• using R version 2.9.2 Patched (2009-09-02 r49531)
• using session charset: ISO8859-1
• checking for file 'aroma.affymetrix/DESCRIPTION' ... OK
• this is package 'aroma.affymetrix' version '1.3.0'
• checking package dependencies ... OK
• checking if this is a source package ... OK
• checking whether package 'aroma.affymetrix' can be installed ... OK
• checking package directory ... OK
• checking for portable file names ... 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 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
  doCRMA.default: possible error in header(fileLog, "Log file created by
  doCRMA() in the aroma.affymetrix package"): unused argument(s) ("Log
  file created by doCRMA() in the aroma.affymetrix package")
  doCRMA.default: possible error in header(log, "Setting up raw data
  set(s)"): unused argument(s) ("Setting up raw data set(s)")
  doCRMA.default: possible error in header(log, "Asserting that all
  annotation data needed is available"): unused argument(s) ("Asserting
  that all annotation data needed is available")
  doCRMA.default: possible error in header(log, "Calibrating for allelic
  crosstalk"): unused argument(s) ("Calibrating for allelic crosstalk")
  doCRMA.default: possible error in header(log, "Summarizing probe
  signals"): unused argument(s) ("Summarizing probe signals")
  doCRMA.default: possible error in header(log, "Normalizing for
  fragment-length effects"): unused argument(s) ("Normalizing for
  fragment-length effects")
  doCRMA.default: possible error in header(log, "Returning results"):
  unused argument(s) ("Returning results")
  writeImages.SpatialReporter: possible error in writeImage(df, other =
  refFile, path = path, transforms = colorMap$transforms, palette =
  colorMap$palette, tags = tags, ..., verbose = less(verbose, 5)):
  unused argument(s) (other = refFile, path = path, transforms =
  colorMap$transforms, palette = colorMap$palette, tags = tags, verbose
  = less(verbose, 5))
• checking Rd files ... OK
• checking Rd files against version 2 parser ... OK
• checking Rd cross-references ... OK
• checking for missing documentation entries ... OK
• checking for code/documentation mismatches ... OK
• checking Rd \usage sections ... OK
• checking examples ... OK
• checking PDF version of manual ... OK