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Package 42/631HostnameOS / ArchBUILDCHECKBUILD BIN
aroma.light 1.29.0
Henrik Bengtsson
Snapshot Date: 2013-01-15 17:01:14 -0800 (Tue, 15 Jan 2013)
URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/aroma.light
Last Changed Rev: 70062 / Revision: 72575
Last Changed Date: 2012-10-01 20:38:42 -0700 (Mon, 01 Oct 2012)
george2 Linux (Ubuntu 12.04.1 LTS) / x86_64  OK  OK 
lamb2 Linux (openSUSE 11.4) / x86_64  OK [ OK ]
moscato2 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  OK  OK  OK 
petty Mac OS X Leopard (10.5.8) / i386  OK  WARNINGS  OK 

Summary

Package: aroma.light
Version: 1.29.0
Command: /home/biocbuild/bbs-2.12-bioc/R/bin/R CMD check --no-vignettes --timings aroma.light_1.29.0.tar.gz
StartedAt: 2013-01-16 00:37:55 -0800 (Wed, 16 Jan 2013)
EndedAt: 2013-01-16 00:39:14 -0800 (Wed, 16 Jan 2013)
EllapsedTime: 78.5 seconds
RetCode: 0
Status:  OK 
CheckDir: aroma.light.Rcheck
Warnings: 0

Command output

* using log directory ‘/loc/home/biocbuild/bbs-2.12-bioc/meat/aroma.light.Rcheck’
* using R Under development (unstable) (2012-12-17 r61365)
* 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 ‘1.29.0’
* 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 for hidden files and directories ... NOTE
Found the following hidden files and directories:
  inst/rsp/.rspPlugins
These were most likely included in error. See section ‘Package
structure’ in the ‘Writing R Extensions’ manual.
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘aroma.light’ can be installed ... OK
* checking installed package size ... OK
* checking package directory ... 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
normalizeCurveFit.matrix 17.625  0.028  17.653
normalizeAffine.matrix   17.537  0.012  17.565
* checking PDF version of manual ... OK

NOTE: There was 1 note.
See
  ‘/loc/home/biocbuild/bbs-2.12-bioc/meat/aroma.light.Rcheck/00check.log’
for details.

aroma.light.Rcheck/00install.out:

* 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)

aroma.light.Rcheck/aroma.light-Ex.timings:

nameusersystemelapsed
backtransformAffine.matrix0.0480.0000.049
backtransformPrincipalCurve.matrix0.9240.0080.933
calibrateMultiscan.matrix0.0040.0000.005
callNaiveGenotypes.numeric0.7800.0160.796
distanceBetweenLines0.0720.0040.075
findPeaksAndValleys.density0.1040.0080.112
fitPrincipalCurve.matrix0.6040.0160.622
fitXYCurve.matrix0.1040.0000.102
iwpca.matrix0.0640.0000.065
likelihood.smooth.spline0.2360.0000.238
medianPolish.matrix0.0280.0000.028
normalizeAffine.matrix17.537 0.01217.565
normalizeCurveFit.matrix17.625 0.02817.653
normalizeDifferencesToAverage.list0.3080.0040.311
normalizeFragmentLength0.9440.0120.963
normalizeQuantileRank.list0.3080.0000.311
normalizeQuantileRank.matrix0.1000.0040.102
normalizeQuantileSpline.matrix2.2800.0042.288
normalizeTumorBoost.numeric0.2120.0080.221
robustSmoothSpline0.1080.0080.139
sampleCorrelations.matrix0.6640.0000.666
sampleTuples0.0080.0040.012
wpca.matrix0.0920.0040.099