• using R Under development (unstable) (2012-02-27 r58511)
• using platform: x86_64-pc-mingw32 (64-bit)
• using session charset: ISO8859-1
• checking for file 'MethComp/DESCRIPTION' ... OK
• this is package 'MethComp' version '1.3'
• checking package namespace information ... OK
• checking package dependencies ... OK
• checking if this is a source package ... OK
• checking if there is a namespace ... OK
• checking whether package 'MethComp' can be installed ... OK
• checking installed package size ... 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
• loading checks for arch 'i386'
  ** checking whether the package can be loaded ... OK
  ** checking whether the package can be loaded with stated dependencies ... OK
  ** checking whether the package can be unloaded cleanly ... OK
  ** checking whether the namespace can be loaded with stated dependencies ... OK
  ** checking whether the namespace can be unloaded cleanly ... OK
• loading checks for arch 'x64'
  ** checking whether the package can be loaded ... OK
  ** checking whether the package can be loaded with stated dependencies ... OK
  ** checking whether the package can be unloaded cleanly ... OK
  ** checking whether the namespace can be loaded with stated dependencies ... OK
  ** checking whether the namespace can be unloaded cleanly ... 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
  File 'MethComp/R/FL.R':
  .First.lib calls:
  require(nlme)
  
  Package startup functions should not change the search path.
  See section 'Good practice' in ?.onAttach.
  
  BlandAltman: warning in
  pt(abs(difference.mean/(difference.sd/sqrt(n))), n - 1, low = FALSE):
  partial argument match of 'low' to 'lower.tail'
  MCmcmc: warning in bugs(data = data.list, param = names(list.ini[[1]]),
  inits = list.ini, model.file = paste(getwd(), bugs.code.file, sep =
  "/"), n.chains = n.chains, n.iter = n.iter, n.burnin = n.burnin,
  n.thin = n.thin, bugs.dir = bugs.directory, debug = debug, program =
  program, codaPkg = TRUE): partial argument match of 'param' to
  'parameters.to.save'
  MCmcmc: warning in bugs(data = data.list, param = names(list.ini[[1]]),
  inits = list.ini, model.file = paste(getwd(), bugs.code.file, sep =
  "/"), n.chains = n.chains, n.iter = n.iter, n.burnin = n.burnin,
  n.thin = n.thin, bugs.dir = bugs.directory, debug = debug, program =
  program, codaPkg = TRUE): partial argument match of 'bugs.dir' to
  'bugs.directory'
• 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 ... NOTE
  S3 methods shown with full name in documentation object 'plot.MCmcmc':
  'plot.MCmcmc'
  
  S3 methods shown with full name in documentation object 'plot.VarComp':
  'plot.VarComp'
  
  The \usage entries for S3 methods should use the \method markup and not
  their full name.
  See the chapter 'Writing R documentation files' in the 'Writing R
  Extensions' manual.
• checking Rd contents ... OK
• checking for unstated dependencies in examples ... OK
• checking contents of 'data' directory ... OK
• checking data for non-ASCII characters ... OK
• checking data for ASCII and uncompressed saves ... OK
• checking sizes of PDF files under 'inst/doc' ... OK
• checking installed files from 'inst/doc' ... NOTE
  The following files should probably not be installed:
  'Deming.tex'
  
  Consider the use of a .Rinstignore file: see 'Writing R Extensions',
  or move the vignette sources from 'inst/doc' to 'vignettes'.
• checking examples ...
  ** running examples for arch 'i386' ... OK
  ** running examples for arch 'x64' ... OK
• checking for unstated dependencies in vignettes ... OK
• checking package vignettes in 'inst/doc' ... OK
• checking running R code from vignettes ... OK
• checking re-building of vignette PDFs ... OK
• checking PDF version of manual ... OK
  NOTE: There were 3 notes.
  See
  'd:/Rcompile/CRANpkg/local/2.15/MethComp.Rcheck/00check.log'
  for details.