• using R version 2.14.1 Patched (2012-02-07 r58290)
• using platform: x86_64-unknown-linux-gnu (64-bit)
• using session charset: UTF-8
• checking for file ‘statmod/DESCRIPTION’ ... OK
• this is package ‘statmod’ version ‘1.4.14’
• 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 ‘statmod’ 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
  elda: warning in pchisq(dev.g, df = num.group - 1, lower = FALSE):
  partial argument match of 'lower' to 'lower.tail'
  limdil: warning in pchisq(dev.g, df = num.group - 1, lower = FALSE):
  partial argument match of 'lower' to 'lower.tail'
  print.limdil: warning in printCoefmat(a, tst.ind = 1, has.Pvalue =
  TRUE, P.value = TRUE): partial argument match of 'P.value' to
  'P.values'
  sage.test: warning in dbinom(0:isize, p = prob, size = isize): partial
  argument match of 'p' to 'prob'
• checking Rd files ... OK
• checking Rd metadata ... OK
• checking Rd cross-references ... NOTE
  Package(s) unavailable to check Rd xrefs: ‘edgeR’
• 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 examples ... OK
• checking for unstated dependencies in tests ... OK
• checking tests ... OK
  Running ‘statmod-Tests.R’
  Comparing ‘statmod-Tests.Rout’ to ‘statmod-Tests.Rout.save’ ...123,126c123,126
  < [1,] -0.9986108
  < [2,] -1.0304595
  < [3,] -0.8251467
  < [4,] -1.1225345
  ---
  > [1,] -0.99861080
  > [2,] -1.03045955
  > [3,] -1.39088847
  > [4,] -0.07987585
  160c160
  < [4,] -3.989891e-17 -0.1206563
  ---
  > [4,] -1.994946e-17 -0.1206563
  198c198
  < [1,] -7.081629e-13
  ---
  > [1,] -1.675893e-13
  200,201c200,201
  < [3,] -7.480047e-02
  < [4,] 1.783183e+00
  ---
  > [3,] -4.427007e-01
  > [4,] -1.728975e+00
  204c204
  < [1] 2.562050 1.281025
  ---
  > [1] 2.565233 1.282617
  235,236c235,236
  < [4,] -4.788943e-20
  < [5,] 4.788943e-20
  ---
  > [4,] -2.394471e-20
  > [5,] 2.394471e-20
• checking PDF version of manual ... OK