Package: MassArray

Version: 1.3.1

Command: /Library/Frameworks/R.framework/Versions/2.13/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch MassArray_1.3.1.tar.gz

StartedAt: 2011-03-17 16:48:37 -0700 (Thu, 17 Mar 2011)

EndedAt: 2011-03-17 16:49:46 -0700 (Thu, 17 Mar 2011)

EllapsedTime: 68.2 seconds

RetCode: 0

Status:  OK

CheckDir: MassArray.Rcheck

Warnings: 0

* using log directory '/Users/biocbuild/bbs-2.8-bioc/meat/MassArray.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 'MassArray/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'MassArray' version '1.3.1'
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'MassArray' can be installed ... OK
* checking installed package size ... 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 ... 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 examples ... OK
* checking package vignettes in 'inst/doc' ... SKIPPED
* checking PDF version of manual ... OK

* installing *source* package 'MassArray' ...
** R
** data
**  moving datasets to lazyload DB
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices ...
** testing if installed package can be loaded

* DONE (MassArray)

name	user	system	elapsed
MassArray.example.data	0.019	0.002	0.020
MassArrayData-class	0.001	0.000	0.002
MassArrayFragment-class	0.001	0.000	0.001
MassArrayPeak-class	0.001	0.001	0.001
MassArraySpectrum-class	0.000	0.000	0.001
ampliconPrediction	2.463	0.005	2.469
analyzeCpGs	0.239	0.001	0.240
bisConvert	0.000	0.000	0.001
calcMW	0.001	0.001	0.001
calcMeth	0.017	0.000	0.018
calcPercentAdduct	0.073	0.001	0.074
calcPercentConversion	0.051	0.000	0.052
combine	4.437	0.009	4.446
convControl	0.029	0.002	0.030
countCGs	0.000	0.000	0.001
createWiggle	0.015	0.001	0.017
estimatePrimerDimer	0.085	0.003	0.088
evaluateSNPs	29.439	0.145	29.585
expandSequence	0.001	0.000	0.001
findCollisions	0	0	0
findFragments	0.019	0.001	0.020
findPeaks	0.000	0.000	0.001
identifySNPs	0.031	0.001	0.032
inSilicoFragmentation	0.011	0.001	0.013
isAssayable	0.001	0.000	0.000
numCollisions	0.001	0.000	0.000
plot.MassArrayData	0.044	0.001	0.044
position	0.020	0.001	0.021
revComplement	0.001	0.001	0.000
rnaDigest	0.007	0.001	0.008
samples	0.033	0.001	0.034
sum.MassArraySpectrum	0.663	0.004	0.667