Michael Lawrence
| Snapshot Date: 2020-04-14 16:46:13 -0400 (Tue, 14 Apr 2020) |
| URL: https://git.bioconductor.org/packages/VariantTools |
| Branch: RELEASE_3_10 |
| Last Commit: 589d65e |
| Last Changed Date: 2020-04-10 17:28:45 -0400 (Fri, 10 Apr 2020) |
| Back to Multiple platform build/check report for BioC 3.10 |
|
This page was generated on 2020-04-15 12:21:06 -0400 (Wed, 15 Apr 2020).
| Package 1787/1823 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| VariantTools 1.28.1 Michael Lawrence
| malbec1 | Linux (Ubuntu 18.04.4 LTS) / x86_64 | OK | OK | WARNINGS | | ||||||
| tokay1 | Windows Server 2012 R2 Standard / x64 | OK | OK | WARNINGS | [ OK ] | | ||||||
| merida1 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | WARNINGS | OK | |
| Package: VariantTools |
| Version: 1.28.1 |
| Command: rm -rf VariantTools.buildbin-libdir && mkdir VariantTools.buildbin-libdir && C:\Users\biocbuild\bbs-3.10-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=VariantTools.buildbin-libdir VariantTools_1.28.1.tar.gz |
| StartedAt: 2020-04-15 09:52:48 -0400 (Wed, 15 Apr 2020) |
| EndedAt: 2020-04-15 09:53:58 -0400 (Wed, 15 Apr 2020) |
| EllapsedTime: 69.7 seconds |
| RetCode: 0 |
| Status: OK |
| PackageFile: VariantTools_1.28.1.zip |
| PackageFileSize: 6.297 MiB |
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### Running command:
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### rm -rf VariantTools.buildbin-libdir && mkdir VariantTools.buildbin-libdir && C:\Users\biocbuild\bbs-3.10-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=VariantTools.buildbin-libdir VariantTools_1.28.1.tar.gz
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install for i386
* installing *source* package 'VariantTools' ...
** using staged installation
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package 'VariantTools'
finding HTML links ... done
FilterConstructors html
annnotateWithControlDepth html
callGenotypes html
callSampleSpecificVariants html
callVariants html
Rd warning: C:/Users/biocbuild/bbs-3.10-bioc/tmpdir/RtmpgLbdbV/R.INSTALL3ed87555f4a/VariantTools/man/callVariants.Rd:84: file link 'FilterRules' in package 'S4Vectors' does not exist and so has been treated as a topic
callWildtype html
concordance html
extractCoverageForPositions html
Rd warning: C:/Users/biocbuild/bbs-3.10-bioc/tmpdir/RtmpgLbdbV/R.INSTALL3ed87555f4a/VariantTools/man/extractCoverageForPositions.Rd:16: file link 'coverage' in package 'IRanges' does not exist and so has been treated as a topic
matchVariants html
pileupVariants html
Rd warning: C:/Users/biocbuild/bbs-3.10-bioc/tmpdir/RtmpgLbdbV/R.INSTALL3ed87555f4a/VariantTools/man/pileupVariants.Rd:21: file link 'PileupFiles' in package 'Rsamtools' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.10-bioc/tmpdir/RtmpgLbdbV/R.INSTALL3ed87555f4a/VariantTools/man/pileupVariants.Rd:28: file link 'ApplyPileupsParam' in package 'Rsamtools' does not exist and so has been treated as a topic
postFilterVariants html
Rd warning: C:/Users/biocbuild/bbs-3.10-bioc/tmpdir/RtmpgLbdbV/R.INSTALL3ed87555f4a/VariantTools/man/postFilterVariants.Rd:50: file link 'FilterRules' in package 'S4Vectors' does not exist and so has been treated as a topic
qaVariants html
Rd warning: C:/Users/biocbuild/bbs-3.10-bioc/tmpdir/RtmpgLbdbV/R.INSTALL3ed87555f4a/VariantTools/man/qaVariants.Rd:51: file link 'FilterRules' in package 'S4Vectors' does not exist and so has been treated as a topic
tallyVariants html
finding level-2 HTML links ... done
Rd warning: C:/Users/biocbuild/bbs-3.10-bioc/tmpdir/RtmpgLbdbV/R.INSTALL3ed87555f4a/VariantTools/man/tallyVariants.Rd:60: file link 'stackSamples' in package 'VariantAnnotation' does not exist and so has been treated as a topic
variantGR2Vcf html
Rd warning: C:/Users/biocbuild/bbs-3.10-bioc/tmpdir/RtmpgLbdbV/R.INSTALL3ed87555f4a/VariantTools/man/variantGR2Vcf.Rd:8: file link 'VCF' in package 'VariantAnnotation' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.10-bioc/tmpdir/RtmpgLbdbV/R.INSTALL3ed87555f4a/VariantTools/man/variantGR2Vcf.Rd:10: file link 'writeVcf' in package 'VariantAnnotation' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.10-bioc/tmpdir/RtmpgLbdbV/R.INSTALL3ed87555f4a/VariantTools/man/variantGR2Vcf.Rd:19: file link 'VRanges' in package 'VariantAnnotation' does not exist and so has been treated as a topic
vignette 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 'VariantTools' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'VariantTools' as VariantTools_1.28.1.zip
* DONE (VariantTools)