Package: aroma.light

Version: 1.18.4

Command: /home/biocbuild/bbs-2.7-bioc/R/bin/R CMD check --no-vignettes --timings aroma.light_1.18.4.tar.gz

StartedAt: 2011-04-07 04:41:27 -0700 (Thu, 07 Apr 2011)

EndedAt: 2011-04-07 04:42:40 -0700 (Thu, 07 Apr 2011)

EllapsedTime: 72.6 seconds

RetCode: 0

Status:  OK

CheckDir: aroma.light.Rcheck

Warnings: 0

* using log directory ‘/loc/home/biocbuild/bbs-2.7-bioc/meat/aroma.light.Rcheck’
* using R version 2.12.2 (2011-02-25)
* 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 ‘1.18.4’
* 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	0.004
backtransformPrincipalCurve.matrix	0.856	0.000	0.858
calibrateMultiscan.matrix	0	0	0
callNaiveGenotypes.numeric	0.536	0.008	0.542
distanceBetweenLines	0.024	0.000	0.024
findPeaksAndValleys.density	0.056	0.000	0.057
fitPrincipalCurve.matrix	0.548	0.008	0.558
fitXYCurve.matrix	0.064	0.000	0.065
iwpca.matrix	0.020	0.000	0.017
likelihood.smooth.spline	0.380	0.004	0.384
medianPolish.matrix	0.008	0.000	0.008
normalizeAffine.matrix	18.077	0.008	18.083
normalizeCurveFit.matrix	17.905	0.024	17.931
normalizeDifferencesToAverage.list	0.02	0.00	0.02
normalizeFragmentLength	0.756	0.004	0.762
normalizeQuantileRank.list	0.128	0.000	0.127
normalizeQuantileRank.matrix	0.1	0.0	0.1
normalizeQuantileSpline.matrix	2.384	0.004	2.388
normalizeTumorBoost.numeric	0.096	0.004	0.102
robustSmoothSpline	0.056	0.000	0.092
sampleCorrelations.matrix	0.164	0.000	0.162
sampleTuples	0.000	0.000	0.001
weightedMedian	4.588	0.072	4.659
wpca.matrix	0.076	0.000	0.074