Package: aroma.light

Version: 1.28.0

Command: /home/biocbuild/bbs-2.11-bioc/R/bin/R CMD check --no-vignettes --timings aroma.light_1.28.0.tar.gz

StartedAt: 2013-03-24 23:18:40 -0700 (Sun, 24 Mar 2013)

EndedAt: 2013-03-24 23:20:00 -0700 (Sun, 24 Mar 2013)

EllapsedTime: 79.7 seconds

RetCode: 0

Status:  OK

CheckDir: aroma.light.Rcheck

Warnings: 0

* using log directory ‘/loc/home/biocbuild/bbs-2.11-bioc/meat/aroma.light.Rcheck’
* using R version 2.15.3 (2013-03-01)
* 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 ‘1.28.0’
* package encoding: latin1
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... 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 for left-over 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 examples ... OK
Examples with CPU or elapsed time > 5s
                           user system elapsed
normalizeAffine.matrix   18.025  0.028  18.691
normalizeCurveFit.matrix 17.637  0.028  17.909
* 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	0.000	0.004	0.004
backtransformPrincipalCurve.matrix	0.636	0.012	0.659
calibrateMultiscan.matrix	0	0	0
callNaiveGenotypes.numeric	0.648	0.004	0.691
distanceBetweenLines	0.024	0.000	0.024
findPeaksAndValleys.density	0.128	0.000	0.126
fitPrincipalCurve.matrix	0.452	0.008	0.496
fitXYCurve.matrix	0.072	0.000	0.070
iwpca.matrix	0.02	0.00	0.03
likelihood.smooth.spline	0.172	0.004	0.219
medianPolish.matrix	0.004	0.000	0.009
normalizeAffine.matrix	18.025	0.028	18.691
normalizeCurveFit.matrix	17.637	0.028	17.909
normalizeDifferencesToAverage.list	0.232	0.008	0.240
normalizeFragmentLength	0.916	0.012	0.941
normalizeQuantileRank.list	0.220	0.004	0.226
normalizeQuantileRank.matrix	0.076	0.000	0.077
normalizeQuantileSpline.matrix	2.164	0.000	2.164
normalizeTumorBoost.numeric	0.168	0.004	0.195
robustSmoothSpline	0.072	0.004	0.097
sampleCorrelations.matrix	0.568	0.000	0.570
sampleTuples	0.000	0.000	0.001
wpca.matrix	0.020	0.008	0.030