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CHECK report for RedeR on machv2

This page was generated on 2020-10-17 11:59:22 -0400 (Sat, 17 Oct 2020).

TO THE DEVELOPERS/MAINTAINERS OF THE RedeR PACKAGE: Please make sure to use the following settings in order to reproduce any error or warning you see on this page.
Package 1455/1905HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
RedeR 1.36.0
Mauro Castro
Snapshot Date: 2020-10-16 14:40:19 -0400 (Fri, 16 Oct 2020)
URL: https://git.bioconductor.org/packages/RedeR
Branch: RELEASE_3_11
Last Commit: 36d0aff
Last Changed Date: 2020-04-27 14:26:19 -0400 (Mon, 27 Apr 2020)
malbec2 Linux (Ubuntu 18.04.4 LTS) / x86_64  OK  OK  OK UNNEEDED, same version exists in internal repository
tokay2 Windows Server 2012 R2 Standard / x64  OK  OK  OK  OK UNNEEDED, same version exists in internal repository
machv2 macOS 10.14.6 Mojave / x86_64  OK  OK [ OK ] OK UNNEEDED, same version exists in internal repository

Summary

Package: RedeR
Version: 1.36.0
Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:RedeR.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings RedeR_1.36.0.tar.gz
StartedAt: 2020-10-17 04:27:39 -0400 (Sat, 17 Oct 2020)
EndedAt: 2020-10-17 04:28:40 -0400 (Sat, 17 Oct 2020)
EllapsedTime: 60.8 seconds
RetCode: 0
Status:  OK 
CheckDir: RedeR.Rcheck
Warnings: 0

Command output

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### Running command:
###
###   /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:RedeR.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings RedeR_1.36.0.tar.gz
###
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* using log directory ‘/Users/biocbuild/bbs-3.11-bioc/meat/RedeR.Rcheck’
* using R version 4.0.3 (2020-10-10)
* using platform: x86_64-apple-darwin17.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘RedeR/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘RedeR’ version ‘1.36.0’
* 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 ‘RedeR’ can be installed ... OK
* checking installed package size ... NOTE
  installed size is  8.1Mb
  sub-directories of 1Mb or more:
    data   3.3Mb
    java   4.3Mb
* 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 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
* 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
  ‘/Users/biocbuild/bbs-3.11-bioc/meat/RedeR.Rcheck/00check.log’
for details.



Installation output

RedeR.Rcheck/00install.out

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### Running command:
###
###   /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD INSTALL RedeR
###
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* installing to library ‘/Library/Frameworks/R.framework/Versions/4.0/Resources/library’
* installing *source* package ‘RedeR’ ...
** 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 (RedeR)

Tests output


Example timings

RedeR.Rcheck/RedeR-Ex.timings

nameusersystemelapsed
RedPort-class0.0050.0010.007
RedPort0.0010.0000.001
RedeR.data0.5660.0220.588
addEdgeBetweenContainers0.0160.0010.018
addEdges0.0080.0010.010
addGraph0.0110.0020.013
addLegend0.0080.0010.009
addNodes0.0130.0010.014
addSeries0.0190.0010.020
addSubgraph0.0130.0010.015
addSubgraph.list0.0130.0010.014
att0.0480.0040.053
calld0.0010.0000.001
cea0.0200.0020.023
deSelectEdges0.0140.0020.015
deSelectGraph0.0130.0020.014
deSelectNodes0.0120.0020.014
deleteEdges0.0120.0010.014
deleteNodes0.0130.0010.014
deleteSelectedEdges0.0120.0020.013
deleteSelectedNodes0.0100.0010.011
duplicateGraph0.0120.0010.013
exitd0.0000.0000.001
getContainerComponets0.0140.0010.014
getEdgeIDs0.0120.0010.014
getEdges0.0120.0020.013
getGraph0.0120.0010.013
getNodeIDs0.0110.0000.012
getNodes0.0130.0010.013
getSourceEdgeIDs0.0130.0010.013
getTargetEdgeIDs0.0120.0010.012
gtoy.rm000
isDynamicsActive0.0060.0000.005
mergeNodes0.0110.0010.012
mergeOutEdges0.0120.0010.014
nestNodes0.0130.0010.013
nesthc1.7620.0681.831
ping0.0000.0000.001
relax0.0110.0010.013
resetd0.0010.0000.001
selectAllEdges0.0110.0010.012
selectAllNodes0.0110.0010.013
selectEdges0.0140.0020.015
selectGraph0.0130.0020.014
selectNodes0.0090.0010.011
setArrowDirection0.0120.0020.014
subg0.0640.0050.069
updateContainerSize0.0140.0020.015
updateGraph0.0110.0020.014
version0.0010.0000.001