Package: aroma.light

Version: 1.19.3

Command: /home/biocbuild/bbs-2.8-bioc/R/bin/R CMD check --no-vignettes --timings aroma.light_1.19.3.tar.gz

StartedAt: 2011-02-24 17:27:21 -0800 (Thu, 24 Feb 2011)

EndedAt: 2011-02-24 17:28:34 -0800 (Thu, 24 Feb 2011)

EllapsedTime: 72.6 seconds

RetCode: 0

Status:  OK

CheckDir: aroma.light.Rcheck

Warnings: 0

* using log directory ‘/loc/home/biocbuild/bbs-2.8-bioc/meat/aroma.light.Rcheck’
* using R version 2.13.0 Under development (unstable) (2011-01-10 r53950)
* using platform: x86_64-unknown-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘aroma.light/DESCRIPTION’ ... OK
* this is package ‘aroma.light’ version ‘1.19.3’
* package encoding: latin1
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package ‘aroma.light’ 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 ... NOTE
'library' or 'require' call not declared from: R.basic
* checking examples ... OK
* checking PDF version of manual ... OK

* installing *source* package ‘aroma.light’ ...
** R
** inst
** preparing package for lazy loading
R.methodsS3 v1.2.1 (2010-09-18) successfully loaded. See ?R.methodsS3 for help.
** help
*** installing help indices
** building package indices ...
** testing if installed package can be loaded

* DONE (aroma.light)

name	user	system	elapsed
backtransformAffine.matrix	0.004	0.000	0.003
backtransformPrincipalCurve.matrix	0.844	0.008	0.853
calibrateMultiscan.matrix	0	0	0
callNaiveGenotypes.numeric	0.536	0.008	0.555
distanceBetweenLines	0.020	0.004	0.024
findPeaksAndValleys.density	0.052	0.000	0.052
fitPrincipalCurve.matrix	0.584	0.008	0.592
fitXYCurve.matrix	0.064	0.000	0.064
iwpca.matrix	0.020	0.000	0.018
likelihood.smooth.spline	0.344	0.000	0.343
medianPolish.matrix	0.004	0.004	0.006
normalizeAffine.matrix	17.957	0.036	18.018
normalizeCurveFit.matrix	17.901	0.016	17.929
normalizeDifferencesToAverage.list	0.020	0.000	0.021
normalizeFragmentLength	0.768	0.012	0.779
normalizeQuantileRank.list	0.124	0.000	0.125
normalizeQuantileRank.matrix	0.068	0.000	0.067
normalizeQuantileSpline.matrix	2.344	0.008	2.353
normalizeTumorBoost.numeric	0.092	0.004	0.096
robustSmoothSpline	0.060	0.000	0.103
sampleCorrelations.matrix	0.196	0.000	0.195
sampleTuples	0.004	0.000	0.001
weightedMedian	4.700	0.068	4.773
wpca.matrix	0.068	0.004	0.071