BioC 3.5: CHECK report for RedeR on malbec2

Package: RedeR

Version: 1.24.1

Command: /home/biocbuild/bbs-3.5-bioc/R/bin/R CMD check --no-vignettes --timings RedeR_1.24.1.tar.gz

StartedAt: 2017-10-18 01:55:38 -0400 (Wed, 18 Oct 2017)

EndedAt: 2017-10-18 01:56:12 -0400 (Wed, 18 Oct 2017)

EllapsedTime: 34.0 seconds

RetCode: 0

Status:  OK

CheckDir: RedeR.Rcheck

Warnings: 0

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### Running command:
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###   /home/biocbuild/bbs-3.5-bioc/R/bin/R CMD check --no-vignettes --timings RedeR_1.24.1.tar.gz
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* using log directory ‘/home/biocbuild/bbs-3.5-bioc/meat/RedeR.Rcheck’
* using R version 3.4.2 (2017-09-28)
* 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 ‘1.24.1’
* 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  8.8Mb
  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 installed files from ‘inst/doc’ ... 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-3.5-bioc/meat/RedeR.Rcheck/00check.log’
for details.

* installing *source* package ‘RedeR’ ...
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (RedeR)

name	user	system	elapsed
RedPort-class	0.012	0.000	0.011
RedPort	0	0	0
RedeR.data	0.580	0.000	0.583
addEdgeBetweenContainers	0.016	0.000	0.016
addEdges	0.008	0.000	0.012
addGraph	0.012	0.000	0.013
addLegend	0.016	0.000	0.017
addNodes	0.012	0.000	0.012
addSeries	0.012	0.000	0.012
addSubgraph	0.012	0.000	0.012
addSubgraph.list	0.012	0.000	0.011
att	0.440	0.000	0.439
calld	0.000	0.000	0.001
cea	0.012	0.000	0.013
deSelectEdges	0.008	0.000	0.007
deSelectGraph	0.008	0.000	0.008
deSelectNodes	0.008	0.000	0.008
deleteEdges	0.012	0.000	0.010
deleteNodes	0.004	0.004	0.008
deleteSelectedEdges	0.016	0.000	0.013
deleteSelectedNodes	0.012	0.000	0.012
duplicateGraph	0.008	0.000	0.007
exitd	0.000	0.000	0.001
getContainerComponets	0.008	0.000	0.007
getEdgeIDs	0.008	0.000	0.008
getEdges	0.012	0.000	0.008
getGraph	0.004	0.004	0.008
getNodeIDs	0.008	0.000	0.007
getNodes	0.008	0.000	0.008
getSourceEdgeIDs	0.008	0.000	0.008
getTargetEdgeIDs	0.004	0.000	0.007
gtoy.rm	0	0	0
isDynamicsActive	0.000	0.000	0.001
mergeNodes	0.012	0.000	0.009
mergeOutEdges	0.008	0.000	0.008
nestNodes	0.008	0.000	0.007
nesthc	1.380	0.012	1.393
ping	0.000	0.000	0.001
relax	0.008	0.000	0.008
resetd	0.004	0.000	0.001
selectAllEdges	0.008	0.000	0.008
selectAllNodes	0.008	0.000	0.008
selectEdges	0.008	0.000	0.008
selectGraph	0.004	0.000	0.008
selectNodes	0.008	0.000	0.007
setArrowDirection	0.14	0.00	0.14
subg	0.044	0.000	0.042
updateContainerSize	0.008	0.000	0.008
updateGraph	0.008	0.000	0.008
version	0	0	0