Package: Rmagpie

Version: 1.6.0

Command: /Library/Frameworks/R.framework/Versions/2.12/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch Rmagpie_1.6.0.tar.gz

StartedAt: 2011-03-31 07:35:22 -0700 (Thu, 31 Mar 2011)

EndedAt: 2011-03-31 07:37:57 -0700 (Thu, 31 Mar 2011)

EllapsedTime: 155.6 seconds

RetCode: 0

Status:  OK

CheckDir: Rmagpie.Rcheck

Warnings: 0

* using log directory ‘/Users/biocbuild/bbs-2.7-bioc/meat/Rmagpie.Rcheck’
* using R version 2.12.2 Patched (2011-02-25 r54591)
* using platform: i386-apple-darwin9.8.0 (32-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	3.599	0.213	3.870
experiment-class	0.128	0.016	0.145
finalClassifier-class	0.257	0.015	0.280
findFinalClassifier-methods	0.315	0.035	0.355
geneSubsets-class	0.019	0.001	0.020
getDataset-methods	0.026	0.002	0.027
getFeatureSelectionOptions-methods	0.023	0.002	0.025
getFinalClassifier	0.569	0.123	0.699
getResults-methods	11.373	0.414	11.924
plotErrorsFoldTwoLayerCV-methods	11.356	0.048	11.500
plotErrorsRepeatedOneLayerCV	2.046	0.016	2.076
plotErrorsSummaryOneLayerCV-methods	1.993	0.011	2.019
rankedGenesImg-methods	0.001	0.000	0.000
runOneLayerExtCV-methods	1.656	0.010	1.687
runTwoLayerExtCV-methods	20.601	0.123	21.387
setDataset-methods	0.000	0.000	0.001
setFeatureSelectionOptions-methods	0.039	0.002	0.043
thresholds-class	0.003	0.000	0.004
vV70genes	0.010	0.001	0.011