Package: Category

Version: 2.23.2

Command: /Library/Frameworks/R.framework/Versions/2.15/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch Category_2.23.2.tar.gz

StartedAt: 2012-06-20 22:32:15 -0700 (Wed, 20 Jun 2012)

EndedAt: 2012-06-20 22:39:08 -0700 (Wed, 20 Jun 2012)

EllapsedTime: 412.7 seconds

RetCode: 0

Status:  OK

CheckDir: Category.Rcheck

Warnings: 0

* using log directory '/Users/biocbuild/bbs-2.11-bioc/meat/Category.Rcheck'
* using R version 2.15.0 Patched (2012-04-26 r59216)
* using platform: i386-apple-darwin9.8.0 (32-bit)
* using session charset: ASCII
* using option '--no-vignettes'
* checking for file 'Category/DESCRIPTION' ... OK
* this is package 'Category' version '2.23.2'
* 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 whether package 'Category' 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 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 sizes of PDF files under 'inst/doc' ... OK
* checking installed files from 'inst/doc' ... OK
* checking examples ... OK
* checking for unstated dependencies in tests ... OK
* checking tests ...
  Running 'runTests.R'
 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 'Category' ...
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
   'Category.Rnw' 
   'ChromBand.Rnw' 
** testing if installed package can be loaded

* DONE (Category)

name	user	system	elapsed
ChrBandTree-class	21.872	0.685	23.744
ChrMapHyperGParams-class	0.003	0.000	0.002
ChrMapHyperGResult-class	0.001	0.001	0.002
ChrMapLinearMParams-class	0.001	0.000	0.001
ChrMapLinearMResult-class	0.001	0.000	0.002
DatPkg-class	0.108	0.011	0.120
HyperGResult-accessors	1.502	0.169	2.034
LinearMResult-class	0.001	0.000	0.001
MAPAmat	16.661	0.785	17.616
applyByCategory	0.005	0.001	0.006
cateGOryMatrix	0.566	0.097	0.791
cb_parse_band_Hs	0.001	0.000	0.001
cb_parse_band_Mm	0.001	0.000	0.001
findAMstats	0.002	0.001	0.002
getPathNames	0.205	0.011	0.217
gseattperm	4.951	0.200	5.213
makeChrBandGraph	14.877	0.310	15.321
makeEBcontr	0.419	0.017	0.438
probes2MAP	0.417	0.017	0.435
probes2Path	0.121	0.008	0.144
ttperm	0.026	0.002	0.028