Package: dyebias

Version: 1.17.0

Command: /home/biocbuild/bbs-2.12-bioc/R/bin/R CMD check --no-vignettes --timings dyebias_1.17.0.tar.gz

StartedAt: 2013-01-16 02:10:12 -0800 (Wed, 16 Jan 2013)

EndedAt: 2013-01-16 02:12:01 -0800 (Wed, 16 Jan 2013)

EllapsedTime: 109.1 seconds

RetCode: 0

Status:  OK

CheckDir: dyebias.Rcheck

Warnings: 0

* using log directory ‘/loc/home/biocbuild/bbs-2.12-bioc/meat/dyebias.Rcheck’
* using R Under development (unstable) (2012-12-17 r61365)
* using platform: x86_64-unknown-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘dyebias/DESCRIPTION’ ... OK
* this is package ‘dyebias’ version ‘1.17.0’
* 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 for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘dyebias’ can be installed ... OK
* checking installed package size ... OK
* checking package directory ... 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
dyebias.apply.correction: no visible global function definition for
  ‘maR<-’
dyebias.apply.correction: no visible global function definition for
  ‘maG<-’
* 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 installed files from ‘inst/doc’ ... OK
* checking examples ... OK
Examples with CPU or elapsed time > 5s
                             user system elapsed
dyebias.trendplot          13.516  0.036  13.549
dyebias.rgplot             12.081  0.036  12.122
dyebias.apply.correction   11.401  0.032  11.429
dyebias.boxplot            11.105  0.024  11.132
dyebias.application.subset  9.788  0.136   9.979
* 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
  ‘/loc/home/biocbuild/bbs-2.12-bioc/meat/dyebias.Rcheck/00check.log’
for details.

* installing *source* package ‘dyebias’ ...
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
   ‘dyebias-vignette.Rnw’ 
** testing if installed package can be loaded

* DONE (dyebias)

name	user	system	elapsed
dyebias.application.subset	9.788	0.136	9.979
dyebias.apply.correction	11.401	0.032	11.429
dyebias.boxplot	11.105	0.024	11.132
dyebias.estimate.iGSDBs	2.552	0.016	2.571
dyebias.monotonicity	0.024	0.000	0.027
dyebias.monotonicityplot	0.040	0.004	0.042
dyebias.rgplot	12.081	0.036	12.122
dyebias.trendplot	13.516	0.036	13.549