Package: les

Version: 1.2.0

Command: /Library/Frameworks/R.framework/Versions/2.13/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch les_1.2.0.tar.gz

StartedAt: 2011-10-20 15:39:31 -0700 (Thu, 20 Oct 2011)

EndedAt: 2011-10-20 15:41:37 -0700 (Thu, 20 Oct 2011)

EllapsedTime: 126.5 seconds

RetCode: 0

Status:  WARNINGS

CheckDir: les.Rcheck

Warnings: 2

* using log directory '/Users/biocbuild/bbs-2.8-bioc/meat/les.Rcheck'
* using R version 2.13.2 (2011-09-30)
* using platform: i386-apple-darwin9.8.0 (32-bit)
* using session charset: ASCII
* using option '--no-vignettes'
* checking for file 'les/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'les' version '1.2.0'
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'les' 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 ... WARNING
Warning in Sys.setlocale("LC_CTYPE", "en_US.utf8") :
  OS reports request to set locale to "en_US.utf8" cannot be honored
* 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 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 ... NOTE
  'qpdf' made some significant size reductions:
     compacted 'les.pdf' from 479Kb to 248Kb
  consider running tools::compactPDF() on these files
* checking examples ... WARNING
checking a package with encoding  'UTF-8'  in an ASCII locale

 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

WARNING: There were 2 warnings, see
  '/Users/biocbuild/bbs-2.8-bioc/meat/les.Rcheck/00check.log'
for details

* installing *source* package 'les' ...
** R
** data
** inst
** preparing package for lazy loading
Creating a new generic function for "plot" in "les"
Creating a new generic function for "summary" in "les"
** help
*** installing help indices
** building package indices ...
** testing if installed package can be loaded

* DONE (les)

name	user	system	elapsed
Les-class	0.002	0.001	0.002
Les	0.037	0.003	0.040
chi2	13.632	1.645	17.214
ci	27.393	0.105	27.851
estimate	1.035	0.105	1.148
export	0	0	0
les-package	41.302	0.221	42.661
plot	1.034	0.098	1.208
regions	1.052	0.103	1.166
threshold	1.023	0.100	1.221
weighting	0.007	0.001	0.007