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CHECK report for RedeR on malbec1

This page was generated on 2020-04-15 12:06:28 -0400 (Wed, 15 Apr 2020).

Package 1404/1823HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
RedeR 1.34.0
Mauro Castro
Snapshot Date: 2020-04-14 16:46:13 -0400 (Tue, 14 Apr 2020)
URL: https://git.bioconductor.org/packages/RedeR
Branch: RELEASE_3_10
Last Commit: 0a973e9
Last Changed Date: 2019-10-29 13:08:21 -0400 (Tue, 29 Oct 2019)
malbec1 Linux (Ubuntu 18.04.4 LTS) / x86_64  OK  OK [ OK ]UNNEEDED, same version exists in internal repository
tokay1 Windows Server 2012 R2 Standard / x64  OK  OK  OK  OK UNNEEDED, same version exists in internal repository
merida1 OS X 10.11.6 El Capitan / x86_64  OK  OK  OK  OK UNNEEDED, same version exists in internal repository

Summary

Package: RedeR
Version: 1.34.0
Command: /home/biocbuild/bbs-3.10-bioc/R/bin/R CMD check --install=check:RedeR.install-out.txt --library=/home/biocbuild/bbs-3.10-bioc/R/library --no-vignettes --timings RedeR_1.34.0.tar.gz
StartedAt: 2020-04-15 01:02:57 -0400 (Wed, 15 Apr 2020)
EndedAt: 2020-04-15 01:03:34 -0400 (Wed, 15 Apr 2020)
EllapsedTime: 37.5 seconds
RetCode: 0
Status:  OK 
CheckDir: RedeR.Rcheck
Warnings: 0

Command output

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###
### Running command:
###
###   /home/biocbuild/bbs-3.10-bioc/R/bin/R CMD check --install=check:RedeR.install-out.txt --library=/home/biocbuild/bbs-3.10-bioc/R/library --no-vignettes --timings RedeR_1.34.0.tar.gz
###
##############################################################################
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* using log directory ‘/home/biocbuild/bbs-3.10-bioc/meat/RedeR.Rcheck’
* using R version 3.6.3 (2020-02-29)
* using platform: x86_64-pc-linux-gnu (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 ‘1.34.0’
* 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
  ‘/home/biocbuild/bbs-3.10-bioc/meat/RedeR.Rcheck/00check.log’
for details.



Installation output

RedeR.Rcheck/00install.out

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###
### Running command:
###
###   /home/biocbuild/bbs-3.10-bioc/R/bin/R CMD INSTALL RedeR
###
##############################################################################
##############################################################################


* installing to library ‘/home/biocbuild/bbs-3.10-bioc/R/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-class0.0040.0000.003
RedPort000
RedeR.data0.4280.0120.437
addEdgeBetweenContainers0.0120.0000.011
addEdges0.0080.0000.007
addGraph0.0080.0000.007
addLegend0.0080.0000.007
addNodes0.0080.0000.008
addSeries0.0160.0000.014
addSubgraph0.0080.0000.007
addSubgraph.list0.0080.0000.007
att0.0280.0000.026
calld000
cea0.0120.0000.011
deSelectEdges0.0080.0000.007
deSelectGraph0.0120.0000.012
deSelectNodes0.0080.0000.007
deleteEdges0.0080.0000.007
deleteNodes0.0080.0000.008
deleteSelectedEdges0.0040.0000.007
deleteSelectedNodes0.0080.0000.008
duplicateGraph0.0080.0000.008
exitd0.0000.0000.001
getContainerComponets0.0520.0000.049
getEdgeIDs0.0080.0000.008
getEdges0.0080.0000.007
getGraph0.0080.0000.008
getNodeIDs0.0080.0000.008
getNodes0.0040.0000.007
getSourceEdgeIDs0.0040.0000.007
getTargetEdgeIDs0.0080.0000.009
gtoy.rm000
isDynamicsActive000
mergeNodes0.0080.0040.011
mergeOutEdges0.0120.0000.012
nestNodes0.0080.0000.009
nesthc1.2080.0281.239
ping0.0040.0000.001
relax0.0040.0040.008
resetd000
selectAllEdges0.0080.0000.007
selectAllNodes0.0080.0000.009
selectEdges0.0080.0000.008
selectGraph0.0040.0040.009
selectNodes0.0040.0040.008
setArrowDirection0.0080.0000.008
subg0.0440.0000.044
updateContainerSize0.0080.0000.009
updateGraph0.0080.0000.008
version000