Package: GraphAT

Version: 1.26.0

Command: /Library/Frameworks/R.framework/Versions/2.14/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch GraphAT_1.26.0.tar.gz

StartedAt: 2012-03-24 01:44:11 -0700 (Sat, 24 Mar 2012)

EndedAt: 2012-03-24 01:49:52 -0700 (Sat, 24 Mar 2012)

EllapsedTime: 341.2 seconds

RetCode: 0

Status:  OK

CheckDir: GraphAT.Rcheck

Warnings: 0

* using log directory '/Users/biocbuild/bbs-2.9-bioc/meat/GraphAT.Rcheck'
* using R version 2.14.2 (2012-02-29)
* using platform: i386-apple-darwin9.8.0 (32-bit)
* using session charset: ASCII
* using option '--no-vignettes'
* checking for file 'GraphAT/DESCRIPTION' ... OK
* this is package 'GraphAT' version '1.26.0'
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking whether package 'GraphAT' can be installed ... OK
* checking installed package size ... NOTE
  installed size is  7.2Mb
  sub-directories of 1Mb or more:
    data   7.1Mb
* 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 ... OK
* checking Rd files ... NOTE
prepare_Rd: depthmat.Rd:28: Dropping empty section \references
* 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 ... NOTE
  
  Note: significantly better compression could be obtained
        by using R CMD build --resave-data
                    old_size new_size compress
  Phenoclusters.rda     26Kb      8Kb       xz
  causton.rda          622Kb    424Kb       xz
  ccCM.rda             108Kb     18Kb    bzip2
  depthmatBP.rda       2.5Mb    395Kb       xz
  depthmatCC.rda       1.6Mb    138Kb       xz
  depthmatMF.rda       1.4Mb    217Kb       xz
  giaever.rda          882Kb    699Kb       xz
  mRNAclusters.rda      26Kb      8Kb       xz
  nNamescc.rda          15Kb      6Kb       xz
* checking examples ... OK
* checking PDF version of manual ... OK

* installing *source* package 'GraphAT' ...
** R
** data
** preparing package for lazy loading
** help
*** installing help indices
** building package indices ...
** testing if installed package can be loaded

* DONE (GraphAT)

name	user	system	elapsed
Phenoclusters	2.403	0.930	3.396
causton	0.626	0.054	0.694
cellcycle	2.137	0.087	2.234
clust2Mat	0.001	0.000	0.002
depthmat	2.525	0.133	2.676
getpvalue	0.014	0.002	0.015
giaever	0.664	0.015	0.693
mRNAclusters	1.904	0.966	2.968
makeClustM	0.001	0.000	0.002
mat2UndirG	0.022	0.000	0.022
permPower	1.402	0.047	1.468
perms	0.000	0.000	0.001