNPlocs-class.Rd:178: file link 'subsetByOverlaps' in package 'IRanges' does not exist and so has been treated as a topic
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XtraSNPlocs-class html
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available.genomes html
bsapply html
export-methods html
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getSeq-methods html
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injectSNPs html
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** building package indices
** installing vignettes
** testing if installed package can be loaded
In R CMD INSTALL
install for x64
* installing *source* package 'BSgenome' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'BSgenome' as BSgenome_1.50.0.zip
* DONE (BSgenome)
In R CMD INSTALL
In R CMD INSTALL