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Package 26/294HostnameOS / ArchBUILDCHECKBUILD BIN
aroma.light 1.10.0
Henrik Bengtsson
Bioconductor Changelog
Snapshot Date: 2009-04-18 11:27:48 -0700 (Sat, 18 Apr 2009)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_3/madman/Rpacks/aroma.light
Last Changed Rev: 34811 / Revision: 38965
Last Changed Date: 2008-10-21 15:32:58 -0700 (Tue, 21 Oct 2008)
wilson2 Linux (openSUSE 11.1) / x86_64  OK  WARNINGS 
liverpool Windows Server 2003 R2 (32-bit) / x64  OK  WARNINGS  OK 
pitt Mac OS X Tiger (10.4.11) / i386  OK  WARNINGS  OK 
pelham Mac OS X Leopard (10.5.6) / i386  OK [ WARNINGS ] OK 
Package: aroma.light
Version: 1.10.0
Command: /Library/Frameworks/R.framework/Versions/2.8/Resources/bin/R CMD check --no-vignettes aroma.light_1.10.0.tar.gz
StartedAt: 2009-04-18 16:55:47 -0700 (Sat, 18 Apr 2009)
EndedAt: 2009-04-18 16:57:16 -0700 (Sat, 18 Apr 2009)
EllapsedTime: 89.0 seconds
RetCode: 0
Status: WARNINGS
CheckDir: aroma.light.Rcheck
Warnings: 1

Command output

* checking for working pdflatex ... OK
* using log directory '/Users/biocbuild/bbs-2.3-bioc/meat/aroma.light.Rcheck'
* using R version 2.8.1 Patched (2009-03-18 r48200)
* using session charset: ASCII
* checking for file 'aroma.light/DESCRIPTION' ... OK
* this is package 'aroma.light' version '1.10.0'
* 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 ... WARNING
Found the following significant warnings:
  WARNING: found \itemize inside \value in file 'medianPolish.matrix.Rd'
See '/Users/biocbuild/bbs-2.3-bioc/meat/aroma.light.Rcheck/00install.out' for details.
* 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 name space can be loaded with stated dependencies ... 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 ... NOTE
robustSmoothSpline.default : smooth.spline.fit: no visible binding for
  global variable 'ns'
robustSmoothSpline.default : smooth.spline0: no visible binding for
  global variable 'ipars'
* checking Rd files ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* creating aroma.light-Ex.R ... OK
* checking examples ... OK
* creating aroma.light-manual.tex ... OK
* checking aroma.light-manual.tex using pdflatex ... OK

WARNING: There was 1 warning, see
  /Users/biocbuild/bbs-2.3-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
Loading required package: R.methodsS3
R.methodsS3 v1.0.3 (2008-07-02) successfully loaded. See ?R.methodsS3 for help.
** help
 >>> Building/Updating help pages for package 'aroma.light'
     Formats: text html latex example 
  1._Calibration_and_Normalization  text    html    latex
  Non-documented_objects            text    html    latex
  aroma.light-package               text    html    latex
  averageQuantile.list              text    html    latex
  backtransformAffine.matrix        text    html    latex   example
  calibrateMultiscan.matrix         text    html    latex   example
  distanceBetweenLines              text    html    latex   example
  fitIWPCA.matrix                   text    html    latex
  iwpca.matrix                      text    html    latex   example
  likelihood.smooth.spline          text    html    latex   example
WARNING: found \itemize inside \value in file 'medianPolish.matrix.Rd'
  medianPolish.matrix               text    html    latex   example
  normalizeAffine.matrix            text    html    latex   example
  normalizeAverage.matrix           text    html    latex
  normalizeCurveFit.matrix          text    html    latex   example
  normalizeFragmentLength           text    html    latex   example
  normalizeQuantileRank.list        text    html    latex   example
  normalizeQuantileRank.matrix      text    html    latex   example
  normalizeQuantileRank.numeric     text    html    latex
  normalizeQuantileSpline.list      text    html    latex
  normalizeQuantileSpline.matrix    text    html    latex   example
  normalizeQuantileSpline.numeric   text    html    latex
  plotDensity.list                  text    html    latex
  plotMvsA.matrix                   text    html    latex
  plotMvsAPairs.matrix              text    html    latex
  plotMvsMPairs.matrix              text    html    latex
  plotXYCurve.matrix                text    html    latex
  plotXYCurve.numeric               text    html    latex
  print.SmoothSplineLikelihood      text    html    latex
  robustSmoothSpline                text    html    latex   example
  sampleCorrelations.matrix         text    html    latex   example
  sampleTuples                      text    html    latex   example
  weightedMedian                    text    html    latex   example
  wpca.matrix                       text    html    latex   example
** building package indices ...
* DONE (aroma.light)