Package: MassArray

Version: 1.5.0

Command: D:\biocbld\bbs-2.9-bioc\R\bin\R.exe CMD check --no-vignettes --timings MassArray_1.5.0.tar.gz

StartedAt: 2011-05-09 18:10:30 -0700 (Mon, 09 May 2011)

EndedAt: 2011-05-09 18:12:19 -0700 (Mon, 09 May 2011)

EllapsedTime: 108.7 seconds

RetCode: 0

Status:  OK

CheckDir: MassArray.Rcheck

Warnings: 0

* using log directory 'D:/biocbld/bbs-2.9-bioc/meat/MassArray.Rcheck'
* using R version 2.14.0 Under development (unstable) (2011-04-17 r55484)
* using platform: x86_64-pc-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'MassArray/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'MassArray' version '1.5.0'
* 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 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 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 ...
*** tangling vignette sources ...
   'MassArray.Rnw' 
** testing if installed package can be loaded

* DONE (MassArray)

name	user	system	elapsed
MassArray.example.data	0.01	0.00	0.01
MassArrayData-class	0	0	0
MassArrayFragment-class	0	0	0
MassArrayPeak-class	0	0	0
MassArraySpectrum-class	0	0	0
ampliconPrediction	2.39	0.03	2.44
analyzeCpGs	0.22	0.00	0.22
bisConvert	0	0	0
calcMW	0.02	0.00	0.01
calcMeth	0	0	0
calcPercentAdduct	0.06	0.00	0.06
calcPercentConversion	0.07	0.00	0.07
combine	4.50	0.01	4.51
convControl	0.03	0.00	0.03
countCGs	0	0	0
createWiggle	0.01	0.00	0.02
estimatePrimerDimer	0.10	0.00	0.09
evaluateSNPs	26.72	0.00	26.74
expandSequence	0	0	0
findCollisions	0	0	0
findFragments	0.02	0.00	0.02
findPeaks	0	0	0
identifySNPs	0.03	0.00	0.03
inSilicoFragmentation	0	0	0
isAssayable	0	0	0
numCollisions	0.00	0.02	0.01
plot.MassArrayData	0.03	0.00	0.04
position	0.02	0.00	0.01
revComplement	0	0	0
rnaDigest	0.01	0.00	0.02
samples	0.03	0.00	0.03
sum.MassArraySpectrum	0.71	0.00	0.70