• using R Under development (unstable) (2012-02-06 r58287)
• using platform: i686-pc-linux-gnu (32-bit)
• using session charset: UTF-8
• checking for file ‘bio.infer/DESCRIPTION’ ... OK
• checking extension type ... Package
• this is package ‘bio.infer’ version ‘1.2-9’
• 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 ‘bio.infer’ 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
  mlsolve: warning in axis(1, at = at0, lab = lab01): partial argument
  match of 'lab' to 'labels'
  mlsolve: warning in axis(2, at = at0, lab = lab02): partial argument
  match of 'lab' to 'labels'
  mlsolve: warning in axis(1, at = at0, lab = lab0): partial argument
  match of 'lab' to 'labels'
  mlsolve: warning in optim(xg, loglik, g = loglik.g, method =
  "L-BFGS-B", lower = rep(0, times = nvar), upper = rep(1, times =
  nvar), c = c, y = mat2[j, ], control = list(fnscale = -1)): partial
  argument match of 'g' to 'gr'
• 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 ... WARNING
  
  Note: significantly better compression could be obtained
  by using R CMD build --resave-data
  old_size new_size compress
  bcnt.OR.rda 56Kb 26Kb xz
  bcnt.emapw.rda 237Kb 93Kb xz
  bcnt.otu.OR.rda 45Kb 32Kb xz
  bcnt.tax.OR.rda 52Kb 36Kb xz
  envdata.OR.rda 17Kb 14Kb xz
  envdata.emapw.rda 48Kb 32Kb xz
  itis.ttable.old.rda 710Kb 395Kb xz
  itis.ttable.rda 802Kb 507Kb xz
  ss.OR.rda 19Kb 12Kb bzip2
  trait.feeding.rda 24Kb 14Kb xz
  trait.habit.rda 11Kb 10Kb bzip2
• checking examples ... [11s/11s] OK
• checking PDF version of manual ... OK
  WARNING: There was 1 warning.
  NOTE: There was 1 note.
  See
  ‘/home/hornik/tmp/R.check/r-devel/Work/PKGS/bio.infer.Rcheck/00check.log’
  for details.