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Package 218/419HostnameOS / ArchBUILDCHECKBUILD BIN
KEGGgraph 1.6.0
Jitao David Zhang
Snapshot Date: 2011-04-06 23:24:01 -0700 (Wed, 06 Apr 2011)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_7/madman/Rpacks/KEGGgraph
Last Changed Rev: 50293 / Revision: 54588
Last Changed Date: 2010-10-17 22:34:23 -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 [ OK ] OK 

Summary

Package: KEGGgraph
Version: 1.6.0
Command: D:\biocbld\bbs-2.7-bioc\R\bin\R.exe CMD check --no-vignettes --timings KEGGgraph_1.6.0.tar.gz
StartedAt: 2011-04-07 11:14:44 -0700 (Thu, 07 Apr 2011)
EndedAt: 2011-04-07 11:17:07 -0700 (Thu, 07 Apr 2011)
EllapsedTime: 142.7 seconds
RetCode: 0
Status:  OK  
CheckDir: KEGGgraph.Rcheck
Warnings: 0

Command output

* using log directory 'D:/biocbld/bbs-2.7-bioc/meat/KEGGgraph.Rcheck'
* using R version 2.12.2 (2011-02-25)
* using platform: x86_64-pc-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'KEGGgraph/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'KEGGgraph' version '1.6.0'
* 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 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
Warning in fun(...) :
  Rgraphviz built with Graphviz version 2.20.3.
Found installed Graphviz version 2.25.20090912.445. This _may_ cause problems.
** help
*** installing help indices
** building package indices ...
** testing if installed package can be loaded

* DONE (KEGGgraph)

KEGGgraph.Rcheck/KEGGgraph-Ex.timings:

nameusersystemelapsed
KEGGEdge-class1.060.011.16
KEGGEdgeSubType-class000
KEGGEdgeSubtype0.010.000.02
KEGGGraphics-class000
KEGGGroup-class0.020.000.01
KEGGNode-class0.640.000.64
KEGGPathway-class0.990.000.99
KEGGPathwayInfo-class0.560.000.56
KEGGReaction-class1.020.001.02
KEGGpathway2Graph0.760.000.77
KEGGpathway2reactionGraph0.990.000.98
expandKEGGPathway1.440.001.44
getDisplayName-methods0.650.000.65
getEntryID-methods0.580.000.58
getKEGGID-methods0.310.000.31
getKEGGgeneLink-methods000
getKEGGnodeData1.720.001.72
getKGMLurl000
getName-methods0.630.000.63
getNamedElement000
getPathwayInfo-methods0.640.000.64
getReactions-methods1.060.001.06
getRgraphvizEdgeNames0.020.000.02
getSubtype-methods0.730.000.73
getTitle-methods0.590.000.60
getType-methods0.970.020.98
graphDensity0.020.000.02
isHomoList000
mergeKEGGgraphs3.140.003.14
neighborhood0.030.000.03
parseKGML0.690.000.68
parseKGML2Graph1.540.011.57
plotKEGGgraph3.570.003.56
pvalue2asterisk000
queryKEGGsubgraph1.680.001.69
randomSubGraph0.040.000.03
splitKEGGgroup0.670.000.67
subGraphByNodeType1.730.001.73
subKEGGgraph1.740.001.77
translateKEGGID2GeneID000
translateKEGGgraph1.790.001.80