• using R version 2.15.0 Patched (2012-05-19 r59366)
• using platform: x86_64-unknown-linux-gnu (64-bit)
• using session charset: UTF-8
• checking for file ‘scaRabee/DESCRIPTION’ ... OK
• checking extension type ... Package
• this is package ‘scaRabee’ version ‘1.1-2’
• 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 for executable files ... OK
• checking whether package ‘scaRabee’ can be installed ... OK
• checking installed package size ... 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 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 ‘scaRabee/R/zzz.R’:
  .onLoad calls:
  require(lattice)
  require(grid)
  require(deSolve)
  require(neldermead)
  require(utils)
  
  Package startup functions should not change the search path.
  See section ‘Good practice’ in ?.onAttach.
  
  fitmle: warning in fminsearch(fun = obj.fun, x = x0, options =
  options): partial argument match of 'x' to 'x0'
  scarabee.read.data: no visible binding for global variable ‘TRT’
• 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 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:
  ‘bound.parameters.tex’, ‘compute.secondary.tex’,
  ‘convert.infusion.tex’, ‘create.intervals.tex’, ‘dde.model.tex’,
  ‘dde.utils.tex’, ‘estimation.plot.tex’, ‘examples.data.tex’,
  ‘explicit.model.tex’, ‘finalize.grid.report.tex’,
  ‘finalize.report.tex’, ‘fitmle.cov.tex’, ‘fitmle.tex’,
  ‘get.cov.matrix.tex’, ‘get.events.tex’, ‘get.layout.tex’,
  ‘get.param.data.tex’, ‘get.parms.data.tex’, ‘get.secondary.tex’,
  ‘initialize.report.tex’, ‘ode.model.tex’, ‘ode.utils.tex’,
  ‘order.param.list.tex’, ‘order.parms.list.tex’, ‘pder.tex’,
  ‘problem.eval.tex’, ‘residual.report.tex’, ‘scaRabee-package.tex’,
  ‘scarabee.analysis.tex’, ‘scarabee.check.model.tex’,
  ‘scarabee.check.reserved.tex’, ‘scarabee.clean.tex’,
  ‘scarabee.directory.tex’, ‘scarabee.gridsearch.tex’,
  ‘scarabee.new.tex’, ‘scarabee.read.data.tex’,
  ‘scarabee.read.model.tex’, ‘scarabee.read.parms.tex’,
  ‘simulation.plot.tex’, ‘simulation.report.tex’, ‘weighting.tex’
  
  Consider the use of a .Rinstignore file: see ‘Writing R Extensions’,
  or move the vignette sources from ‘inst/doc’ to ‘vignettes’.
• checking examples ... [3s/3s] OK
• checking for unstated dependencies in vignettes ... OK
• checking package vignettes in ‘inst/doc’ ... OK
• checking running R code from vignettes ... [1s/1s] OK
• checking re-building of vignette PDFs ... [3s/4s] OK
• checking PDF version of manual ... OK
  NOTE: There were 2 notes.
  See
  ‘/home/hornik/tmp/R.check/r-patched/Work/PKGS/scaRabee.Rcheck/00check.log’
  for details.