Package: KCsmart

Version: 2.17.1

Command: /home/biocbuild/bbs-2.12-bioc/R/bin/R CMD check --no-vignettes --timings KCsmart_2.17.1.tar.gz

StartedAt: 2013-01-16 03:49:10 -0800 (Wed, 16 Jan 2013)

EndedAt: 2013-01-16 03:52:13 -0800 (Wed, 16 Jan 2013)

EllapsedTime: 182.3 seconds

RetCode: 0

Status:  OK

CheckDir: KCsmart.Rcheck

Warnings: 0

* using log directory ‘/loc/home/biocbuild/bbs-2.12-bioc/meat/KCsmart.Rcheck’
* using R Under development (unstable) (2012-12-17 r61365)
* using platform: x86_64-unknown-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘KCsmart/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘KCsmart’ version ‘2.17.1’
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘KCsmart’ can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over 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 ... 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 contents of ‘data’ directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking installed files from ‘inst/doc’ ... OK
* checking examples ... OK
Examples with CPU or elapsed time > 5s
                       user system elapsed
KCsmart-package      35.718  0.408  36.468
getSigRegionsCompKC  18.333  0.056  18.396
compareSpmCollection 18.321  0.052  19.341
calcSpmCollection    17.449  0.056  17.581
plotScaleSpace        7.113  0.000   7.118
* 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 ‘KCsmart’ ...
** R
** data
** inst
** preparing package for lazy loading
Creating a generic function for ‘write.table’ from package ‘utils’ in package ‘KCsmart’
** help
*** installing help indices
** building package indices
** installing vignettes
   ‘KCS.Rnw’ 
** testing if installed package can be loaded

* DONE (KCsmart)

name	user	system	elapsed
KCsmart-package	35.718	0.408	36.468
calcSpm	2.056	0.008	2.069
calcSpmCollection	17.449	0.056	17.581
compKc-class	0.004	0.000	0.005
compKcSigRegions-class	0.012	0.000	0.010
compareSpmCollection	18.321	0.052	19.341
findSigLevelFdr	4.400	0.024	4.550
findSigLevelTrad	4.277	0.016	4.296
getSigRegionsCompKC	18.333	0.056	18.396
getSigSegments	3.16	0.00	3.16
idPoints	0.032	0.008	0.041
plot	4.408	0.040	4.454
plotScaleSpace	7.113	0.000	7.118
samplePointMatrix-class	0.004	0.000	0.005
sigSegments-class	0.004	0.000	0.004
spmCollection-class	0.012	0.000	0.014
write.table	3.688	0.000	3.689