BioC 3.5: CHECK report for RedeR on veracruz2

Package: RedeR

Version: 1.24.1

Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings RedeR_1.24.1.tar.gz

StartedAt: 2017-08-16 07:15:37 -0400 (Wed, 16 Aug 2017)

EndedAt: 2017-08-16 07:16:16 -0400 (Wed, 16 Aug 2017)

EllapsedTime: 38.9 seconds

RetCode: 0

Status:  OK

CheckDir: RedeR.Rcheck

Warnings: 0

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### Running command:
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###   /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings RedeR_1.24.1.tar.gz
###
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* using log directory ‘/Users/biocbuild/bbs-3.5-bioc/meat/RedeR.Rcheck’
* using R version 3.4.1 (2017-06-30)
* using platform: x86_64-apple-darwin15.6.0 (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 ‘1.24.1’
* 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 sizes of PDF files under ‘inst/doc’ ... 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
  ‘/Users/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	0.004	0.000	0.004
RedPort	0.001	0.000	0.001
RedeR.data	0.435	0.017	0.457
addEdgeBetweenContainers	0.012	0.001	0.014
addEdges	0.011	0.001	0.012
addGraph	0.012	0.001	0.013
addLegend	0.009	0.000	0.010
addNodes	0.01	0.00	0.01
addSeries	0.010	0.001	0.011
addSubgraph	0.009	0.001	0.010
addSubgraph.list	0.010	0.001	0.011
att	0.471	0.008	0.502
calld	0.001	0.000	0.001
cea	0.015	0.001	0.016
deSelectEdges	0.011	0.001	0.015
deSelectGraph	0.007	0.001	0.007
deSelectNodes	0.009	0.001	0.009
deleteEdges	0.009	0.000	0.010
deleteNodes	0.008	0.000	0.009
deleteSelectedEdges	0.011	0.001	0.012
deleteSelectedNodes	0.012	0.001	0.013
duplicateGraph	0.010	0.001	0.011
exitd	0.001	0.000	0.001
getContainerComponets	0.012	0.000	0.012
getEdgeIDs	0.010	0.000	0.011
getEdges	0.010	0.000	0.012
getGraph	0.014	0.001	0.014
getNodeIDs	0.011	0.001	0.011
getNodes	0.010	0.001	0.012
getSourceEdgeIDs	0.006	0.000	0.007
getTargetEdgeIDs	0.011	0.001	0.011
gtoy.rm	0.000	0.000	0.001
isDynamicsActive	0.002	0.000	0.002
mergeNodes	0.010	0.000	0.011
mergeOutEdges	0.008	0.001	0.008
nestNodes	0.013	0.001	0.014
nesthc	1.561	0.053	1.668
ping	0.001	0.000	0.002
relax	0.016	0.001	0.017
resetd	0.001	0.000	0.001
selectAllEdges	0.011	0.000	0.012
selectAllNodes	0.011	0.001	0.017
selectEdges	0.011	0.001	0.012
selectGraph	0.012	0.000	0.012
selectNodes	0.010	0.000	0.011
setArrowDirection	0.012	0.001	0.013
subg	0.049	0.005	0.058
updateContainerSize	0.016	0.000	0.016
updateGraph	0.011	0.001	0.012
version	0.000	0.000	0.001