• using R version 2.9.1 Patched (2009-07-01 r48886)
• using session charset: UTF-8
• checking for file 'asuR/DESCRIPTION' ... OK
• checking extension type ... Package
• this is package 'asuR' version '0.08-24'
• checking package dependencies ... OK
• checking if this is a source package ... OK
• checking whether package 'asuR' can be installed ... WARNING
  Found the following significant warnings:
  Warning: unmatched right brace in file 'colVars.Rd' on line 28
  Warning: unmatched right brace in file 'growth.Rd' on line 22
  Warning: unmatched right brace in file 'mytrees.Rd' on line 18
  Warning: unmatched right brace in file 'mytrees.Rd' on line 19
  Warning: unmatched right brace in file 'pea.Rd' on line 20
  Warning: unmatched right brace in file 'wellplate.Rd' on line 34
  See http://www.r-project.org/nosvn/R.check/r-patched-linux-ix86/asuR-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 or newer
  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
  dep.glm: no visible binding for global variable ‘my.data’
  lep.glm: no visible binding for global variable ‘response.values’
  lep.glm: no visible binding for global variable ‘my.data’
  nep.lmer: no visible binding for global variable ‘my.data’
  nrp.lmer: no visible binding for global variable ‘fixed.terms.factor’
  nrp.lmer: no visible binding for global variable ‘my.data’
  parseFormula.glm: no visible binding for '<<-' assignment to
  ‘response.var’
  parseFormula.glm: no visible binding for '<<-' assignment to
  ‘response.term’
  parseFormula.glm: no visible binding for '<<-' assignment to
  ‘predict.vars.numeric’
  parseFormula.glm: no visible binding for '<<-' assignment to
  ‘predict.terms.numeric’
  parseFormula.glm: no visible binding for '<<-' assignment to
  ‘index_coef.terms.numeric’
  parseFormula.glm: no visible binding for global variable
  ‘predict.terms.numeric’
  parseFormula.glm: no visible binding for '<<-' assignment to ‘my.data’
  parseFormula.glm: no visible binding for global variable ‘response.var’
  parseFormula.glm: no visible binding for '<<-' assignment to
  ‘intercept.logical’
  parseFormula.lm: no visible binding for '<<-' assignment to
  ‘terms.numeric’
  parseFormula.lm: no visible binding for '<<-' assignment to
  ‘response.var’
  parseFormula.lm: no visible binding for '<<-' assignment to
  ‘response.term’
  parseFormula.lm: no visible binding for '<<-' assignment to
  ‘predict.vars.numeric’
  parseFormula.lm: no visible binding for '<<-' assignment to
  ‘predict.terms.numeric’
  parseFormula.lm: no visible binding for global variable ‘terms.numeric’
  parseFormula.lm: no visible binding for '<<-' assignment to
  ‘my.data.glm’
  parseFormula.lm: no visible binding for global variable ‘response.var’
  parseFormula.lm: no visible binding for '<<-' assignment to
  ‘intercept.logical’
  parseFormula.lmer: no visible binding for '<<-' assignment to
  ‘intercept.logical’
  parseFormula.lmer: no visible binding for '<<-' assignment to
  ‘group.vars’
  parseFormula.lmer: no visible binding for '<<-' assignment to
  ‘effect.vars’
  parseFormula.lmer: no visible binding for '<<-' assignment to
  ‘fixed.terms.numeric’
  parseFormula.lmer: no visible binding for '<<-' assignment to
  ‘fixed.terms.factor’
  rfp.lmer: no visible binding for global variable ‘my.data’
  rfp.lmer: no visible binding for global variable ‘fixed.terms.factor’
  rgp.lmer: no visible binding for global variable ‘my.data’
  rgp.lmer: no visible binding for global variable ‘rand.vars’
  rpp.glm: no visible binding for global variable ‘my.data’
  rpp.glm: no visible binding for global variable ‘predict.terms.numeric’
  rpp.glm: no visible binding for global variable ‘response.values’
  rpp.lm: no visible binding for global variable ‘predict.vars.numeric’
  rpp.lm: no visible binding for global variable ‘response.values.lm’
  dep,glm: no visible binding for global variable ‘my.data’
  lep,glm: no visible binding for global variable ‘response.values’
  lep,glm: no visible binding for global variable ‘my.data’
  nep,lmer: no visible binding for global variable ‘my.data’
  nrp,lmer: no visible binding for global variable ‘fixed.terms.factor’
  nrp,lmer: no visible binding for global variable ‘my.data’
  parseFormula,glm: no visible binding for '<<-' assignment to
  ‘response.var’
  parseFormula,glm: no visible binding for '<<-' assignment to
  ‘response.term’
  parseFormula,glm: no visible binding for '<<-' assignment to
  ‘predict.vars.numeric’
  parseFormula,glm: no visible binding for '<<-' assignment to
  ‘predict.terms.numeric’
  parseFormula,glm: no visible binding for '<<-' assignment to
  ‘index_coef.terms.numeric’
  parseFormula,glm: no visible binding for global variable
  ‘predict.terms.numeric’
  parseFormula,glm: no visible binding for '<<-' assignment to ‘my.data’
  parseFormula,glm: no visible binding for global variable ‘response.var’
  parseFormula,glm: no visible binding for '<<-' assignment to
  ‘intercept.logical’
  parseFormula,lm: no visible binding for '<<-' assignment to
  ‘terms.numeric’
  parseFormula,lm: no visible binding for '<<-' assignment to
  ‘response.var’
  parseFormula,lm: no visible binding for '<<-' assignment to
  ‘response.term’
  parseFormula,lm: no visible binding for '<<-' assignment to
  ‘predict.vars.numeric’
  parseFormula,lm: no visible binding for '<<-' assignment to
  ‘predict.terms.numeric’
  parseFormula,lm: no visible binding for global variable ‘terms.numeric’
  parseFormula,lm: no visible binding for '<<-' assignment to
  ‘my.data.glm’
  parseFormula,lm: no visible binding for global variable ‘response.var’
  parseFormula,lm: no visible binding for '<<-' assignment to
  ‘intercept.logical’
  parseFormula,lmer: no visible binding for '<<-' assignment to
  ‘intercept.logical’
  parseFormula,lmer: no visible binding for '<<-' assignment to
  ‘group.vars’
  parseFormula,lmer: no visible binding for '<<-' assignment to
  ‘effect.vars’
  parseFormula,lmer: no visible binding for '<<-' assignment to
  ‘fixed.terms.numeric’
  parseFormula,lmer: no visible binding for '<<-' assignment to
  ‘fixed.terms.factor’
  rfp,lmer: no visible binding for global variable ‘my.data’
  rfp,lmer: no visible binding for global variable ‘fixed.terms.factor’
  rgp,lmer: no visible binding for global variable ‘my.data’
  rgp,lmer: no visible binding for global variable ‘rand.vars’
  rpp,glm: no visible binding for global variable ‘my.data’
  rpp,glm: no visible binding for global variable ‘predict.terms.numeric’
  rpp,glm: no visible binding for global variable ‘response.values’
  rpp,lm: no visible binding for global variable ‘predict.vars.numeric’
  rpp,lm: no visible binding for global variable ‘response.values.lm’
• checking Rd files ... OK
• checking Rd files against version 2 parser ... WARNING
  *** error on file ./man/colVars.Rd
  Error in parse_Rd("./man/colVars.Rd", encoding = "unknown") :
  ./man/colVars.Rd:28:1: unexpected '}'
  27: <brahm@alum.mit.edu>, with help of course from the R-help gurus.}
  28: }
  ^
  
