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Package 228/444HostnameOS / ArchBUILDCHECKBUILD BIN
KEGGgraph 1.7.0
Jitao David Zhang
Snapshot Date: 2011-03-17 11:16:30 -0700 (Thu, 17 Mar 2011)
URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/KEGGgraph
Last Changed Rev: 50295 / Revision: 53825
Last Changed Date: 2010-10-17 22:57:44 -0700 (Sun, 17 Oct 2010)
lamb1 Linux (openSUSE 11.3) / 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 
petty Mac OS X Snow Leopard (10.6.6) / 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: 2011-03-17 16:41:31 -0700 (Thu, 17 Mar 2011)
EndedAt: 2011-03-17 16:43:07 -0700 (Thu, 17 Mar 2011)
EllapsedTime: 96.0 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) (2011-03-06 r54683)
* using platform: i386-apple-darwin9.8.0 (32-bit)
* using session charset: ASCII
* 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 installed package size ... 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 contents of 'data' directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... 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-class1.1230.0051.129
KEGGEdgeSubType-class0.0010.0010.001
KEGGEdgeSubtype0.0080.0010.010
KEGGGraphics-class0.0000.0000.001
KEGGGroup-class0.0010.0000.001
KEGGNode-class0.6360.0020.639
KEGGPathway-class1.0600.0031.063
KEGGPathwayInfo-class0.6400.0020.642
KEGGReaction-class1.0820.0031.084
KEGGpathway2Graph0.7810.0020.782
KEGGpathway2reactionGraph1.0520.0021.054
expandKEGGPathway1.5230.0021.524
getDisplayName-methods0.6670.0040.671
getEntryID-methods0.6420.0030.645
getKEGGID-methods0.3130.0010.315
getKEGGgeneLink-methods000
getKEGGnodeData1.7200.0061.726
getKGMLurl0.0040.0020.008
getName-methods0.6650.0010.666
getNamedElement000
getPathwayInfo-methods0.6910.0040.695
getReactions-methods1.0780.0021.081
getRgraphvizEdgeNames0.0030.0000.003
getSubtype-methods0.6210.0010.622
getTitle-methods0.6580.0010.659
getType-methods1.0900.0011.092
graphDensity0.0030.0000.004
isHomoList0.0010.0000.001
mergeKEGGgraphs3.3150.0033.318
neighborhood0.0220.0000.022
parseKGML0.6950.0040.699
parseKGML2Graph1.6920.0021.694
plotKEGGgraph3.4430.0103.453
pvalue2asterisk0.0010.0000.000
queryKEGGsubgraph1.7550.0011.758
randomSubGraph0.0340.0000.034
splitKEGGgroup0.6910.0020.692
subGraphByNodeType1.7110.0021.713
subKEGGgraph1.7930.0031.795
translateKEGGID2GeneID0.0010.0000.000
translateKEGGgraph1.7670.0011.769