Package: DEGraph

Version: 1.1.0

Command: /Library/Frameworks/R.framework/Versions/2.13/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch DEGraph_1.1.0.tar.gz

StartedAt: 2011-02-24 15:30:19 -0800 (Thu, 24 Feb 2011)

EndedAt: 2011-02-24 15:32:13 -0800 (Thu, 24 Feb 2011)

EllapsedTime: 113.8 seconds

RetCode: 0

Status:  OK

CheckDir: DEGraph.Rcheck

Warnings: 0

* using log directory '/Users/biocbuild/bbs-2.8-bioc/meat/DEGraph.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: ASCII
* using option '--no-vignettes'
* checking for file 'DEGraph/DESCRIPTION' ... OK
* this is package 'DEGraph' version '1.1.0'
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'DEGraph' 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 ... OK
* 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 package vignettes in 'inst/doc' ... SKIPPED
* checking PDF version of manual ... OK

* installing *source* package 'DEGraph' ...
** R
** data
** demo
** inst
** preparing package for lazy loading
Loading required package: R.oo
Loading required package: R.methodsS3
R.methodsS3 v1.2.1 (2010-09-18) successfully loaded. See ?R.methodsS3 for help.
R.oo v1.7.5 (2011-02-01) successfully loaded. See ?R.oo for help.
R.utils v1.6.2 (2011-02-14) successfully loaded. See ?R.utils for help.
Scalable Robust Estimators with High Breakdown Point (version 1.1-00)
** help
*** installing help indices
** building package indices ...
** testing if installed package can be loaded

* DONE (DEGraph)

name	user	system	elapsed
AN.test	4.863	0.050	4.927
BS.test	4.648	0.029	4.676
annLoi2008	0.188	0.002	0.189
classLoi2008	0.186	0.002	0.188
exprLoi2008	0.197	0.007	0.205
getConnectedComponentList	2.681	0.008	2.690
getKEGGPathways	20.311	0.129	20.594
getSignedGraph	2.576	0.006	2.582
grListKEGG	1.139	0.009	1.147
graph.T2.test	2.735	0.006	2.740
hyper.test	4.614	0.047	4.660
laplacianFromA	0.437	0.018	0.461
plotValuedGraph	8.622	0.062	8.684
randomWAMGraph	0.494	0.015	0.510
testOneConnectedComponent	3.000	0.005	3.006
testOneGraph	8.354	0.038	8.392
twoSampleFromGraph	0.470	0.019	0.491
writeAdjacencyMatrix2KGML	0.459	0.016	0.478