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: 2011-03-17 15:46:12 -0700 (Thu, 17 Mar 2011)

EndedAt: 2011-03-17 15:49:17 -0700 (Thu, 17 Mar 2011)

EllapsedTime: 185.9 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) (2011-03-06 r54683)
* 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 installed package size ... NOTE
  installed size is  8.9Mb
  sub-directories of 1Mb or more:
    data      5.1Mb
    scripts   3.0Mb
* 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 contents of 'data' directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... 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	0.640	0.006	0.647
classify	10.401	0.534	11.779
featureAAindex	0	0	0
featureBDNAVIDEO	0.000	0.000	0.001
featureBinary	0.001	0.000	0.001
featureCKSAAP	0.001	0.000	0.001
featureCTD	0.000	0.000	0.001
featureDIPRODB	0.001	0.001	0.000
featureDOMAIN	0	0	0
featureEvaluate	0.022	0.001	0.023
featureFragmentComposition	0.001	0.000	0.000
featureGapPairComposition	0	0	0
featureHydro	0.000	0.000	0.001
featurePSSM	0.001	0.000	0.001
featurePseudoAAComp	0.001	0.000	0.001
featureSSC	0.003	0.000	0.003
hr	0.002	0.000	0.002
model	2.043	0.084	2.127
performance	1.895	0.069	1.965
selectFFS	0.809	0.021	0.829