Package: GOSemSim

Version: 1.11.4

Command: /home/biocbuild/bbs-2.9-bioc/R/bin/R CMD check --no-vignettes --timings GOSemSim_1.11.4.tar.gz

StartedAt: 2011-07-07 00:51:42 -0700 (Thu, 07 Jul 2011)

EndedAt: 2011-07-07 00:54:56 -0700 (Thu, 07 Jul 2011)

EllapsedTime: 194.6 seconds

RetCode: 0

Status:  OK

CheckDir: GOSemSim.Rcheck

Warnings: 0

* using log directory ‘/loc/home/biocbuild/bbs-2.9-bioc/meat/GOSemSim.Rcheck’
* using R version 2.14.0 Under development (unstable) (2011-06-15 r56138)
* using platform: x86_64-unknown-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘GOSemSim/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘GOSemSim’ version ‘1.11.4’
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package ‘GOSemSim’ can be installed ... OK
* checking installed package size ... 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 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 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 ‘GOSemSim’ ...
** R
** data
** inst
** preparing package for lazy loading
Loading Tcl/Tk interface ... done
Loading required package: DBI




















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

* DONE (GOSemSim)

name	user	system	elapsed
GOSet-class	0.520	0.032	0.554
GOSet-methods	0.000	0.000	0.001
GeneClusterSet-class	0.004	0.000	0.002
GeneSet-class	0.004	0.000	0.003
Params-class	0.000	0.000	0.001
Params-methods	0.056	0.000	0.058
clusterSim	17.977	0.252	18.636
geneSim	10.441	0.084	10.523
goSim	0.168	0.000	0.168
mclusterSim	11.104	0.028	11.335
mgeneSim	10.801	0.092	10.997
mgoSim	0.180	0.000	0.181