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Package 224/436HostnameOS / ArchBUILDCHECKBUILD BIN
KEGGgraph 1.7.0
Jitao David Zhang
Snapshot Date: 2011-02-24 11:26:35 -0800 (Thu, 24 Feb 2011)
URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/KEGGgraph
Last Changed Rev: 50295 / Revision: 53255
Last Changed Date: 2010-10-17 22:57:44 -0700 (Sun, 17 Oct 2010)
lamb2 Linux (openSUSE 11.2) / x86_64  OK  OK 
liverpool Windows Server 2003 R2 (32-bit) / x64  OK  OK  OK 
gewurz Windows Server 2008 R2 Enterprise (64-bit) / x64  OK  WARNINGS  OK 
pelham Mac OS X Leopard (10.5.8) / i386  OK [ OK ] OK 
petty Mac OS X Snow Leopard (10.6.4) / i386  OK  OK  OK 

Summary

Package: KEGGgraph
Version: 1.7.0
Command: /Library/Frameworks/R.framework/Versions/2.13/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch KEGGgraph_1.7.0.tar.gz
StartedAt: 2011-02-24 19:54:15 -0800 (Thu, 24 Feb 2011)
EndedAt: 2011-02-24 19:56:24 -0800 (Thu, 24 Feb 2011)
EllapsedTime: 128.4 seconds
RetCode: 0
Status:  OK 
CheckDir: KEGGgraph.Rcheck
Warnings: 0

Command output

* using log directory ‘/Users/biocbuild/bbs-2.8-bioc/meat/KEGGgraph.Rcheck’
* using R version 2.13.0 Under development (unstable) (2011-01-10 r53950)
* using platform: i386-apple-darwin9.8.0 (32-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘KEGGgraph/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘KEGGgraph’ version ‘1.7.0’
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package ‘KEGGgraph’ can be installed ... OK
* checking package directory ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level 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 name space can be loaded with stated dependencies ... OK
* checking whether the name space 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 ... NOTE
.subtypeDisplay: no visible binding for global variable
  ‘KEGGEdgeSubtype’
KEGGgraphLegend: no visible binding for global variable
  ‘KEGGEdgeSubtype’
* 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 data for non-ASCII characters ... OK
* checking examples ... OK
* checking for unstated dependencies in tests ... NOTE
'library' or 'require' call not declared from: RUnit
* checking tests ...
  Running ‘kegg2graph.R’
  Running ‘testGraph.R’
 OK
* checking package vignettes in ‘inst/doc’ ... SKIPPED
* checking PDF version of manual ... OK

KEGGgraph.Rcheck/00install.out:

* installing *source* package ‘KEGGgraph’ ...
** R
** data
** inst
** preparing package for lazy loading

Attaching package: 'graph'

The following object(s) are masked from 'package:XML':

    addNode

Loading required package: grid
** help
*** installing help indices
** building package indices ...
** testing if installed package can be loaded

* DONE (KEGGgraph)

KEGGgraph.Rcheck/KEGGgraph-Ex.timings:

nameusersystemelapsed
KEGGEdge-class1.5590.0121.586
KEGGEdgeSubType-class0.0020.0010.002
KEGGEdgeSubtype0.0130.0030.016
KEGGGraphics-class0.0010.0010.002
KEGGGroup-class0.0020.0000.002
KEGGNode-class0.9110.0050.917
KEGGPathway-class1.4800.0101.502
KEGGPathwayInfo-class0.8820.0040.895
KEGGReaction-class1.4950.0071.503
KEGGpathway2Graph1.0550.0061.062
KEGGpathway2reactionGraph1.4800.0081.492
expandKEGGPathway2.1400.0062.154
getDisplayName-methods0.8520.0040.859
getEntryID-methods0.8660.0040.871
getKEGGID-methods0.4540.0030.458
getKEGGgeneLink-methods0.0000.0010.001
getKEGGnodeData2.6080.0132.629
getKGMLurl0.0070.0200.030
getName-methods0.8480.0190.869
getNamedElement0.0010.0010.001
getPathwayInfo-methods0.8740.0060.889
getReactions-methods1.5130.0081.532
getRgraphvizEdgeNames0.0040.0000.004
getSubtype-methods0.9340.0060.944
getTitle-methods0.9640.0040.969
getType-methods1.4730.0121.490
graphDensity0.0040.0010.004
isHomoList0.0020.0000.001
mergeKEGGgraphs4.4500.0164.479
neighborhood0.0350.0010.035
parseKGML0.9390.0040.945
parseKGML2Graph2.3650.0082.379
plotKEGGgraph4.8840.0224.930
pvalue2asterisk0.0000.0000.001
queryKEGGsubgraph2.6190.0082.656
randomSubGraph0.0450.0000.045
splitKEGGgroup0.8610.0050.880
subGraphByNodeType2.4040.0082.416
subKEGGgraph2.5740.0102.603
translateKEGGID2GeneID0.0010.0000.001
translateKEGGgraph2.4350.0062.447