Back to Multiple platform build/check report for BioC 3.20: simplified long |
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This page was generated on 2024-08-21 11:41 -0400 (Wed, 21 Aug 2024).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo2 | Linux (Ubuntu 22.04.3 LTS) | x86_64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4703 |
palomino8 | Windows Server 2022 Datacenter | x64 | 4.4.1 (2024-06-14 ucrt) -- "Race for Your Life" | 4440 |
lconway | macOS 12.7.1 Monterey | x86_64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4472 |
kjohnson3 | macOS 13.6.5 Ventura | arm64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4421 |
kunpeng2 | Linux (openEuler 22.03 LTS-SP1) | aarch64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4414 |
Click on any hostname to see more info about the system (e.g. compilers) (*) as reported by 'uname -p', except on Windows and Mac OS X |
Package 1112/2255 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
LymphoSeq 1.33.0 (landing page) David Coffey
| nebbiolo2 | Linux (Ubuntu 22.04.3 LTS) / x86_64 | OK | OK | OK | ![]() | ||||||||
palomino8 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | ![]() | ||||||||
lconway | macOS 12.7.1 Monterey / x86_64 | OK | OK | OK | OK | ![]() | ||||||||
kjohnson3 | macOS 13.6.5 Ventura / arm64 | OK | OK | OK | OK | ![]() | ||||||||
kunpeng2 | Linux (openEuler 22.03 LTS-SP1) / aarch64 | OK | OK | OK | ||||||||||
To the developers/maintainers of the LymphoSeq package: - 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 Troubleshooting Build Report for more information. - Use the following Renviron settings to reproduce errors and warnings. - If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information. |
Package: LymphoSeq |
Version: 1.33.0 |
Command: F:\biocbuild\bbs-3.20-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:LymphoSeq.install-out.txt --library=F:\biocbuild\bbs-3.20-bioc\R\library --no-vignettes --timings LymphoSeq_1.33.0.tar.gz |
StartedAt: 2024-08-21 02:11:51 -0400 (Wed, 21 Aug 2024) |
EndedAt: 2024-08-21 02:16:14 -0400 (Wed, 21 Aug 2024) |
EllapsedTime: 262.8 seconds |
RetCode: 0 |
Status: OK |
CheckDir: LymphoSeq.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### F:\biocbuild\bbs-3.20-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:LymphoSeq.install-out.txt --library=F:\biocbuild\bbs-3.20-bioc\R\library --no-vignettes --timings LymphoSeq_1.33.0.tar.gz ### ############################################################################## ############################################################################## * using log directory 'F:/biocbuild/bbs-3.20-bioc/meat/LymphoSeq.Rcheck' * using R version 4.4.1 (2024-06-14 ucrt) * using platform: x86_64-w64-mingw32 * R was compiled by gcc.exe (GCC) 13.2.0 GNU Fortran (GCC) 13.2.0 * running under: Windows Server 2022 x64 (build 20348) * using session charset: UTF-8 * using option '--no-vignettes' * checking for file 'LymphoSeq/DESCRIPTION' ... OK * this is package 'LymphoSeq' version '1.33.0' * 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 whether package 'LymphoSeq' can be installed ... OK * checking installed package size ... NOTE installed size is 5.7Mb sub-directories of 1Mb or more: extdata 5.5Mb * 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 code 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 productiveSeq 36.61 1.31 37.92 cloneTrack 33.05 1.39 36.50 topFreq 6.29 0.14 6.46 phyloTree 5.35 0.05 5.44 * checking for unstated dependencies in vignettes ... OK * checking package vignettes ... OK * checking running R code from vignettes ... SKIPPED * checking re-building of vignette outputs ... SKIPPED * checking PDF version of manual ... OK * DONE Status: 1 NOTE See 'F:/biocbuild/bbs-3.20-bioc/meat/LymphoSeq.Rcheck/00check.log' for details.
LymphoSeq.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### F:\biocbuild\bbs-3.20-bioc\R\bin\R.exe CMD INSTALL LymphoSeq ### ############################################################################## ############################################################################## * installing to library 'F:/biocbuild/bbs-3.20-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 | 0.90 | 0.06 | 1.01 | |
bhattacharyyaCoefficient | 0.23 | 0.02 | 0.30 | |
bhattacharyyaMatrix | 0.29 | 0.01 | 0.30 | |
chordDiagramVDJ | 1.09 | 0.13 | 1.21 | |
clonalRelatedness | 0.64 | 0.01 | 0.38 | |
clonality | 0.08 | 0.02 | 0.09 | |
cloneTrack | 33.05 | 1.39 | 36.50 | |
commonSeqs | 0.20 | 0.05 | 0.28 | |
commonSeqsBar | 2.97 | 0.25 | 3.21 | |
commonSeqsPlot | 0.57 | 0.05 | 0.61 | |
commonSeqsVenn | 0.92 | 0.20 | 1.18 | |
differentialAbundance | 2.53 | 0.19 | 2.71 | |
exportFasta | 0.37 | 0.03 | 0.46 | |
geneFreq | 3.52 | 0.16 | 3.68 | |
lorenzCurve | 1.30 | 0.06 | 1.34 | |
mergeFiles | 0.13 | 0.03 | 0.16 | |
pairwisePlot | 0.72 | 0.06 | 0.81 | |
phyloTree | 5.35 | 0.05 | 5.44 | |
productive | 0.09 | 0.02 | 0.11 | |
productiveSeq | 36.61 | 1.31 | 37.92 | |
readImmunoSeq | 0.08 | 0.00 | 0.09 | |
removeSeq | 0.06 | 0.02 | 0.08 | |
searchPublished | 0.25 | 0.04 | 0.30 | |
searchSeq | 0.69 | 0.03 | 0.73 | |
seqMatrix | 4.73 | 0.14 | 4.87 | |
similarityMatrix | 0.30 | 0.02 | 0.31 | |
similarityScore | 0.19 | 0.05 | 0.25 | |
topFreq | 6.29 | 0.14 | 6.46 | |
topSeqs | 0.24 | 0.03 | 0.29 | |
topSeqsPlot | 0.53 | 0.03 | 0.57 | |
uniqueSeqs | 0.34 | 0.02 | 0.36 | |