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Package 204/389HostnameOS / ArchBUILDCHECKBUILD BIN
KEGGgraph 1.4.0
Jitao David Zhang
Snapshot Date: 2010-10-04 11:22:20 -0700 (Mon, 04 Oct 2010)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_6/madman/Rpacks/KEGGgraph
Last Changed Rev: 46401 / Revision: 49923
Last Changed Date: 2010-04-22 11:21:23 -0700 (Thu, 22 Apr 2010)
wilson1 Linux (openSUSE 11.1) / 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  OK  OK 
pelham Mac OS X Leopard (10.5.8) / i386  OK [ OK ] OK 

Summary

Package: KEGGgraph
Version: 1.4.0
Command: /Library/Frameworks/R.framework/Versions/2.11/Resources/bin/R CMD check --no-vignettes --timings KEGGgraph_1.4.0.tar.gz
StartedAt: 2010-10-04 17:32:38 -0700 (Mon, 04 Oct 2010)
EndedAt: 2010-10-04 17:35:05 -0700 (Mon, 04 Oct 2010)
EllapsedTime: 147.2 seconds
RetCode: 0
Status:  OK 
CheckDir: KEGGgraph.Rcheck
Warnings: 0

Command output

* checking for working pdflatex ... OK
* using log directory '/Users/biocbuild/bbs-2.6-bioc/meat/KEGGgraph.Rcheck'
* using R version 2.11.1 Patched (2010-05-31 r52167)
* using session charset: UTF-8
* using option '--no-vignettes'
* checking for file 'KEGGgraph/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'KEGGgraph' version '1.4.0'
* 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 data for non-ASCII characters ... OK
* checking examples ... OK
* 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:

* install options are ' --no-html'

* 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-class2.0250.0152.048
KEGGEdgeSubType-class0.0020.0010.001
KEGGEdgeSubtype0.0150.0020.017
KEGGGraphics-class0.0010.0010.002
KEGGGroup-class0.0020.0000.002
KEGGNode-class1.2320.0071.250
KEGGPathway-class1.9420.0121.973
KEGGPathwayInfo-class1.1960.0061.218
KEGGReaction-class2.0380.0112.068
KEGGpathway2Graph1.3260.0081.340
KEGGpathway2reactionGraph2.0400.0102.065
expandKEGGPathway2.5790.0092.609
getDisplayName-methods1.2000.0061.209
getEntryID-methods1.2140.0061.225
getKEGGID-methods0.6070.0040.613
getKEGGgeneLink-methods0.0000.0000.001
getKEGGnodeData3.1300.0123.160
getKGMLurl0.0080.0190.028
getName-methods1.1540.0241.197
getNamedElement0.0010.0000.001
getPathwayInfo-methods1.1570.0081.218
getReactions-methods1.9130.0161.948
getRgraphvizEdgeNames0.0050.0000.005
getSubtype-methods1.1650.0051.188
getTitle-methods1.1420.0041.156
getType-methods1.9210.0051.949
graphDensity0.0070.0000.007
isHomoList0.0010.0010.002
mergeKEGGgraphs5.4870.0175.553
neighborhood0.0560.0010.057
parseKGML1.2760.0041.280
parseKGML2Graph3.2990.0063.326
plotKEGGgraph5.7350.0255.807
pvalue2asterisk0.0010.0000.001
queryKEGGsubgraph2.9380.0102.966
randomSubGraph0.0630.0000.064
splitKEGGgroup1.1790.0051.193
subGraphByNodeType3.0850.0133.112
subKEGGgraph3.0810.0133.113
translateKEGGID2GeneID0.0010.0010.001
translateKEGGgraph3.2440.0143.280