Package: attract

Version: 1.5.0

Command: /Library/Frameworks/R.framework/Versions/2.14/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch attract_1.5.0.tar.gz

StartedAt: 2011-06-22 01:28:33 -0700 (Wed, 22 Jun 2011)

EndedAt: 2011-06-22 01:32:11 -0700 (Wed, 22 Jun 2011)

EllapsedTime: 218.8 seconds

RetCode: 0

Status:  OK

CheckDir: attract.Rcheck

Warnings: 0

* using log directory ‘/Users/biocbuild/bbs-2.9-bioc/meat/attract.Rcheck’
* using R version 2.14.0 Under development (unstable) (2011-06-03 r56037)
* using platform: i386-apple-darwin9.8.0 (32-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘attract/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘attract’ version ‘1.5.0’
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package ‘attract’ can be installed ... OK
* checking installed package size ... NOTE
  installed size is 11.5Mb
  sub-directories of 1Mb or more:
    data  11.2Mb
* 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 contents of ‘data’ directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking sizes of PDF files under ‘inst/doc’ ... 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 ‘attract’ ...
** R
** data
** inst
** preparing package for lazy loading
Loading required package: Biobase

Welcome to Bioconductor

  Vignettes contain introductory material. To view, type
  'browseVignettes()'. To cite Bioconductor, see
  'citation("Biobase")' and for packages 'citation("pkgname")'.

Loading required package: DBI

Loading required package: Category
Loading required package: graph

** help
*** installing help indices
** building package indices ...
*** tangling vignette sources ...
   ‘attract.Rnw’ 
** testing if installed package can be loaded

* DONE (attract)

name	user	system	elapsed
AttractorModuleSet-class	0	0	0
SynExpressionSet-class	0.002	0.000	0.003
attract-package	0.001	0.000	0.001
buildCorMatrix	0	0	0
buildKeggIncidenceMatrix	0.000	0.000	0.001
calcFuncSynexprs	0	0	0
calcInform	0.000	0.001	0.000
calcModfstat	0	0	0
calcRss	0.001	0.000	0.000
exprs.dat	0.487	0.016	0.509
findAttractors	19.268	0.261	19.753
findCorrPartners	21.775	1.065	23.600
findOnepwaySynexprs	0	0	0
findSynexprs	18.923	0.340	19.565
flagPwayExists	0	0	0
loring.eset	0.415	0.019	0.436
plotsynexprs	0	0	0
removeFlatGenes	0.930	0.144	1.083
samp.info	0.002	0.001	0.004
subset.loring.eset	0.194	0.009	0.204