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: 2011-02-24 20:12:07 -0800 (Thu, 24 Feb 2011)

EndedAt: 2011-02-24 20:13:37 -0800 (Thu, 24 Feb 2011)

EllapsedTime: 89.9 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) (2011-01-10 r53950)
* using platform: i386-apple-darwin9.8.0 (32-bit)
* using session charset: UTF-8
* 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 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 data for non-ASCII characters ... 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	0.003	0.023
MassArrayData-class	0.003	0.000	0.003
MassArrayFragment-class	0.003	0.000	0.004
MassArrayPeak-class	0.003	0.001	0.003
MassArraySpectrum-class	0.002	0.000	0.002
ampliconPrediction	3.204	0.017	3.223
analyzeCpGs	0.309	0.003	0.312
bisConvert	0.000	0.001	0.001
calcMW	0.003	0.000	0.003
calcMeth	0.020	0.002	0.021
calcPercentAdduct	0.092	0.002	0.093
calcPercentConversion	0.070	0.002	0.072
combine	6.149	0.026	6.179
convControl	0.041	0.003	0.044
countCGs	0	0	0
createWiggle	0.031	0.003	0.033
estimatePrimerDimer	0.106	0.003	0.109
evaluateSNPs	36.409	0.074	36.511
expandSequence	0.001	0.001	0.002
findCollisions	0	0	0
findFragments	0.026	0.002	0.028
findPeaks	0.000	0.000	0.001
identifySNPs	0.040	0.001	0.040
inSilicoFragmentation	0.017	0.002	0.018
isAssayable	0.001	0.001	0.001
numCollisions	0.000	0.000	0.001
plot.MassArrayData	0.058	0.002	0.060
position	0.031	0.002	0.034
revComplement	0.001	0.001	0.001
rnaDigest	0.010	0.001	0.011
samples	0.050	0.001	0.052
sum.MassArraySpectrum	0.875	0.003	0.878