Package: occugene

Version: 1.18.0

Command: /Library/Frameworks/R.framework/Versions/2.15/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch occugene_1.18.0.tar.gz

StartedAt: 2013-03-25 00:38:37 -0700 (Mon, 25 Mar 2013)

EndedAt: 2013-03-25 00:38:59 -0700 (Mon, 25 Mar 2013)

EllapsedTime: 22.2 seconds

RetCode: 0

Status:  OK

CheckDir: occugene.Rcheck

Warnings: 0

* using log directory '/Users/biocbuild/bbs-2.11-bioc/meat/occugene.Rcheck'
* using R version 2.15.3 (2013-03-01)
* using platform: i386-apple-darwin9.8.0 (32-bit)
* using session charset: ASCII
* using option '--no-vignettes'
* checking for file 'occugene/DESCRIPTION' ... OK
* this is package 'occugene' version '1.18.0'
* 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 'occugene' 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 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 ... NOTE
loadAnnotation: warning in read.table(fileName, head = T): partial
  argument match of 'head' to 'header'
loadInsertions: warning in read.table(fileName, head = T): partial
  argument match of 'head' to 'header'
* 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 sizes of PDF files under 'inst/doc' ... OK
* checking installed files from '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

NOTE: There was 1 note.
See
  '/Users/biocbuild/bbs-2.11-bioc/meat/occugene.Rcheck/00check.log'
for details.

* installing *source* package 'occugene' ...
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
   'occugene.Rnw' 
** testing if installed package can be loaded

* DONE (occugene)

name	user	system	elapsed
binHist	0	0	0
binInsert	0	0	0
binInsertHist	0	0	0
checkFormat	0.027	0.006	0.033
delta0	0.068	0.003	0.072
eMult	0.764	0.004	0.772
etDelta	0.008	0.001	0.009
fCumul	0.001	0.000	0.000
fFit	0.061	0.002	0.063
loadAnnotation	0	0	0
loadInsertions	0	0	0
occup2Negenes	0.007	0.002	0.008
unbiasB0	0.616	0.003	0.624
unbiasDelta0	0.722	0.002	0.728
varMult	0.786	0.003	0.792