Biocore Data Team
| Snapshot Date: 2018-10-15 16:45:08 -0400 (Mon, 15 Oct 2018) |
| URL: https://git.bioconductor.org/packages/OrganismDbi |
| Branch: RELEASE_3_7 |
| Last Commit: 24e953e |
| Last Changed Date: 2018-04-30 10:35:26 -0400 (Mon, 30 Apr 2018) |
| Back to Multiple platform build/check report for BioC 3.7 |
|
This page was generated on 2018-10-17 08:36:31 -0400 (Wed, 17 Oct 2018).
| Package 1040/1561 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| OrganismDbi 1.22.0 Biocore Data Team
| malbec2 | Linux (Ubuntu 16.04.1 LTS) / x86_64 | OK | OK | OK | | ||||||
| tokay2 | Windows Server 2012 R2 Standard / x64 | [ OK ] | OK | WARNINGS | OK | | ||||||
| merida2 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK | |
| Package: OrganismDbi |
| Version: 1.22.0 |
| Command: C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.7/bioc/src/contrib/OrganismDbi_1.22.0.tar.gz && rm -rf OrganismDbi.buildbin-libdir && mkdir OrganismDbi.buildbin-libdir && C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=OrganismDbi.buildbin-libdir OrganismDbi_1.22.0.tar.gz && C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD INSTALL OrganismDbi_1.22.0.zip && rm OrganismDbi_1.22.0.tar.gz OrganismDbi_1.22.0.zip |
| StartedAt: 2018-10-16 19:57:27 -0400 (Tue, 16 Oct 2018) |
| EndedAt: 2018-10-16 19:58:25 -0400 (Tue, 16 Oct 2018) |
| EllapsedTime: 58.1 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/3.7/bioc/src/contrib/OrganismDbi_1.22.0.tar.gz && rm -rf OrganismDbi.buildbin-libdir && mkdir OrganismDbi.buildbin-libdir && C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=OrganismDbi.buildbin-libdir OrganismDbi_1.22.0.tar.gz && C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD INSTALL OrganismDbi_1.22.0.zip && rm OrganismDbi_1.22.0.tar.gz OrganismDbi_1.22.0.zip
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install for i386
* installing *source* package 'OrganismDbi' ...
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package 'OrganismDbi'
finding HTML links ... done
OrganismDb html
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpKuFDN2/R.INSTALL204045036eac/OrganismDbi/man/OrganismDb.Rd:191: file link 'seqlevels' in package 'GenomeInfoDb' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpKuFDN2/R.INSTALL204045036eac/OrganismDbi/man/OrganismDb.Rd:192: file link 'seqlengths' in package 'GenomeInfoDb' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpKuFDN2/R.INSTALL204045036eac/OrganismDbi/man/OrganismDb.Rd:193: file link 'isCircular' in package 'GenomeInfoDb' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpKuFDN2/R.INSTALL204045036eac/OrganismDbi/man/OrganismDb.Rd:194: file link 'genome' in package 'GenomeInfoDb' does not exist and so has been treated as a topic
coordinate-mapping-method html
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpKuFDN2/R.INSTALL204045036eac/OrganismDbi/man/coordinate-mapping-method.Rd:11: file link 'mapToAlignments' in package 'GenomicAlignments' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpKuFDN2/R.INSTALL204045036eac/OrganismDbi/man/coordinate-mapping-method.Rd:101: file link 'mapToTranscripts' in package 'GenomicFeatures' does not exist and so has been treated as a topic
makeOrganismDbFromBiomart html
finding level-2 HTML links ... done
makeOrganismDbFromTxDb html
makeOrganismDbFromUCSC html
makeOrganismPackage html
rangeBasedAccessors html
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpKuFDN2/R.INSTALL204045036eac/OrganismDbi/man/rangeBasedAccessors.Rd:93: file link 'BSgenome' in package 'BSgenome' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpKuFDN2/R.INSTALL204045036eac/OrganismDbi/man/rangeBasedAccessors.Rd:120: file link 'GRangesList' in package 'GenomicRanges' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpKuFDN2/R.INSTALL204045036eac/OrganismDbi/man/rangeBasedAccessors.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-3.7-bioc/tmpdir/RtmpKuFDN2/R.INSTALL204045036eac/OrganismDbi/man/rangeBasedAccessors.Rd:125: file link 'GRangesList' in package 'GenomicRanges' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpKuFDN2/R.INSTALL204045036eac/OrganismDbi/man/rangeBasedAccessors.Rd:195: file link 'GRangesList' in package 'GenomicRanges' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpKuFDN2/R.INSTALL204045036eac/OrganismDbi/man/rangeBasedAccessors.Rd:196: file link 'BSgenome' in package 'BSgenome' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpKuFDN2/R.INSTALL204045036eac/OrganismDbi/man/rangeBasedAccessors.Rd:197: file link 'GRangesList' in package 'GenomicRanges' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpKuFDN2/R.INSTALL204045036eac/OrganismDbi/man/rangeBasedAccessors.Rd:201: file link 'DNAString' in package 'Biostrings' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpKuFDN2/R.INSTALL204045036eac/OrganismDbi/man/rangeBasedAccessors.Rd:203: file link 'Rle' in package 'S4Vectors' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpKuFDN2/R.INSTALL204045036eac/OrganismDbi/man/rangeBasedAccessors.Rd:206: file link 'Rle' in package 'S4Vectors' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpKuFDN2/R.INSTALL204045036eac/OrganismDbi/man/rangeBasedAccessors.Rd:209: file link 'IntegerRangesList' in package 'IRanges' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpKuFDN2/R.INSTALL204045036eac/OrganismDbi/man/rangeBasedAccessors.Rd:215: file link 'IntegerRangesList' in package 'IRanges' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpKuFDN2/R.INSTALL204045036eac/OrganismDbi/man/rangeBasedAccessors.Rd:225: file link 'GenomicRanges' in package 'GenomicRanges' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpKuFDN2/R.INSTALL204045036eac/OrganismDbi/man/rangeBasedAccessors.Rd:253: file link 'MultiDb-class' in package 'OrganismDbi' does not exist and so has been treated as a topic
** building package indices
** installing vignettes
** testing if installed package can be loaded
In R CMD INSTALL
install for x64
* installing *source* package 'OrganismDbi' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'OrganismDbi' as OrganismDbi_1.22.0.zip
* DONE (OrganismDbi)
In R CMD INSTALL
In R CMD INSTALL
* installing to library 'C:/Users/biocbuild/bbs-3.7-bioc/R/library'
package 'OrganismDbi' successfully unpacked and MD5 sums checked
In R CMD INSTALL