Package: MassArray

Version: 1.4.0

Command: /home/biocbuild/bbs-2.8-bioc/R/bin/R CMD check --no-vignettes --timings MassArray_1.4.0.tar.gz

StartedAt: 2011-10-20 13:26:26 -0700 (Thu, 20 Oct 2011)

EndedAt: 2011-10-20 13:27:35 -0700 (Thu, 20 Oct 2011)

EllapsedTime: 68.5 seconds

RetCode: 0

Status:  OK

CheckDir: MassArray.Rcheck

Warnings: 0

* using log directory ‘/loc/home/biocbuild/bbs-2.8-bioc/meat/MassArray.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 ‘MassArray/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘MassArray’ version ‘1.4.0’
* checking package namespace 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 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 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 ‘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	0.012	0.008	0.018
MassArrayData-class	0.000	0.000	0.002
MassArrayFragment-class	0.000	0.000	0.001
MassArrayPeak-class	0.000	0.000	0.001
MassArraySpectrum-class	0.000	0.000	0.001
ampliconPrediction	2.724	0.008	2.740
analyzeCpGs	0.256	0.000	0.281
bisConvert	0	0	0
calcMW	0.004	0.000	0.003
calcMeth	0.012	0.000	0.013
calcPercentAdduct	0.072	0.000	0.076
calcPercentConversion	0.056	0.000	0.062
combine	6.796	0.008	6.908
convControl	0.028	0.000	0.028
countCGs	0	0	0
createWiggle	0.012	0.000	0.012
estimatePrimerDimer	0.072	0.004	0.078
evaluateSNPs	28.406	0.012	29.591
expandSequence	0.000	0.000	0.001
findCollisions	0	0	0
findFragments	0.016	0.000	0.027
findPeaks	0	0	0
identifySNPs	0.032	0.000	0.030
inSilicoFragmentation	0.012	0.000	0.013
isAssayable	0	0	0
numCollisions	0	0	0
plot.MassArrayData	0.040	0.004	0.042
position	0.020	0.000	0.022
revComplement	0.000	0.000	0.001
rnaDigest	0.008	0.000	0.007
samples	0.044	0.000	0.043
sum.MassArraySpectrum	0.796	0.000	0.848