• using R Under development (unstable) (2012-08-14 r60253)
• using platform: x86_64-unknown-linux-gnu (64-bit)
• using session charset: UTF-8
• checking for file ‘BiodiversityR/DESCRIPTION’ ... OK
• checking extension type ... Package
• this is package ‘BiodiversityR’ version ‘1.6’
• 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 whether package ‘BiodiversityR’ 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
  multiconstrained: warning in assign("newenvdata", data1, env =
  .GlobalEnv): partial argument match of 'env' to 'envir'
  multiconstrained: warning in assign("newcommunity", comm1, env =
  .GlobalEnv): partial argument match of 'env' to 'envir'
  nested.anova.dbrda: warning in assign("data1", data, env = .GlobalEnv):
  partial argument match of 'env' to 'envir'
  nested.anova.dbrda: warning in capscale(formula1, data = data1, dist =
  method, add = add): partial argument match of 'dist' to 'distance'
  nested.anova.dbrda: warning in assign("testenv", data2, env =
  parent.frame()): partial argument match of 'env' to 'envir'
  nested.anova.dbrda: warning in capscale(formula1, data = testenv, dist
  = method, add = add): partial argument match of 'dist' to 'distance'
  nested.npmanova: warning in assign("data1", data, env = .GlobalEnv):
  partial argument match of 'env' to 'envir'
  nested.npmanova: warning in assign("testenv", data2, env =
  parent.frame()): partial argument match of 'env' to 'envir'
  residualssurface: warning in filled.contour(interp(xpos, ypos, fitted,
  duplicate = "mean"), color = terrain.colors): partial argument match
  of 'color' to 'color.palette'
  import.from.Access: no visible global function definition for
  ‘odbcConnectAccess’
  import.from.Excel: no visible global function definition for
  ‘odbcConnectExcel’
• 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 ... OK
• checking examples ... [16s/16s] OK
• checking PDF version of manual ... OK
  NOTE: There was 1 note.
  See
  ‘/data/blackswan/ripley/R/packages/tests-devel/BiodiversityR.Rcheck/00check.log’
  for details.