• using R version 2.10.0 Patched (2009-11-05 r50317)
  • using session charset: UTF-8
  • checking for file 'simba/DESCRIPTION' ... OK
  • checking extension type ... Package
  • this is package 'simba' version '0.2-5'
  • checking package dependencies ... OK
  • checking if this is a source package ... OK
  • checking whether package 'simba' can be installed ... WARNING
    Found the following significant warnings:
    Warning: ./man/sim.yo.Rd:57: unexpected '}'
    Warning: ./man/simba-package.Rd:48: unexpected '}'
    See http://www.r-project.org/nosvn/R.check/r-patched-linux-ix86/simba-00install.html for details.
  • checking package directory ... OK
  • checking for portable file names ... OK
  • checking for sufficient/correct file permissions ... OK
  • checking DESCRIPTION meta-information ... NOTE
    Non-standard license specification:
    GPL version 2
    Standardizable: TRUE
    Standardized license specification:
    GPL-2
  • 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 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
    occ.time: no visible binding for global variable ‘listin’
    plot.diffmich: no visible binding for global variable ‘perm’
    plot.dmn: no visible binding for global variable ‘perm’
    sim.yo: no visible binding for global variable ‘METHODS’
    simn : sia: no visible binding for global variable ‘x’
    Found possibly global 'T' or 'F' in the following function:
    plot.dmn
  • checking Rd files ... WARNING
    prepare_Rd: aslopect.Rd:34-35: Dropping empty section \seealso
    prepare_Rd: dfcor.Rd:54-56: Dropping empty section \examples
    prepare_Rd: diffmich.Rd:46-48: Dropping empty section \examples
    prepare_Rd: makead.Rd:54: Dropping empty section \seealso
    prepare_Rd: occ.time.Rd:51-53: Dropping empty section \examples
    prepare_Rd: sim.pat.Rd:57-59: Dropping empty section \examples
    prepare_Rd: sim.relt.Rd:66-68: Dropping empty section \examples
    prepare_Rd: sim.tmp.Rd:42-44: Dropping empty section \examples
    prepare_Rd: sim.yo.Rd:57: unexpected '}'
    prepare_Rd: simba-package.Rd:48: unexpected '}'
  • checking Rd metadata ... OK
  • checking Rd cross-references ... WARNING
    Missing link(s) in documentation object './man/dist.tmp.Rd':
    ‘[base]{dist}’

    Missing link(s) in documentation object './man/mama.Rd':
    ‘[base]{reshape}’

    Missing link(s) in documentation object './man/pcol.Rd':
    ‘[vegan]{mantell}’

    Missing link(s) in documentation object './man/sim.Rd':
    ‘[simba]{coord}’

    Missing link(s) in documentation object './man/sim.yo.Rd':
    ‘[simba]{coord}’ ‘[stats]{sim}’

    Missing link(s) in documentation object './man/simba-package.Rd':
    ‘[base]{cor.test}’

    See the information in section 'Cross-references' of the 'Writing R
    Extensions' manual.
  • checking for missing documentation entries ... OK
  • checking for code/documentation mismatches ... OK
  • checking Rd \usage sections ... NOTE
    S3 methods shown with full name in documentation object 'plot.mrpp':
    plot.mrpp

    The \usage entries for S3 methods should use the \method markup and not
    their full name.
    See the chapter 'Writing R documentation files' in manual 'Writing R
    Extensions'.
  • checking data for non-ASCII characters ... OK
  • checking examples ... OK
  • checking PDF version of manual ... OK