Package: MassArray

Version: 1.4.0

Command: D:\biocbld\bbs-2.8-bioc\R\bin\R.exe CMD check --no-vignettes --timings --no-multiarch MassArray_1.4.0.tar.gz

StartedAt: 2011-10-20 15:17:04 -0700 (Thu, 20 Oct 2011)

EndedAt: 2011-10-20 15:18:09 -0700 (Thu, 20 Oct 2011)

EllapsedTime: 65.5 seconds

RetCode: 0

Status:  WARNINGS

CheckDir: MassArray.Rcheck

Warnings: 1

* using log directory 'D:/biocbld/bbs-2.8-bioc/meat/MassArray.Rcheck'
* using R version 2.13.2 (2011-09-30)
* 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 '1.4.0'
* 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 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' ... WARNING
Package vignette(s) without corresponding PDF:
   MassArray.Rnw

* checking running R code from vignettes ... SKIPPED
* checking re-building of vignettes ... SKIPPED
* checking PDF version of manual ... OK

WARNING: There was 1 warning, see
  'D:/biocbld/bbs-2.8-bioc/meat/MassArray.Rcheck/00check.log'
for details

* 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	0.02	0.00	0.02
MassArrayData-class	0	0	0
MassArrayFragment-class	0	0	0
MassArrayPeak-class	0	0	0
MassArraySpectrum-class	0	0	0
ampliconPrediction	2.44	0.00	2.44
analyzeCpGs	0.26	0.00	0.26
bisConvert	0	0	0
calcMW	0	0	0
calcMeth	0.02	0.00	0.02
calcPercentAdduct	0.08	0.00	0.08
calcPercentConversion	0.06	0.00	0.06
combine	5.3	0.0	5.3
convControl	0.03	0.00	0.03
countCGs	0	0	0
createWiggle	0.01	0.00	0.01
estimatePrimerDimer	0.11	0.00	0.11
evaluateSNPs	27.28	0.02	27.33
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	0.02	0.00	0.01
isAssayable	0	0	0
numCollisions	0	0	0
plot.MassArrayData	0.03	0.00	0.04
position	0.01	0.00	0.01
revComplement	0	0	0
rnaDigest	0.02	0.00	0.02
samples	0.02	0.00	0.01
sum.MassArraySpectrum	0.54	0.00	0.55