• using R version 2.11.0 Under development (unstable) (2009-11-06 r50317)
• using session charset: UTF-8
• checking for file 'seqinr/DESCRIPTION' ... OK
• this is package 'seqinr' version '2.0-6'
• checking package dependencies ... OK
• checking if this is a source package ... OK
• checking for executable files ... OK
• checking whether package 'seqinr' 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 ... OK
• checking S3 generic/method consistency ... OK
• checking replacement functions ... OK
• checking foreign function calls ... OK
• checking R code for possible problems ... NOTE
  trimSpace: possible error in sub(pattern = pattern, replacement = "", x
  = x, extended = TRUE): unused argument(s) (extended = TRUE)
  words.pos: possible error in regexpr(pattern, text, ignore.case,
  extended, perl, fixed, useBytes, ...): unused argument(s) (useBytes)
• 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 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
• checking examples ... ERROR
  Running examples in 'seqinr-Ex.R' failed.
  The error most likely occurred in:
  
  > ### * trimSpace
  >
  > flush(stderr()); flush(stdout())
  >
  > ### Name: trimSpace
  > ### Title: Trim leading and/or trailing spaces in strings
  > ### Aliases: trimSpace
  > ### Keywords: manip
  >
  > ### ** Examples
  >
  > #
  > # Simple use:
  > #
  > stopifnot( trimSpace(" seqinR ") == "seqinR" )
  Error in sub(pattern = pattern, replacement = "", x = x, extended = TRUE) :
  unused argument(s) (extended = TRUE)
  Calls: stopifnot -> trimSpace -> sub
  Execution halted