Package: Category

Version: 2.14.0

Command: /Library/Frameworks/R.framework/Versions/2.11/Resources/bin/R CMD check --no-vignettes --timings Category_2.14.0.tar.gz

StartedAt: 2010-10-04 16:16:44 -0700 (Mon, 04 Oct 2010)

EndedAt: 2010-10-04 16:20:36 -0700 (Mon, 04 Oct 2010)

EllapsedTime: 231.4 seconds

RetCode: 0

Status:  OK

CheckDir: Category.Rcheck

Warnings: 0

* checking for working pdflatex ... OK
* using log directory '/Users/biocbuild/bbs-2.6-bioc/meat/Category.Rcheck'
* using R version 2.11.1 Patched (2010-05-31 r52167)
* using session charset: UTF-8
* using option '--no-vignettes'
* checking for file 'Category/DESCRIPTION' ... OK
* this is package 'Category' version '2.14.0'
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'Category' 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 ‘Category’ ...
** R
** inst
** preparing package for lazy loading
Loading required package: Biobase

Welcome to Bioconductor

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

** help
*** installing help indices
** building package indices ...
** testing if installed package can be loaded

* DONE (Category)

name	user	system	elapsed
ChrBandTree-class	22.209	0.639	28.309
ChrMapHyperGParams-class	0.003	0.001	0.027
ChrMapHyperGResult-class	0.002	0.000	0.002
ChrMapLinearMParams-class	0.002	0.000	0.006
ChrMapLinearMResult-class	0.002	0.001	0.003
DatPkg-class	0.120	0.006	0.178
HyperGResult-accessors	2.124	0.090	2.650
LinearMParams-class	0.002	0.001	0.002
LinearMResult-class	0.002	0.000	0.003
LinearMResultBase-class	0.002	0.001	0.003
MAPAmat	18.458	0.672	23.895
applyByCategory	0.005	0.001	0.005
cateGOryMatrix	0.772	0.080	1.317
cb_parse_band_Hs	0.001	0.000	0.001
cb_parse_band_Mm	0.001	0.001	0.001
findAMstats	0.003	0.000	0.002
getPathNames	0.221	0.011	0.375
gseattperm	5.264	0.184	6.532
makeChrBandGraph	15.281	0.283	20.080
makeEBcontr	0.285	0.012	0.509
probes2MAP	0.492	0.015	0.870
probes2Path	0.126	0.007	0.135
ttperm	0.048	0.002	0.050