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 15:12:32 -0800 (Thu, 24 Feb 2011)

EndedAt: 2011-02-24 15:15:15 -0800 (Thu, 24 Feb 2011)

EllapsedTime: 163.2 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: ASCII
* 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	0.937	0.007	0.943
classify	9.876	0.509	9.697
featureAAindex	0.000	0.000	0.001
featureBDNAVIDEO	0	0	0
featureBinary	0.000	0.000	0.001
featureCKSAAP	0.001	0.000	0.000
featureCTD	0.001	0.000	0.001
featureDIPRODB	0	0	0
featureDOMAIN	0.000	0.000	0.001
featureEvaluate	0.021	0.001	0.022
featureFragmentComposition	0.001	0.001	0.000
featureGapPairComposition	0.001	0.000	0.001
featureHydro	0	0	0
featurePSSM	0.000	0.001	0.000
featurePseudoAAComp	0.000	0.000	0.001
featureSSC	0.002	0.000	0.001
hr	0.002	0.001	0.003
model	1.936	0.079	2.015
performance	2.307	0.092	2.398
selectFFS	0.788	0.041	0.830