Package: GSEABase

Version: 1.12.2

Command: E:\biocbld\bbs-2.7-bioc\R\bin\R.exe CMD check --no-vignettes --timings GSEABase_1.12.2.tar.gz

StartedAt: 2011-04-07 07:25:14 -0700 (Thu, 07 Apr 2011)

EndedAt: 2011-04-07 07:26:50 -0700 (Thu, 07 Apr 2011)

EllapsedTime: 96.7 seconds

RetCode: 0

Status:  OK

CheckDir: GSEABase.Rcheck

Warnings: 0

* using log directory 'E:/biocbld/bbs-2.7-bioc/meat/GSEABase.Rcheck'
* using R version 2.12.2 (2011-02-25)
* using platform: i386-pc-mingw32 (32-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'GSEABase/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'GSEABase' version '1.12.2'
* 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 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 ... NOTE
'library' or 'require' call not declared from: Rgraphviz
* checking examples ... OK
* checking package vignettes in 'inst/doc' ... SKIPPED
* checking PDF version of manual ... OK

* 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	0.75	0.06	0.92
CollectionType-constructors	0.26	0.02	0.29
GSEABase-package	0.39	0.00	0.71
GeneColorSet-class	0.3	0.0	0.3
GeneIdentifierType-class	0.19	0.01	0.20
GeneIdentifierType-constructors	0.16	0.00	0.16
GeneSet-class	0.42	0.00	0.42
GeneSet-methods	0.20	0.03	0.24
GeneSetCollection-class	0.03	0.00	0.03
GeneSetCollection-methods	7.52	0.13	7.86
OBOCollection-class	0.15	0.00	0.15
getOBOCollection	0.11	0.00	0.11
getObjects	0.1	0.0	0.1
goSlim-methods	1.03	0.04	1.17
incidence-methods	0.06	0.00	0.06