Back to Multiple platform build/check report for BioC 3.13
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This page was generated on 2021-10-15 15:05:34 -0400 (Fri, 15 Oct 2021).

CHECK results for a4Base on nebbiolo1

To the developers/maintainers of the a4Base package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/a4Base.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.

raw results

Package 2/2041HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
a4Base 1.40.0  (landing page)
Laure Cougnaud
Snapshot Date: 2021-10-14 04:50:12 -0400 (Thu, 14 Oct 2021)
git_url: https://git.bioconductor.org/packages/a4Base
git_branch: RELEASE_3_13
git_last_commit: b2cd105
git_last_commit_date: 2021-05-19 11:48:16 -0400 (Wed, 19 May 2021)
nebbiolo1Linux (Ubuntu 20.04.2 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
tokay2Windows Server 2012 R2 Standard / x64  OK    OK    OK    OK  UNNEEDED, same version is already published
machv2macOS 10.14.6 Mojave / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published

Summary

Package: a4Base
Version: 1.40.0
Command: /home/biocbuild/bbs-3.13-bioc/R/bin/R CMD check --install=check:a4Base.install-out.txt --library=/home/biocbuild/bbs-3.13-bioc/R/library --no-vignettes --timings a4Base_1.40.0.tar.gz
StartedAt: 2021-10-14 08:49:31 -0400 (Thu, 14 Oct 2021)
EndedAt: 2021-10-14 08:52:20 -0400 (Thu, 14 Oct 2021)
EllapsedTime: 168.7 seconds
RetCode: 0
Status:   OK  
CheckDir: a4Base.Rcheck
Warnings: 0

Command output

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### Running command:
###
###   /home/biocbuild/bbs-3.13-bioc/R/bin/R CMD check --install=check:a4Base.install-out.txt --library=/home/biocbuild/bbs-3.13-bioc/R/library --no-vignettes --timings a4Base_1.40.0.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.13-bioc/meat/a4Base.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 ‘a4Base/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘a4Base’ version ‘1.40.0’
* checking package namespace information ... OK
* checking package dependencies ... NOTE
Package which this enhances but not available for checking: ‘JavaGD’
* 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 ‘a4Base’ can be installed ... OK
* checking installed package size ... OK
* checking package 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 contents of ‘data’ directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking examples ... OK
Examples with CPU (user + system) or elapsed time > 5s
              user system elapsed
spectralMap 10.702  0.263  10.967
* checking PDF version of manual ... OK
* DONE

Status: 1 NOTE
See
  ‘/home/biocbuild/bbs-3.13-bioc/meat/a4Base.Rcheck/00check.log’
for details.



Installation output

a4Base.Rcheck/00install.out

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###
### Running command:
###
###   /home/biocbuild/bbs-3.13-bioc/R/bin/R CMD INSTALL a4Base
###
##############################################################################
##############################################################################


* installing to library ‘/home/biocbuild/bbs-3.13-bioc/R/library’
* installing *source* package ‘a4Base’ ...
** using staged installation
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** 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 (a4Base)

Tests output


Example timings

a4Base.Rcheck/a4Base-Ex.timings

nameusersystemelapsed
a4palette0.0260.0000.026
addQuantilesColors2.1290.2232.353
boxPlot2.6650.0592.725
combineTwoExpressionSet0.0000.0000.001
computeLogRatio4.4300.1724.602
createExpressionSet0.0290.0000.029
filterVarInt1.650.061.71
heatmap.expressionSet0.0000.0020.002
histPvalue2.2960.0612.357
histpvalueplotter1.6810.0311.713
lassoReg1.7750.0361.812
logReg000
nlcvTT000
plot1gene1.6880.0521.740
plotComb2Samples1.7910.0391.831
plotCombMultSamples3.0550.0843.138
plotCombination2genes2.5170.0642.582
plotLogRatio4.0250.0684.093
probabilitiesPlot0.0000.0000.001
probe2gene1.6060.0341.641
profilesPlot1.7990.0831.884
propdegenescalculation2.3770.0722.449
replicates0.0010.0000.002
spectralMap10.702 0.26310.967
tTest2.0740.0572.131
volcanoPlot2.2740.0712.346