Package: BioSeqClass

Version: 1.10.0

Command: /home/biocbuild/bbs-2.8-bioc/R/bin/R CMD check --no-vignettes --timings BioSeqClass_1.10.0.tar.gz

StartedAt: 2011-10-20 11:57:53 -0700 (Thu, 20 Oct 2011)

EndedAt: 2011-10-20 12:01:34 -0700 (Thu, 20 Oct 2011)

EllapsedTime: 220.7 seconds

RetCode: 0

Status:  OK

CheckDir: BioSeqClass.Rcheck

Warnings: 0

* using log directory ‘/loc/home/biocbuild/bbs-2.8-bioc/meat/BioSeqClass.Rcheck’
* using R version 2.13.2 (2011-09-30)
* using platform: x86_64-unknown-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘BioSeqClass/DESCRIPTION’ ... OK
* this is package ‘BioSeqClass’ version ‘1.10.0’
* checking package namespace 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  9.0Mb
  sub-directories of 1Mb or more:
    scripts   3.0Mb
    data      5.1Mb
* 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 namespace can be loaded with stated dependencies ... OK
* checking whether the namespace 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 for unstated dependencies in vignettes ... OK
* checking package vignettes in ‘inst/doc’ ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignettes ... 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
** help
*** installing help indices
** building package indices ...
** testing if installed package can be loaded

* DONE (BioSeqClass)

name	user	system	elapsed
basic	0.996	0.004	1.014
classify	11.369	0.452	13.142
featureAAindex	0.000	0.000	0.001
featureBDNAVIDEO	0	0	0
featureBinary	0.000	0.000	0.001
featureCKSAAP	0.000	0.000	0.001
featureCTD	0.004	0.000	0.001
featureDIPRODB	0.000	0.000	0.001
featureDOMAIN	0	0	0
featureEvaluate	0.024	0.000	0.021
featureFragmentComposition	0	0	0
featureGapPairComposition	0.000	0.000	0.001
featureHydro	0	0	0
featurePSSM	0.004	0.000	0.001
featurePseudoAAComp	0	0	0
featureSSC	0.004	0.000	0.003
hr	0.004	0.000	0.003
model	2.436	0.056	2.491
performance	2.328	0.012	2.344
selectFFS	1.212	0.008	1.220