  *** error on file ./man/growth.Rd
  Error in parse_Rd("./man/growth.Rd", encoding = "unknown") :
  ./man/growth.Rd:22:1: unexpected '}'
  21: }
  22: }
  ^
  
  *** error on file ./man/inspect.Rd
  Error in parse_Rd("./man/inspect.Rd", encoding = "unknown") :
  ./man/inspect.Rd:28:5: unexpected section header
  27: \item{which}{a character string; one of the following:
  28: \description
  ^
  
  *** error on file ./man/mytrees.Rd
  Error in parse_Rd("./man/mytrees.Rd", encoding = "unknown") :
  ./man/mytrees.Rd:18:1: unexpected '}'
  17: }
  18: }
  ^
  
  *** error on file ./man/pea.Rd
  Error in parse_Rd("./man/pea.Rd", encoding = "unknown") :
  ./man/pea.Rd:20:1: unexpected '}'
  19: }
  20: }
  ^
  
  *** error on file ./man/wellplate.Rd
  Error in parse_Rd("./man/wellplate.Rd", encoding = "unknown") :
  ./man/wellplate.Rd:34:1: unexpected '}'
  33: }
  34: }
  ^
  
  problems found in ‘colVars.Rd’, ‘growth.Rd’, ‘inspect.Rd’, ‘mytrees.Rd’, ‘pea.Rd’, ‘wellplate.Rd’
• checking Rd cross-references ... OK
• checking for missing documentation entries ... OK
• checking for code/documentation mismatches ... OK
• checking Rd \usage sections ... OK
• checking data for non-ASCII characters ... OK
• checking examples ... OK
• checking package vignettes in 'inst/doc' ... NOTE
  *** PDFLaTeX Errors ***
  File /home/hornik/tmp/R.check/r-patched/Work/PKGS/asuR.Rcheck/inst/doc/coursenotes.Rnw :
  Running 'texi2dvi' on 'coursenotes.tex' failed.
  LaTeX errors:
  ! LaTeX Error: File `mySlides.sty' not found.
  Type X to quit or <RETURN> to proceed,
  or enter new name. (Default extension: sty)
  ! Emergency stop.
  <read *>
  l.12 \usepackage
  {myR}^^M
  ! ==> Fatal error occurred, no output PDF file produced!
• checking PDF version of manual ... OK