• using R Under development (unstable) (2012-05-19 r59366)
• using platform: x86_64-unknown-linux-gnu (64-bit)
• using session charset: UTF-8
• checking for file ‘treethresh/DESCRIPTION’ ... OK
• this is package ‘treethresh’ version ‘0.1-5’
• 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 ‘treethresh’ 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 loading without being on the library search path ... 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
  prune.treethresh: warning in axis(1, at = ns, lab =
  c(format(C.values[-length(C.values)], digits = 3), ">1")): partial
  argument match of 'lab' to 'labels'
  prune.treethresh: warning in axis(3, at = ns, lab =
  as.character(sizes(object))): partial argument match of 'lab' to
  'labels'
  prune.wtthresh: warning in axis(1, at = ns, lab =
  c(format(C.values[-length(C.values)], digits = 3), ">1")): partial
  argument match of 'lab' to 'labels'
  prune.wtthresh: warning in axis(3, at = ns, lab =
  as.character(get.sizes(object))): partial argument match of 'lab' to
  'labels'
• 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 'coefficients':
  ‘extract.coefficients.wd’ ‘insert.coefficients.wd’
  ‘extract.coefficients.imwd’ ‘insert.coefficients.imwd’
  
  S3 methods shown with full name in documentation object 'estimate.sdev':
  ‘estimate.sdev.wd’ ‘estimate.sdev.imwd’
  
  S3 methods shown with full name in documentation object 'get.t':
  ‘get.t.treethresh’ ‘get.t.wtthresh’
  
  S3 methods shown with full name in documentation object 'get.w':
  ‘get.w.treethresh’ ‘get.w.wtthresh’
  
  S3 methods shown with full name in documentation object 'prune':
  ‘prune.treethresh’ ‘prune.wtthresh’
  
  S3 methods shown with full name in documentation object 'subtree':
  ‘subtree.treethresh’ ‘subtree.wtthresh’
  
  S3 methods shown with full name in documentation object 'thresh':
  ‘thresh.treethresh’ ‘thresh.wtthresh’
  
  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 ... WARNING
  
  Note: significantly better compression could be obtained
  by using R CMD build --resave-data
  old_size new_size compress
  tiles.RData 14Kb 4Kb xz
  trees.RData 249Kb 154Kb bzip2
• 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) and $(LAPACK_LIBS) ... OK
• checking compiled code ... OK
• checking sizes of PDF files under ‘inst/doc’ ... OK
• checking installed files from ‘inst/doc’ ... OK
• checking examples ... [5s/5s] OK
• checking for unstated dependencies in vignettes ... OK
• checking package vignettes in ‘inst/doc’ ... OK
• checking running R code from vignettes ... [5s/5s] OK
• checking re-building of vignette PDFs ... [6s/7s] OK
• checking PDF version of manual ... OK
  WARNING: There was 1 warning.
  NOTE: There were 2 notes.
  See
  ‘/home/hornik/tmp/R.check/r-devel/Work/PKGS/treethresh.Rcheck/00check.log’
  for details.