Package: aroma.light

Version: 1.20.0

Command: /home/biocbuild/bbs-2.8-bioc/R/bin/R CMD check --no-vignettes --timings aroma.light_1.20.0.tar.gz

StartedAt: 2011-10-20 11:41:15 -0700 (Thu, 20 Oct 2011)

EndedAt: 2011-10-20 11:42:32 -0700 (Thu, 20 Oct 2011)

EllapsedTime: 77.1 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 2.13.2 (2011-09-30)
* using platform: x86_64-unknown-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘aroma.light/DESCRIPTION’ ... OK
* this is package ‘aroma.light’ version ‘1.20.0’
* package encoding: latin1
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package ‘aroma.light’ 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 ... 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
** 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	0.736	0.008	0.746
calibrateMultiscan.matrix	0	0	0
callNaiveGenotypes.numeric	0.624	0.016	0.638
distanceBetweenLines	0.024	0.000	0.023
findPeaksAndValleys.density	0.068	0.000	0.065
fitPrincipalCurve.matrix	0.508	0.012	0.678
fitXYCurve.matrix	0.068	0.004	0.135
iwpca.matrix	0.020	0.000	0.039
likelihood.smooth.spline	0.200	0.000	0.302
medianPolish.matrix	0.012	0.000	0.009
normalizeAffine.matrix	18.293	0.028	18.603
normalizeCurveFit.matrix	18.221	0.012	18.288
normalizeDifferencesToAverage.list	0.020	0.000	0.021
normalizeFragmentLength	0.840	0.012	0.854
normalizeQuantileRank.list	0.160	0.000	0.157
normalizeQuantileRank.matrix	0.116	0.000	0.117
normalizeQuantileSpline.matrix	2.380	0.004	2.384
normalizeTumorBoost.numeric	0.080	0.012	0.111
robustSmoothSpline	0.052	0.000	0.051
sampleCorrelations.matrix	0.164	0.000	0.165
sampleTuples	0.000	0.000	0.001
weightedMedian	5.465	0.076	5.732
wpca.matrix	0.076	0.000	0.075