Package: GSEABase

Version: 1.22.0

Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch GSEABase_1.22.0.tar.gz

StartedAt: 2013-05-01 06:36:01 -0700 (Wed, 01 May 2013)

EndedAt: 2013-05-01 06:40:51 -0700 (Wed, 01 May 2013)

EllapsedTime: 289.7 seconds

RetCode: 0

Status:  OK

CheckDir: GSEABase.Rcheck

Warnings: 0

* using log directory '/Users/biocbuild/bbs-2.12-bioc/meat/GSEABase.Rcheck'
* using R version 3.0.0 Patched (2013-04-08 r62531)
* using platform: x86_64-apple-darwin10.8.0 (64-bit)
* using session charset: ASCII
* using option '--no-vignettes'
* checking for file 'GSEABase/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'GSEABase' version '1.22.0'
* 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 for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package 'GSEABase' can be installed ... [17s/18s] OK
* checking installed package size ... OK
* checking package directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over 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 ... 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 installed files from 'inst/doc' ... OK
* checking examples ... [32s/33s] OK
Examples with CPU or elapsed time > 5s
                            user system elapsed
GeneSetCollection-methods 15.694  0.505  16.622
* checking for unstated dependencies in tests ... OK
* checking tests ...
  Running 'unitTests.R' [76s/77s]
 [76s/77s] 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 'GSEABase' ...
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (GSEABase)

name	user	system	elapsed
CollectionType-class	1.319	0.083	1.441
CollectionType-constructors	0.606	0.024	0.698
GSEABase-package	0.284	0.030	0.322
GeneColorSet-class	0.379	0.025	0.409
GeneIdentifierType-class	0.300	0.021	0.328
GeneIdentifierType-constructors	1.026	0.029	1.117
GeneSet-class	0.806	0.038	0.849
GeneSet-methods	0.322	0.022	0.344
GeneSetCollection-class	0.114	0.010	0.126
GeneSetCollection-methods	15.694	0.505	16.622
OBOCollection-class	0.204	0.014	0.221
getOBOCollection	0.172	0.012	0.185
getObjects	0.137	0.021	0.161
goSlim-methods	1.387	0.100	1.579
incidence-methods	0.081	0.010	0.099