Back to Multiple platform build/check report for BioC 3.13 |
|
This page was generated on 2021-10-15 15:05:44 -0400 (Fri, 15 Oct 2021).
To the developers/maintainers of the LymphoSeq package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/LymphoSeq.git to reflect on this report. See How and When does the builder pull? When will my changes propagate? here for more information. - Make sure to use the following settings in order to reproduce any error or warning you see on this page. |
Package 1009/2041 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
LymphoSeq 1.20.0 (landing page) David Coffey
| nebbiolo1 | Linux (Ubuntu 20.04.2 LTS) / x86_64 | OK | OK | OK | |||||||||
tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | OK | OK | |||||||||
machv2 | macOS 10.14.6 Mojave / x86_64 | OK | OK | OK | OK | |||||||||
Package: LymphoSeq |
Version: 1.20.0 |
Command: /home/biocbuild/bbs-3.13-bioc/R/bin/R CMD check --install=check:LymphoSeq.install-out.txt --library=/home/biocbuild/bbs-3.13-bioc/R/library --no-vignettes --timings LymphoSeq_1.20.0.tar.gz |
StartedAt: 2021-10-14 10:24:29 -0400 (Thu, 14 Oct 2021) |
EndedAt: 2021-10-14 10:27:31 -0400 (Thu, 14 Oct 2021) |
EllapsedTime: 181.9 seconds |
RetCode: 0 |
Status: OK |
CheckDir: LymphoSeq.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.13-bioc/R/bin/R CMD check --install=check:LymphoSeq.install-out.txt --library=/home/biocbuild/bbs-3.13-bioc/R/library --no-vignettes --timings LymphoSeq_1.20.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.13-bioc/meat/LymphoSeq.Rcheck’ * using R version 4.1.1 (2021-08-10) * using platform: x86_64-pc-linux-gnu (64-bit) * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘LymphoSeq/DESCRIPTION’ ... OK * this is package ‘LymphoSeq’ version ‘1.20.0’ * checking package namespace information ... OK * checking package dependencies ... OK * checking if this is a source package ... OK * checking if there is a namespace ... OK * checking for hidden files and directories ... OK * checking for portable file names ... OK * checking for sufficient/correct file permissions ... OK * checking whether package ‘LymphoSeq’ can be installed ... OK * checking installed package size ... OK * checking package directory ... OK * checking ‘build’ directory ... OK * checking DESCRIPTION meta-information ... OK * checking top-level files ... OK * checking for left-over files ... OK * checking index information ... OK * checking package subdirectories ... OK * checking R files for non-ASCII characters ... OK * checking R files for syntax errors ... OK * checking whether the package can be loaded ... OK * checking whether the package can be loaded with stated dependencies ... OK * checking whether the package can be unloaded cleanly ... OK * checking whether the namespace can be loaded with stated dependencies ... OK * checking whether the namespace can be unloaded cleanly ... OK * checking dependencies in R code ... OK * checking S3 generic/method consistency ... OK * checking replacement functions ... OK * checking foreign function calls ... OK * checking R code for possible problems ... OK * checking Rd files ... OK * checking Rd metadata ... OK * checking Rd cross-references ... OK * checking for missing documentation entries ... OK * checking for code/documentation mismatches ... OK * checking Rd \usage sections ... OK * checking Rd contents ... OK * checking for unstated dependencies in examples ... OK * checking files in ‘vignettes’ ... OK * checking examples ... OK Examples with CPU (user + system) or elapsed time > 5s user system elapsed cloneTrack 28.189 1.872 30.068 productiveSeq 17.898 1.268 19.166 * checking for unstated dependencies in vignettes ... OK * checking package vignettes in ‘inst/doc’ ... OK * checking running R code from vignettes ... SKIPPED * checking re-building of vignette outputs ... SKIPPED * checking PDF version of manual ... OK * DONE Status: OK
LymphoSeq.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.13-bioc/R/bin/R CMD INSTALL LymphoSeq ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.13-bioc/R/library’ * installing *source* package ‘LymphoSeq’ ... ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** 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 * DONE (LymphoSeq)
LymphoSeq.Rcheck/LymphoSeq-Ex.timings
name | user | system | elapsed | |
alignSeq | 0.671 | 0.063 | 0.748 | |
bhattacharyyaCoefficient | 0.177 | 0.016 | 0.211 | |
bhattacharyyaMatrix | 0.172 | 0.008 | 0.180 | |
chordDiagramVDJ | 0.760 | 0.012 | 0.772 | |
clonalRelatedness | 0.756 | 0.000 | 0.401 | |
clonality | 0.052 | 0.004 | 0.056 | |
cloneTrack | 28.189 | 1.872 | 30.068 | |
commonSeqs | 0.132 | 0.036 | 0.168 | |
commonSeqsBar | 0.752 | 0.088 | 0.840 | |
commonSeqsPlot | 0.304 | 0.052 | 0.356 | |
commonSeqsVenn | 0.709 | 0.072 | 0.780 | |
differentialAbundance | 2.490 | 0.312 | 2.804 | |
exportFasta | 0.223 | 0.008 | 0.231 | |
geneFreq | 1.167 | 0.040 | 1.207 | |
lorenzCurve | 0.870 | 0.008 | 0.879 | |
mergeFiles | 0.071 | 0.004 | 0.075 | |
pairwisePlot | 0.525 | 0.008 | 0.533 | |
phyloTree | 4.434 | 0.156 | 4.590 | |
productive | 0.062 | 0.000 | 0.062 | |
productiveSeq | 17.898 | 1.268 | 19.166 | |
readImmunoSeq | 0.054 | 0.000 | 0.054 | |
removeSeq | 0.062 | 0.000 | 0.062 | |
searchPublished | 0.167 | 0.012 | 0.179 | |
searchSeq | 0.793 | 0.015 | 0.809 | |
seqMatrix | 2.388 | 0.200 | 2.588 | |
similarityMatrix | 0.149 | 0.008 | 0.157 | |
similarityScore | 0.130 | 0.008 | 0.138 | |
topFreq | 1.667 | 0.120 | 1.787 | |
topSeqs | 1.335 | 0.148 | 1.483 | |
topSeqsPlot | 0.291 | 0.004 | 0.295 | |
uniqueSeqs | 0.175 | 0.008 | 0.183 | |