Helen Lindsay
| Snapshot Date: 2020-04-14 16:46:13 -0400 (Tue, 14 Apr 2020) |
| URL: https://git.bioconductor.org/packages/CrispRVariants |
| Branch: RELEASE_3_10 |
| Last Commit: 3b4e3c3 |
| Last Changed Date: 2019-10-29 13:09:32 -0400 (Tue, 29 Oct 2019) |
| Back to Multiple platform build/check report for BioC 3.10 |
|
This page was generated on 2020-04-15 12:25:54 -0400 (Wed, 15 Apr 2020).
| Package 382/1823 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| CrispRVariants 1.14.0 Helen Lindsay
| 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: CrispRVariants |
| Version: 1.14.0 |
| Command: C:\cygwin\bin\curl.exe -O https://malbec1.bioconductor.org/BBS/3.10/bioc/src/contrib/CrispRVariants_1.14.0.tar.gz && rm -rf CrispRVariants.buildbin-libdir && mkdir CrispRVariants.buildbin-libdir && C:\Users\biocbuild\bbs-3.10-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=CrispRVariants.buildbin-libdir CrispRVariants_1.14.0.tar.gz && C:\Users\biocbuild\bbs-3.10-bioc\R\bin\R.exe CMD INSTALL CrispRVariants_1.14.0.zip && rm CrispRVariants_1.14.0.tar.gz CrispRVariants_1.14.0.zip |
| StartedAt: 2020-04-14 19:37:20 -0400 (Tue, 14 Apr 2020) |
| EndedAt: 2020-04-14 19:38:42 -0400 (Tue, 14 Apr 2020) |
| EllapsedTime: 81.3 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/CrispRVariants_1.14.0.tar.gz && rm -rf CrispRVariants.buildbin-libdir && mkdir CrispRVariants.buildbin-libdir && C:\Users\biocbuild\bbs-3.10-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=CrispRVariants.buildbin-libdir CrispRVariants_1.14.0.tar.gz && C:\Users\biocbuild\bbs-3.10-bioc\R\bin\R.exe CMD INSTALL CrispRVariants_1.14.0.zip && rm CrispRVariants_1.14.0.tar.gz CrispRVariants_1.14.0.zip
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install for i386
* installing *source* package 'CrispRVariants' ...
** using staged installation
** R
** data
*** moving datasets to lazyload DB
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package 'CrispRVariants'
finding HTML links ... done
CrisprRun-class html
CrisprSet-class html
abifToFastq html
addClipped html
Rd warning: C:/Users/biocbuild/bbs-3.10-bioc/tmpdir/RtmpuUpMkX/R.INSTALL1e045c8311b8/CrispRVariants/man/addClipped.Rd:19: file link 'GRanges' in package 'GenomicRanges' does not exist and so has been treated as a topic
addCodonFrame html
alleleLabelsHelpers html
alleles html
alns html
annotateGenePlot html
arrangePlots html
barplotAlleleFreqs html
collapsePairs html
consensusSeqs html
dispatchDots html
excludeFromBam html
Rd warning: C:/Users/biocbuild/bbs-3.10-bioc/tmpdir/RtmpuUpMkX/R.INSTALL1e045c8311b8/CrispRVariants/man/excludeFromBam.Rd:12: file link 'GRanges' in package 'GenomicRanges' does not exist and so has been treated as a topic
explodeCigarOpCombs html
findChimeras html
findSNVs html
getAxisCoords html
getChimeras html
getInsertionsTable html
gol_clutch1 html
indelCounts html
indelLabels html
intersperse html
makeAlignmentTilePlot html
mergeChimeras html
mergeCrisprSets html
mismatchLabels html
mutationEfficiency html
narrowAlignments html
plotAlignments html
Rd warning: C:/Users/biocbuild/bbs-3.10-bioc/tmpdir/RtmpuUpMkX/R.INSTALL1e045c8311b8/CrispRVariants/man/plotAlignments.Rd:131: file link 'CrisprSet' in package 'CrispRVariants' does not exist and so has been treated as a topic
plotChimeras html
plotFreqHeatmap html
plotVariants html
rcAlns html
readTargetBam html
readsByPCRPrimer html
Rd warning: C:/Users/biocbuild/bbs-3.10-bioc/tmpdir/RtmpuUpMkX/R.INSTALL1e045c8311b8/CrispRVariants/man/readsByPCRPrimer.Rd:32: file link 'findOverlaps' in package 'GenomicAlignments' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.10-bioc/tmpdir/RtmpuUpMkX/R.INSTALL1e045c8311b8/CrispRVariants/man/readsByPCRPrimer.Rd:33: file link 'disjoin' in package 'GenomicRanges' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.10-bioc/tmpdir/RtmpuUpMkX/R.INSTALL1e045c8311b8/CrispRVariants/man/readsByPCRPrimer.Rd:43: file link 'Hits' in package 'S4Vectors' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.10-bioc/tmpdir/RtmpuUpMkX/R.INSTALL1e045c8311b8/CrispRVariants/man/readsByPCRPrimer.Rd:57: 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/RtmpuUpMkX/R.INSTALL1e045c8311b8/CrispRVariants/man/readsByPCRPrimer.Rd:57: file link 'GAlignments' in package 'GenomicAlignments' does not exist and so has been treated as a topic
readsToTarget html
Rd warning: C:/Users/biocbuild/bbs-3.10-bioc/tmpdir/RtmpuUpMkX/R.INSTALL1e045c8311b8/CrispRVariants/man/readsToTarget.Rd:111: file link 'findOverlaps' in package 'GenomicAlignments' does not exist and so has been treated as a topic
Rd warning: C:/Users/biocbuild/bbs-3.10-bioc/tmpdir/RtmpuUpMkX/R.INSTALL1e045c8311b8/CrispRVariants/man/readsToTarget.Rd:114: file link 'bpparam' in package 'BiocParallel' does not exist and so has been treated as a topic
refFromAlns html
reverseCigar html
rmMultiPCRChimera html
selectAlnRegionsHelpers html
selectOps html
seqsToAln html
setDNATileColours html
setMismatchTileColours html
transformAlnsToLong html
variantCounts html
writeFastq 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 'CrispRVariants' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'CrispRVariants' as CrispRVariants_1.14.0.zip
* DONE (CrispRVariants)
* installing to library 'C:/Users/biocbuild/bbs-3.10-bioc/R/library'
package 'CrispRVariants' successfully unpacked and MD5 sums checked