Package: DEGraph

Version: 1.4.0

Command: /home/biocbuild/bbs-2.8-bioc/R/bin/R CMD check --no-vignettes --timings DEGraph_1.4.0.tar.gz

StartedAt: 2011-10-20 12:26:24 -0700 (Thu, 20 Oct 2011)

EndedAt: 2011-10-20 12:28:31 -0700 (Thu, 20 Oct 2011)

EllapsedTime: 127.3 seconds

RetCode: 0

Status:  OK

CheckDir: DEGraph.Rcheck

Warnings: 0

* using log directory ‘/loc/home/biocbuild/bbs-2.8-bioc/meat/DEGraph.Rcheck’
* using R version 2.13.2 (2011-09-30)
* using platform: x86_64-unknown-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘DEGraph/DESCRIPTION’ ... OK
* this is package ‘DEGraph’ version ‘1.4.0’
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package ‘DEGraph’ 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 namespace can be loaded with stated dependencies ... OK
* checking whether the namespace 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
testOneGraph: no visible global function definition for
  ‘translateNCI2GeneID’
* 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 vignettes ... OK
* 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

* installing *source* package ‘DEGraph’ ...
** R
** data
** demo
** inst
** preparing package for lazy loading
Scalable Robust Estimators with High Breakdown Point (version 1.3-01)
** help
*** installing help indices
** building package indices ...
** testing if installed package can be loaded
Scalable Robust Estimators with High Breakdown Point (version 1.3-01)

* DONE (DEGraph)

name	user	system	elapsed
AN.test	5.192	0.096	5.953
BS.test	4.496	0.060	4.922
annLoi2008	0.128	0.004	0.133
classLoi2008	0.124	0.004	0.127
exprLoi2008	0.144	0.000	0.142
getConnectedComponentList	2.832	0.008	2.842
getKEGGPathways	23.078	0.088	23.603
getSignedGraph	2.936	0.008	2.960
grListKEGG	1.316	0.020	1.337
graph.T2.test	2.480	0.012	2.504
hyper.test	4.109	0.016	4.134
laplacianFromA	0.320	0.032	0.352
plotValuedGraph	11.380	0.028	11.531
randomWAMGraph	0.372	0.020	0.396
testOneConnectedComponent	2.804	0.004	3.189
testOneGraph	8.785	0.036	8.869
twoSampleFromGraph	0.348	0.012	0.360
writeAdjacencyMatrix2KGML	0.356	0.004	0.363