• using R version 2.9.1 (2009-06-26)
• using session charset: ASCII
• checking for file 'CADStat/DESCRIPTION' ... OK
• this is package 'CADStat' version '2.1-21'
• checking package dependencies ... OK
• checking if this is a source package ... OK
• checking for executable files ... OK
• checking whether package 'CADStat' can be installed ... 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 for unstated dependencies in R code ... WARNING
  2009-07-17 21:19:15.942 R[2238] [Java CocoaComponent compatibility mode]: Enabled
  2009-07-17 21:19:15.942 R[2238] [Java CocoaComponent compatibility mode]: Setting timeout for SWT to 0.100000
  See the information on DESCRIPTION files in the chapter 'Creating R
  packages' of the 'Writing R Extensions' manual.
• checking S3 generic/method consistency ... WARNING
  2009-07-17 21:19:29.572 R[2417] [Java CocoaComponent compatibility mode]: Enabled
  2009-07-17 21:19:29.572 R[2417] [Java CocoaComponent compatibility mode]: Setting timeout for SWT to 0.100000
  See section 'Generic functions and methods' of the 'Writing R Extensions'
  manual.
• checking replacement functions ... WARNING
  2009-07-17 21:19:43.294 R[2556] [Java CocoaComponent compatibility mode]: Enabled
  2009-07-17 21:19:43.294 R[2556] [Java CocoaComponent compatibility mode]: Setting timeout for SWT to 0.100000
  In R, the argument of a replacement function which corresponds to the right
  hand side must be named 'value'.
• checking foreign function calls ... WARNING
  2009-07-17 21:19:57.197 R[2601] [Java CocoaComponent compatibility mode]: Enabled
  2009-07-17 21:19:57.198 R[2601] [Java CocoaComponent compatibility mode]: Setting timeout for SWT to 0.100000
  See the chapter 'System and foreign language interfaces' of the 'Writing R
  Extensions' manual.
• checking R code for possible problems ... NOTE
  2009-07-17 21:20:10.314 R[2676] [Java CocoaComponent compatibility mode]: Enabled
  2009-07-17 21:20:10.314 R[2676] [Java CocoaComponent compatibility mode]: Setting timeout for SWT to 0.100000
  bioinfer.new.JGR: no visible binding for global variable 'errorMessage'
  2009-07-17 21:20:29.465 R[2789] [Java CocoaComponent compatibility mode]: Enabled
  2009-07-17 21:20:29.465 R[2789] [Java CocoaComponent compatibility mode]: Setting timeout for SWT to 0.100000
• checking Rd files ... OK
• checking Rd files against version 2 parser ... OK
• checking Rd cross-references ... OK
• checking for missing documentation entries ... WARNING
  2009-07-17 21:20:45.437 R[3194] [Java CocoaComponent compatibility mode]: Enabled
  2009-07-17 21:20:45.437 R[3194] [Java CocoaComponent compatibility mode]: Setting timeout for SWT to 0.100000
  All user-level objects in a package should have documentation entries.
  See the chapter 'Writing R documentation files' in manual 'Writing R
  Extensions'.
• checking for code/documentation mismatches ... WARNING
  2009-07-17 21:20:55.977 R[3619] [Java CocoaComponent compatibility mode]: Enabled
  2009-07-17 21:20:55.978 R[3619] [Java CocoaComponent compatibility mode]: Setting timeout for SWT to 0.100000
  2009-07-17 21:21:06.211 R[4072] [Java CocoaComponent compatibility mode]: Enabled
  2009-07-17 21:21:06.211 R[4072] [Java CocoaComponent compatibility mode]: Setting timeout for SWT to 0.100000
  2009-07-17 21:21:15.029 R[4196] [Java CocoaComponent compatibility mode]: Enabled
  2009-07-17 21:21:15.029 R[4196] [Java CocoaComponent compatibility mode]: Setting timeout for SWT to 0.100000
• checking Rd \usage sections ... NOTE
  2009-07-17 21:21:25.107 R[4357] [Java CocoaComponent compatibility mode]: Enabled
  2009-07-17 21:21:25.107 R[4357] [Java CocoaComponent compatibility mode]: Setting timeout for SWT to 0.100000
  The \usage entries for S3 methods should use the \method markup and not
  their full name.
  See the chapter 'Writing R documentation files' in manual 'Writing R
  Extensions'.
• checking examples ... OK
• checking PDF version of manual ... OK
• elapsed time (check, wall clock): 3:46