Package: KCsmart

Version: 2.18.0

Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch KCsmart_2.18.0.tar.gz

StartedAt: 2013-05-01 07:16:28 -0700 (Wed, 01 May 2013)

EndedAt: 2013-05-01 07:20:31 -0700 (Wed, 01 May 2013)

EllapsedTime: 242.4 seconds

RetCode: 0

Status:  OK

CheckDir: KCsmart.Rcheck

Warnings: 0

* using log directory '/Users/biocbuild/bbs-2.12-bioc/meat/KCsmart.Rcheck'
* using R version 3.0.0 Patched (2013-04-08 r62531)
* using platform: x86_64-apple-darwin10.8.0 (64-bit)
* using session charset: ASCII
* using option '--no-vignettes'
* checking for file 'KCsmart/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'KCsmart' version '2.18.0'
* 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 ... [7s/7s] 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 ... [162s/168s] OK
Examples with CPU or elapsed time > 5s
                       user system elapsed
KCsmart-package      39.813  3.321  44.398
getSigRegionsCompKC  21.693  3.391  26.027
calcSpmCollection    21.026  3.782  25.533
compareSpmCollection 20.670  3.800  25.072
plotScaleSpace        9.060  1.440  10.852
findSigLevelFdr       5.548  0.856   6.684
plot                  5.465  0.771   6.464
findSigLevelTrad      5.156  0.802   6.137
* 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
** testing if installed package can be loaded
* DONE (KCsmart)

name	user	system	elapsed
KCsmart-package	39.813	3.321	44.398
calcSpm	2.748	0.385	3.290
calcSpmCollection	21.026	3.782	25.533
compKc-class	0.004	0.006	0.009
compKcSigRegions-class	0.010	0.016	0.025
compareSpmCollection	20.670	3.800	25.072
findSigLevelFdr	5.548	0.856	6.684
findSigLevelTrad	5.156	0.802	6.137
getSigRegionsCompKC	21.693	3.391	26.027
getSigSegments	4.009	0.766	4.938
idPoints	0.021	0.009	0.032
plot	5.465	0.771	6.464
plotScaleSpace	9.060	1.440	10.852
samplePointMatrix-class	0.004	0.005	0.008
sigSegments-class	0.003	0.004	0.007
spmCollection-class	0.003	0.003	0.006
write.table	4.137	0.739	4.994