Package: RedeR

Version: 1.6.2

Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch RedeR_1.6.2.tar.gz

StartedAt: 2013-03-25 04:21:02 -0700 (Mon, 25 Mar 2013)

EndedAt: 2013-03-25 04:22:34 -0700 (Mon, 25 Mar 2013)

EllapsedTime: 92.2 seconds

RetCode: 0

Status:  OK

CheckDir: RedeR.Rcheck

Warnings: 0

* using log directory '/Users/biocbuild/bbs-2.12-bioc/meat/RedeR.Rcheck'
* using R Under development (unstable) (2013-02-26 r62077)
* using platform: i386-apple-darwin9.8.0 (32-bit)
* using session charset: ASCII
* using option '--no-vignettes'
* checking for file 'RedeR/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'RedeR' version '1.6.2'
* 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 ... [8s/8s] OK
* checking installed package size ... NOTE
  installed size is  9.2Mb
  sub-directories of 1Mb or more:
    data   3.2Mb
    java   4.5Mb
* 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 for unstated 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 examples ... [10s/10s] 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 vignettes ... SKIPPED
* checking PDF version of manual ... OK

NOTE: There was 1 note.
See
  '/Users/biocbuild/bbs-2.12-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
   'RedeR.Rnw' 
** testing if installed package can be loaded
* DONE (RedeR)

name	user	system	elapsed
PluginBuilder-class	0.016	0.009	0.025
PluginBuilder	0.027	0.016	0.043
RedPort-class	0.013	0.006	0.019
RedPort	0.010	0.005	0.017
RedeR.data	1.082	0.048	1.131
addEdgeBetweenContainers	0.026	0.010	0.037
addEdges	0.021	0.008	0.030
addGraph	0.044	0.019	0.063
addLegend	0.034	0.014	0.048
addNodes	0.023	0.009	0.032
addSeries	0.01	0.01	0.02
addSubgraph	0.014	0.014	0.029
addSubgraph.list	0.012	0.011	0.023
att	0.134	0.021	0.155
calld	0.008	0.007	0.016
cea	1.947	0.260	2.216
deSelectEdges	0.077	0.013	0.088
deSelectGraph	0.010	0.011	0.021
deSelectNodes	0.010	0.011	0.021
deleteEdges	0.009	0.010	0.020
deleteNodes	0.010	0.009	0.020
deletePlugin	0.010	0.009	0.019
deleteSelectedEdges	0.009	0.010	0.020
deleteSelectedNodes	0.010	0.010	0.019
duplicateGraph	0.008	0.009	0.017
dynwin	0.008	0.008	0.016
exitd	0.009	0.009	0.017
getArrowDirection	0.007	0.009	0.016
getContainerComponets	0.011	0.011	0.023
getEdgeColor	0.010	0.009	0.019
getEdgeIDs	0.010	0.009	0.019
getEdgeType	0.008	0.008	0.017
getEdgeWeight	0.010	0.010	0.021
getEdgeWidth	0.010	0.011	0.022
getEdges	0.01	0.01	0.02
getGraph	0.009	0.010	0.019
getNodeAliases	0.009	0.010	0.019
getNodeBend	0.008	0.011	0.022
getNodeColor	0.008	0.010	0.018
getNodeFontColor	0.010	0.011	0.021
getNodeFontName	0.010	0.010	0.019
getNodeFontSize	0.010	0.010	0.019
getNodeFontStyle	0.010	0.009	0.018
getNodeFontX	0.008	0.008	0.016
getNodeFontY	0.010	0.009	0.019
getNodeH	0.010	0.010	0.019
getNodeIDs	0.009	0.010	0.020
getNodeLineColor	0.011	0.011	0.021
getNodeLineWidth	0.010	0.009	0.019
getNodeShape	0.010	0.009	0.019
getNodeSize	0.008	0.009	0.017
getNodeW	0.009	0.009	0.019
getNodeWeight	0.01	0.01	0.02
getNodeX	0.065	0.010	0.075
getNodeY	0.009	0.009	0.020
getNodes	0.010	0.009	0.019
getSourceEdgeIDs	0.010	0.009	0.019
getSourceEdges	0.008	0.008	0.016
getTargetEdgeIDs	0.009	0.010	0.019
getTargetEdges	0.01	0.01	0.02
gtoy.rm	0.005	0.006	0.012
isDynamicsActive	0.009	0.010	0.018
mergeNodes	0.009	0.010	0.020
mergeOutEdges	0.011	0.010	0.020
nestNodes	0.01	0.01	0.02
nesthc	0.009	0.011	0.020
ping	0.010	0.011	0.021
pluginParser	0.006	0.007	0.012
relax	0.011	0.010	0.021
resetd	0.009	0.009	0.017
selectAllEdges	0.008	0.009	0.017
selectAllNodes	0.007	0.008	0.015
selectEdges	0.011	0.010	0.021
selectGraph	0.009	0.010	0.019
selectNodes	0.009	0.010	0.020
setArrowDirection	0.010	0.011	0.020
setEdgeColor	0.008	0.009	0.018
setEdgeType	0.01	0.01	0.02
setEdgeWeight	0.01	0.01	0.02
setEdgeWidth	0.009	0.010	0.019
setNodeAliases	0.009	0.010	0.019
setNodeBend	0.009	0.010	0.020
setNodeColor	0.010	0.010	0.019
setNodeFontColor	0.009	0.009	0.018
setNodeFontName	0.010	0.011	0.021
setNodeFontSize	0.01	0.01	0.02
setNodeFontStyle	0.01	0.01	0.02
setNodeFontXY	0.010	0.009	0.020
setNodeLineColor	0.010	0.009	0.019
setNodeLineWidth	0.008	0.008	0.017
setNodeShape	0.007	0.007	0.015
setNodeSize	0.010	0.009	0.019
setNodeWeight	0.010	0.010	0.021
setNodeXY	0.010	0.010	0.019
subg	0.171	0.018	0.189
submitPlugin	0.014	0.013	0.027
updateContainerSize	0.013	0.010	0.023
updateGraph	0.067	0.010	0.077
updatePlugins	0.007	0.007	0.014
version	0.009	0.008	0.017