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Package 244/462HostnameOS / ArchBUILDCHECKBUILD BIN
KEGGgraph 1.9.0
Jitao David Zhang
Snapshot Date: 2011-05-09 07:20:56 -0700 (Mon, 09 May 2011)
URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/KEGGgraph
Last Changed Rev: 54802 / Revision: 55359
Last Changed Date: 2011-04-13 15:36:43 -0700 (Wed, 13 Apr 2011)
wilson2 Linux (openSUSE 11.4) / 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: 1.9.0
Command: E:\biocbld\bbs-2.9-bioc\R\bin\R.exe CMD check --no-vignettes --timings KEGGgraph_1.9.0.tar.gz
StartedAt: 2011-05-09 14:16:52 -0700 (Mon, 09 May 2011)
EndedAt: 2011-05-09 14:18:29 -0700 (Mon, 09 May 2011)
EllapsedTime: 97.7 seconds
RetCode: 0
Status:  OK  
CheckDir: KEGGgraph.Rcheck
Warnings: 0

Command output

* using log directory 'E:/biocbld/bbs-2.9-bioc/meat/KEGGgraph.Rcheck'
* using R version 2.14.0 Under development (unstable) (2011-04-17 r55484)
* using platform: i386-pc-mingw32 (32-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 '1.9.0'
* 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 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 for unstated dependencies in vignettes ... NOTE
'library' or 'require' call not declared from: 'RColorBrewer'
* 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

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 ...
*** tangling vignette sources ...
   'KEGGgraph.Rnw' 
   'KEGGgraphApp.Rnw' 
** testing if installed package can be loaded

* DONE (KEGGgraph)

KEGGgraph.Rcheck/KEGGgraph-Ex.timings:

nameusersystemelapsed
KEGGEdge-class1.090.011.12
KEGGEdgeSubType-class000
KEGGEdgeSubtype0.020.000.02
KEGGGraphics-class000
KEGGGroup-class000
KEGGNode-class0.700.020.73
KEGGPathway-class0.910.000.91
KEGGPathwayInfo-class0.640.000.64
KEGGReaction-class0.970.000.97
KEGGpathway2Graph0.680.000.69
KEGGpathway2reactionGraph1.050.001.04
expandKEGGPathway1.440.001.44
getDisplayName-methods0.560.000.56
getEntryID-methods0.580.000.58
getKEGGID-methods0.330.000.33
getKEGGgeneLink-methods000
getKEGGnodeData1.810.001.83
getKGMLurl0.000.000.03
getName-methods0.590.000.61
getNamedElement000
getPathwayInfo-methods0.540.000.53
getReactions-methods0.980.000.98
getRgraphvizEdgeNames000
getSubtype-methods0.620.000.63
getTitle-methods0.680.000.67
getType-methods1.070.001.08
graphDensity000
isHomoList000
mergeKEGGgraphs3.040.003.03
neighborhood0.010.000.01
parseKGML0.620.000.63
parseKGML2Graph1.530.011.57
plotKEGGgraph3.220.003.22
pvalue2asterisk000
queryKEGGsubgraph1.560.001.56
randomSubGraph0.040.000.03
splitKEGGgroup0.610.000.61
subGraphByNodeType1.640.001.64
subKEGGgraph1.570.001.58
translateKEGGID2GeneID000
translateKEGGgraph1.600.001.61