Package: GSEABase

Version: 1.10.0

Command: /home/biocbuild/bbs-2.6-bioc/R/bin/R CMD check --no-vignettes --timings GSEABase_1.10.0.tar.gz

StartedAt: 2010-10-04 18:03:27 -0700 (Mon, 04 Oct 2010)

EndedAt: 2010-10-04 18:04:54 -0700 (Mon, 04 Oct 2010)

EllapsedTime: 87.1 seconds

RetCode: 0

Status:  OK

CheckDir: GSEABase.Rcheck

Warnings: 0

* checking for working pdflatex ... OK
* using log directory '/loc/home/biocbuild/bbs-2.6-bioc/meat/GSEABase.Rcheck'
* using R version 2.11.1 (2010-05-31)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'GSEABase/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'GSEABase' version '1.10.0'
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'GSEABase' 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 examples ... OK
* checking package vignettes in 'inst/doc' ... SKIPPED
* checking PDF version of manual ... OK

* install options are ' --no-html'

* installing *source* package 'GSEABase' ...
** R
** inst
** preparing package for lazy loading

Welcome to Bioconductor

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

Loading required package: AnnotationDbi
** help
*** installing help indices
** building package indices ...
** testing if installed package can be loaded

* DONE (GSEABase)

name	user	system	elapsed
CollectionType-class	1.084	0.028	1.113
CollectionType-constructors	0.364	0.000	0.364
GSEABase-package	0.328	0.020	0.348
GeneColorSet-class	0.396	0.012	0.404
GeneIdentifierType-class	0.236	0.004	0.243
GeneIdentifierType-constructors	0.240	0.004	0.245
GeneSet-class	0.652	0.012	0.672
GeneSet-methods	0.284	0.008	0.293
GeneSetCollection-class	0.032	0.000	0.031
GeneSetCollection-methods	9.925	0.068	10.390
OBOCollection-class	0.120	0.004	0.124
getOBOCollection	0.084	0.004	0.086
getObjects	0.164	0.000	0.163
goSlim-methods	1.048	0.016	1.111
incidence-methods	0.056	0.004	0.057