Error(s) in re-building vignettes:
--- re-building ‘the_basics.Rmd’ using rmarkdown
Warning in engine$weave(file, quiet = quiet, encoding = enc) :
  Pandoc (>= 1.12.3) not available. Falling back to R Markdown v1.
Warning in doTryCatch(return(expr), name, parentenv, handler) :
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Warning in doTryCatch(return(expr), name, parentenv, handler) :
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Warning in doTryCatch(return(expr), name, parentenv, handler) :
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Warning in doTryCatch(return(expr), name, parentenv, handler) :
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Warning in doTryCatch(return(expr), name, parentenv, handler) :
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Warning in doTryCatch(return(expr), name, parentenv, handler) :
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Warning in doTryCatch(return(expr), name, parentenv, handler) :
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Warning in doTryCatch(return(expr), name, parentenv, handler) :
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Warning in doTryCatch(return(expr), name, parentenv, handler) :
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Warning in doTryCatch(return(expr), name, parentenv, handler) :
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Warning in doTryCatch(return(expr), name, parentenv, handler) :
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Warning in doTryCatch(return(expr), name, parentenv, handler) :
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Warning in doTryCatch(return(expr), name, parentenv, handler) :
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Warning in doTryCatch(return(expr), name, parentenv, handler) :
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Warning in doTryCatch(return(expr), name, parentenv, handler) :
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Warning in doTryCatch(return(expr), name, parentenv, handler) :
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Warning in doTryCatch(return(expr), name, parentenv, handler) :
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Warning in doTryCatch(return(expr), name, parentenv, handler) :
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Warning in doTryCatch(return(expr), name, parentenv, handler) :
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Warning in doTryCatch(return(expr), name, parentenv, handler) :
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Warning in doTryCatch(return(expr), name, parentenv, handler) :
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Warning in doTryCatch(return(expr), name, parentenv, handler) :
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Warning in doTryCatch(return(expr), name, parentenv, handler) :
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Warning in doTryCatch(return(expr), name, parentenv, handler) :
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Warning in doTryCatch(return(expr), name, parentenv, handler) :
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Warning in doTryCatch(return(expr), name, parentenv, handler) :
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Warning in doTryCatch(return(expr), name, parentenv, handler) :
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Loading required package: mgcv
Loading required package: nlme
This is mgcv 1.8-36. For overview type 'help("mgcv-package")'.
This is labdsv 2.0-1
convert existing ordinations with as.dsvord()

Attaching package: 'labdsv'

The following object is masked from 'package:stats':

    density

Quitting from lines 171-183 (the_basics.Rmd) 
Error: processing vignette 'the_basics.Rmd' failed with diagnostics:
polygon edge not found
--- failed re-building ‘the_basics.Rmd’

SUMMARY: processing the following file failed:
  ‘the_basics.Rmd’

Error: Vignette re-building failed.
Execution halted