• using R Under development (unstable) (2013-04-22 r62639)
• using platform: x86_64-unknown-linux-gnu (64-bit)
• using session charset: UTF-8
• checking for file ‘snp.plotter/DESCRIPTION’ ... OK
• this is package ‘snp.plotter’ version ‘0.4’
• 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 for hidden files and directories ... OK
• checking for portable file names ... OK
• checking for sufficient/correct file permissions ... OK
• checking whether package ‘snp.plotter’ can be installed ... OK
• checking installed package size ... OK
• checking package directory ... OK
• checking DESCRIPTION meta-information ... OK
• checking top-level files ... OK
• checking for left-over 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
  snp.plotter : retrieve.data: warning in
  assign(gbl.var$snp.data$SNP.NAME[p], list(position =
  gbl.var$snp.data$LOC[p]), env = gbl.var$snp.hash.names.pos): partial
  argument match of 'env' to 'envir'
  snp.plotter : retrieve.data: warning in
  assign(as.character(gbl.var$snp.data$LOC[p]), list(snp.name =
  gbl.var$snp.data$SNP.NAME[p]), env = gbl.var$snp.hash.pos.names):
  partial argument match of 'env' to 'envir'
  snp.plotter : retrieve.data: warning in ls(env =
  gbl.var$snp.hash.names.pos): partial argument match of 'env' to
  'envir'
  snp.plotter : retrieve.data: warning in ls(env =
  gbl.var$snp.hash.pos.names): partial argument match of 'env' to
  'envir'
  snp.plotter : retrieve.data: warning in get(snp.hash.pos[n], env =
  gbl.var$snp.hash.pos.names): partial argument match of 'env' to
  'envir'
• 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 examples ... OK
• checking PDF version of manual ... OK
  NOTE: There was 1 note.
  See
  ‘/data/blackswan/ripley/R/packages/tests-devel/snp.plotter.Rcheck/00check.log’
  for details.