• using R version 2.11.1 Patched (2010-07-29 r52657)
• using session charset: ISO8859-1
• checking for file 'SNPMaP/DESCRIPTION' ... OK
• checking extension type ... Package
• this is package 'SNPMaP' version '1.0.2'
• checking package dependencies ... OK
• checking if this is a source package ... OK
• checking whether package 'SNPMaP' can be installed ... 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
• 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 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 ... OK
• checking Rd files ... WARNING
  checkRd: (5) SNPMaP-package.Rd:4-6: \title content must be plain text
• checking Rd metadata ... OK
• checking Rd cross-references ... OK
• checking for missing documentation entries ... OK
• checking for code/documentation mismatches ... WARNING
  Codoc mismatches from documentation object 'SNPMaP-class':
  \S4method{plot}{SNPMaP,missing}
  Code: function(x, FUN = function(x) { x}, xlim = c(loX, hiX), ylim =
  c(0, hiY), xlab = "guess", ylab = "Density", main =
  "", col = rainbow(length(x@chps)), legend.position =
  "left", legend.bty = "n", lty = 1:length(x@chps),
  zero.line = TRUE, ...)
  Docs: function(x, FUN = function(x) { x}, xlim = c(loX, hiX), ylim =
  c(0, hiY), xlab = "guess", ylab = "Density", main =
  x@table, col = rainbow(length(x@chps)),
  legend.position = "left", legend.bty = "n", lty =
  1:length(x@chps), zero.line = TRUE, ...)
  Mismatches in argument default values:
  Name: 'main' Code: "" Docs: x@table
  \S4method{boxplot}{SNPMaP}
  Code: function(x, FUN = function(x) { x}, ylab = "guess", main = "",
  ...)
  Docs: function(x, FUN = function(x) { x}, ylab = "guess", main =
  x@table, ...)
  Mismatches in argument default values:
  Name: 'main' Code: "" Docs: x@table
  
• checking Rd \usage sections ... OK
• checking Rd contents ... OK
• checking examples ... OK
• checking PDF version of manual ... OK