Package: dyebias

Version: 1.16.0

Command: /home/biocbuild/bbs-2.11-bioc/R/bin/R CMD check --no-vignettes --timings dyebias_1.16.0.tar.gz

StartedAt: 2013-03-25 00:47:29 -0700 (Mon, 25 Mar 2013)

EndedAt: 2013-03-25 00:49:17 -0700 (Mon, 25 Mar 2013)

EllapsedTime: 107.6 seconds

RetCode: 0

Status:  OK

CheckDir: dyebias.Rcheck

Warnings: 0

* using log directory ‘/loc/home/biocbuild/bbs-2.11-bioc/meat/dyebias.Rcheck’
* using R version 2.15.3 (2013-03-01)
* 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 ‘1.16.0’
* 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 ‘dyebias’ 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
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.rgplot             12.128  0.032  13.252
dyebias.trendplot          10.721  0.048  11.191
dyebias.application.subset 10.516  0.148  11.090
dyebias.boxplot            10.345  0.056  10.764
dyebias.apply.correction   10.277  0.064  10.536
* 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-2.11-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	10.516	0.148	11.090
dyebias.apply.correction	10.277	0.064	10.536
dyebias.boxplot	10.345	0.056	10.764
dyebias.estimate.iGSDBs	2.256	0.024	2.404
dyebias.monotonicity	0	0	0
dyebias.monotonicityplot	0	0	0
dyebias.rgplot	12.128	0.032	13.252
dyebias.trendplot	10.721	0.048	11.191