Back to Multiple platform build/check report for BioC 3.13 |
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This page was generated on 2021-10-15 15:05:52 -0400 (Fri, 15 Oct 2021).
To the developers/maintainers of the segmentSeq package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/segmentSeq.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 1724/2041 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
segmentSeq 2.26.0 (landing page) Thomas J. Hardcastle
| 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: segmentSeq |
Version: 2.26.0 |
Command: /home/biocbuild/bbs-3.13-bioc/R/bin/R CMD check --install=check:segmentSeq.install-out.txt --library=/home/biocbuild/bbs-3.13-bioc/R/library --no-vignettes --timings segmentSeq_2.26.0.tar.gz |
StartedAt: 2021-10-14 11:33:40 -0400 (Thu, 14 Oct 2021) |
EndedAt: 2021-10-14 11:39:17 -0400 (Thu, 14 Oct 2021) |
EllapsedTime: 337.4 seconds |
RetCode: 0 |
Status: OK |
CheckDir: segmentSeq.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.13-bioc/R/bin/R CMD check --install=check:segmentSeq.install-out.txt --library=/home/biocbuild/bbs-3.13-bioc/R/library --no-vignettes --timings segmentSeq_2.26.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.13-bioc/meat/segmentSeq.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 ‘segmentSeq/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘segmentSeq’ version ‘2.26.0’ * 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 ‘segmentSeq’ 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 ... NOTE heuristicSeg : <anonymous>: no visible binding for global variable ‘sDP’ Undefined global functions or variables: sDP * 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 contents of ‘data’ directory ... OK * checking data for non-ASCII characters ... OK * checking data for ASCII and uncompressed saves ... OK * checking files in ‘vignettes’ ... OK * checking examples ... OK Examples with CPU (user + system) or elapsed time > 5s user system elapsed classifySeg 40.144 0.404 40.549 lociLikelihoods 18.024 0.156 18.181 heuristicSeg 16.939 0.136 17.075 plotGenome 9.103 0.068 9.171 getCounts 6.797 0.064 6.861 segData-class 5.710 0.060 5.770 segmentSeq-package 5.589 0.052 5.641 processAD 5.379 0.044 5.424 alignmentData-class 5.339 0.044 5.385 * 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: 1 NOTE See ‘/home/biocbuild/bbs-3.13-bioc/meat/segmentSeq.Rcheck/00check.log’ for details.
segmentSeq.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.13-bioc/R/bin/R CMD INSTALL segmentSeq ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.13-bioc/R/library’ * installing *source* package ‘segmentSeq’ ... ** using staged installation ** R ** data ** 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 (segmentSeq)
segmentSeq.Rcheck/segmentSeq-Ex.timings
name | user | system | elapsed | |
alignmentData-class | 5.339 | 0.044 | 5.385 | |
classifySeg | 40.144 | 0.404 | 40.549 | |
findChunks | 4.189 | 0.040 | 4.230 | |
getCounts | 6.797 | 0.064 | 6.861 | |
getOverlaps | 4.658 | 0.040 | 4.698 | |
heuristicSeg | 16.939 | 0.136 | 17.075 | |
lociLikelihoods | 18.024 | 0.156 | 18.181 | |
normaliseNC | 3.891 | 0.124 | 4.024 | |
plotGenome | 9.103 | 0.068 | 9.171 | |
processAD | 5.379 | 0.044 | 5.424 | |
readMethods | 4.160 | 0.044 | 4.204 | |
readMeths | 2.737 | 0.064 | 2.801 | |
segData-class | 5.71 | 0.06 | 5.77 | |
segmentSeq-package | 5.589 | 0.052 | 5.641 | |
thresholdFinder | 2.757 | 0.108 | 2.866 | |