Package: OCplus

Version: 1.28.0

Command: /Library/Frameworks/R.framework/Versions/2.14/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch OCplus_1.28.0.tar.gz

StartedAt: 2012-03-24 02:53:21 -0700 (Sat, 24 Mar 2012)

EndedAt: 2012-03-24 02:54:51 -0700 (Sat, 24 Mar 2012)

EllapsedTime: 89.8 seconds

RetCode: 0

Status:  OK

CheckDir: OCplus.Rcheck

Warnings: 0

* using log directory '/Users/biocbuild/bbs-2.9-bioc/meat/OCplus.Rcheck'
* using R version 2.14.2 (2012-02-29)
* using platform: i386-apple-darwin9.8.0 (32-bit)
* using session charset: ASCII
* using option '--no-vignettes'
* checking for file 'OCplus/DESCRIPTION' ... OK
* this is package 'OCplus' version '1.28.0'
* 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 whether package 'OCplus' 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 ... NOTE
prepare_Rd: tstatistics.Rd:38-39: Dropping empty section \examples
* 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 ... NOTE
S3 methods shown with full name in documentation object 'plot.FDR.result':
  'plot.FDR.result'

S3 methods shown with full name in documentation object 'plot.fdr1d.result':
  'plot.fdr1d.result'

S3 methods shown with full name in documentation object 'plot.fdr2d.result':
  'plot.fdr2d.result'

S3 methods shown with full name in documentation object 'summary.fdr.result':
  'summary.fdr.result'

The \usage entries for S3 methods should use the \method markup and not
their full name.
See the chapter 'Writing R documentation files' in the 'Writing R
Extensions' manual.
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking sizes of PDF files under 'inst/doc' ... 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 'OCplus' ...
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices ...
*** tangling vignette sources ...
   'OCplus.Rnw' 
** testing if installed package can be loaded

* DONE (OCplus)

name	user	system	elapsed
EOC	1.518	0.522	2.314
FDR	0.003	0.000	0.004
MAsim.smyth	0.640	0.191	0.886
OCshow	2.907	0.866	3.970
TOC	0.524	0.034	0.571
average.fdr	2.380	0.760	3.198
fdr1d	0.995	0.402	1.431
fdr2d	1.192	0.376	1.618
plot.FDR.result	0.316	0.141	0.504
plot.fdr1d.result	1.005	0.405	1.591
plot.fdr2d.result	1.332	0.362	1.881
samplesize	10.599	0.233	11.749
smooth1d	0.148	0.014	0.163
summary.fdr.result	1.034	0.394	1.440
tMixture	4.717	0.202	4.978