Package: BioSeqClass

Version: 1.9.0

Command: /Library/Frameworks/R.framework/Versions/2.13/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch BioSeqClass_1.9.0.tar.gz

StartedAt: 2011-02-24 18:26:41 -0800 (Thu, 24 Feb 2011)

EndedAt: 2011-02-24 18:30:29 -0800 (Thu, 24 Feb 2011)

EllapsedTime: 228.0 seconds

RetCode: 0

Status:  OK

CheckDir: BioSeqClass.Rcheck

Warnings: 0

* using log directory ‘/Users/biocbuild/bbs-2.8-bioc/meat/BioSeqClass.Rcheck’
* using R version 2.13.0 Under development (unstable) (2011-01-10 r53950)
* using platform: i386-apple-darwin9.8.0 (32-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘BioSeqClass/DESCRIPTION’ ... OK
* this is package ‘BioSeqClass’ version ‘1.9.0’
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package ‘BioSeqClass’ 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 ... OK
* checking Rd files ... NOTE
prepare_Rd: selectWeka.Rd:49-51: Dropping empty section \examples
* 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 ... NOTE
'library' or 'require' call not declared from: scatterplot3d
* 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 ‘BioSeqClass’ ...
** R
** data
** inst
** preparing package for lazy loading
Loading required package: rpart
Loading required package: MASS
Loading required package: mlbench
Loading required package: survival
Loading required package: splines
Loading required package: class
Loading required package: nnet
Loading required package: mvtnorm
Loading required package: modeltools
Loading required package: stats4
** help
*** installing help indices
** building package indices ...
** testing if installed package can be loaded

* DONE (BioSeqClass)

name	user	system	elapsed
basic	1.246	0.017	1.275
classify	14.069	1.006	17.501
featureAAindex	0.004	0.000	0.004
featureBDNAVIDEO	0.001	0.000	0.001
featureBinary	0.002	0.000	0.002
featureCKSAAP	0.002	0.000	0.002
featureCTD	0.003	0.000	0.003
featureDIPRODB	0.002	0.000	0.002
featureDOMAIN	0.000	0.000	0.001
featureEvaluate	0.082	0.002	0.084
featureFragmentComposition	0.002	0.000	0.002
featureGapPairComposition	0.002	0.000	0.002
featureHydro	0.003	0.000	0.003
featurePSSM	0.002	0.000	0.002
featurePseudoAAComp	0.001	0.000	0.001
featureSSC	0.013	0.001	0.013
hr	0.014	0.000	0.014
model	2.697	0.151	2.851
performance	3.189	0.119	3.327
selectFFS	1.052	0.037	1.090