* using log directory 'd:/Rcompile/CRANpkg/local/2.6/supclust.Rcheck'
* using R version 2.6.2 (2008-02-08)
* checking for file 'supclust/DESCRIPTION' ... OK
* this is package 'supclust' version '1.0-5'
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'supclust' 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 ... WARNING
'library' or 'require' calls not declared from:
  class rpart
See the information on DESCRIPTION files in the chapter 'Creating R
packages' of the 'Writing R Extensions' manual.
* 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 ... WARNING
Rd files with unknown encoding:
  coef.pelora.Rd
  dlda.Rd
  fitted.pelora.Rd
  fitted.wilma.Rd
  margin.Rd
  pelora.Rd
  plot.pelora.Rd
  plot.wilma.Rd
  predict.pelora.Rd
  predict.wilma.Rd
  print.pelora.Rd
  print.wilma.Rd
  score.Rd
  sign.change.Rd
  signflip.Rd
  standardize.genes.Rd
  summary.pelora.Rd
  summary.wilma.Rd
  wilma.Rd

See the chapter 'Writing R documentation files' in manual 'Writing R
Extensions'.
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... NOTE
S3 methods shown with full name in documentation object 'coef.pelora':
  coef.pelora

S3 methods shown with full name in documentation object 'fitted.pelora':
  fitted.pelora

S3 methods shown with full name in documentation object 'fitted.wilma':
  fitted.wilma

S3 methods shown with full name in documentation object 'plot.pelora':
  plot.pelora

S3 methods shown with full name in documentation object 'plot.wilma':
  plot.wilma

S3 methods shown with full name in documentation object 'predict.pelora':
  predict.pelora

S3 methods shown with full name in documentation object 'predict.wilma':
  predict.wilma

S3 methods shown with full name in documentation object 'print.pelora':
  print.pelora

S3 methods shown with full name in documentation object 'print.wilma':
  print.wilma

S3 methods shown with full name in documentation object 'summary.pelora':
  summary.pelora

S3 methods shown with full name in documentation object 'summary.wilma':
  summary.wilma

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 data for non-ASCII characters ... OK
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking line endings in Makefiles ... OK
* checking for portable compilation flags in Makevars ... OK
* checking for portable use of $BLAS_LIBS ... OK
* creating supclust-Ex.R ... OK
* checking examples ... OK
* checking tests ... OK
* creating supclust-manual.tex ... OK
* checking supclust-manual.tex ... OK