Package: Rmagpie

Version: 1.6.0

Command: /home/biocbuild/bbs-2.7-bioc/R/bin/R CMD check --no-vignettes --timings Rmagpie_1.6.0.tar.gz

StartedAt: 2011-03-31 08:15:15 -0700 (Thu, 31 Mar 2011)

EndedAt: 2011-03-31 08:16:56 -0700 (Thu, 31 Mar 2011)

EllapsedTime: 101.1 seconds

RetCode: 0

Status:  OK

CheckDir: Rmagpie.Rcheck

Warnings: 0

* using log directory ‘/loc/home/biocbuild/bbs-2.7-bioc/meat/Rmagpie.Rcheck’
* using R version 2.12.2 (2011-02-25)
* using platform: x86_64-unknown-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘Rmagpie/DESCRIPTION’ ... OK
* this is package ‘Rmagpie’ version ‘1.6.0’
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package ‘Rmagpie’ can be installed ... 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 name space can be loaded with stated dependencies ... OK
* checking whether the name space 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
getFeatureSelectionOptions<-,assessment: no visible global function
  definition for ‘getNoOfOptions<-’
getFeatureSelectionOptions<-,assessment: no visible global function
  definition for ‘getNoModels<-’
* 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 data for non-ASCII characters ... OK
* checking examples ... OK
* checking package vignettes in ‘inst/doc’ ... SKIPPED
* checking PDF version of manual ... OK

* installing *source* package ‘Rmagpie’ ...
** R
** data
** demo
** inst
** preparing package for lazy loading

Welcome to Bioconductor

  Vignettes contain introductory material. To view, type
  'openVignette()'. To cite Bioconductor, see
  'citation("Biobase")' and for packages 'citation(pkgname)'.

** help
*** installing help indices
** building package indices ...
** testing if installed package can be loaded

* DONE (Rmagpie)

name	user	system	elapsed
classifyNewSamples-methods	2.496	0.020	2.514
experiment-class	0.068	0.004	0.073
finalClassifier-class	0.104	0.004	0.108
findFinalClassifier-methods	0.292	0.004	0.299
geneSubsets-class	0.012	0.000	0.012
getDataset-methods	0.008	0.004	0.015
getFeatureSelectionOptions-methods	0.012	0.000	0.012
getFinalClassifier	0.244	0.056	0.298
getResults-methods	7.520	0.016	7.536
plotErrorsFoldTwoLayerCV-methods	7.433	0.016	7.449
plotErrorsRepeatedOneLayerCV	1.360	0.000	1.358
plotErrorsSummaryOneLayerCV-methods	1.388	0.000	1.390
rankedGenesImg-methods	0	0	0
runOneLayerExtCV-methods	1.156	0.000	1.158
runTwoLayerExtCV-methods	13.429	0.000	13.431
setDataset-methods	0.000	0.000	0.001
setFeatureSelectionOptions-methods	0.012	0.004	0.017
thresholds-class	0.004	0.000	0.002
vV70genes	0.004	0.000	0.006