Error(s) in re-building vignettes:
--- re-building ‘CreatingDecoyDB.Rmd’ using rmarkdown
Warning in engine$weave(file, quiet = quiet, encoding = enc) :
  Pandoc (>= 1.12.3) not available. Falling back to R Markdown v1.
--- finished re-building ‘CreatingDecoyDB.Rmd’

--- re-building ‘PeptideAnnotationwithProzor.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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Quitting from lines 102-117 (PeptideAnnotationwithProzor.Rmd) 
Error: processing vignette 'PeptideAnnotationwithProzor.Rmd' failed with diagnostics:
polygon edge not found
--- failed re-building ‘PeptideAnnotationwithProzor.Rmd’

--- re-building ‘TargetDecoyFDR_Example.Rmd’ using rmarkdown
Warning in engine$weave(file, quiet = quiet, encoding = enc) :
  Pandoc (>= 1.12.3) not available. Falling back to R Markdown v1.

Attaching package: 'dplyr'

The following objects are masked from 'package:stats':

    filter, lag

The following objects are masked from 'package:base':

    intersect, setdiff, setequal, union

Warning in title(main = main, sub = sub, xlab = xlab, ylab = ylab, ...) :
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Warning in graphics::mtext(side = 4, line = 3, "FDR %") :
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  no font could be found for family "Arial"
Warning in axis(side = side, at = at, labels = labels, ...) :
  no font could be found for family "Arial"
Warning in axis(side = side, at = at, labels = labels, ...) :
  no font could be found for family "Arial"
Warning in axis(side = side, at = at, labels = labels, ...) :
  no font could be found for family "Arial"
Warning in axis(side = side, at = at, labels = labels, ...) :
  no font could be found for family "Arial"
Warning in axis(side = side, at = at, labels = labels, ...) :
  no font could be found for family "Arial"
Warning in axis(side = side, at = at, labels = labels, ...) :
  no font could be found for family "Arial"
Warning in axis(side = side, at = at, labels = labels, ...) :
  no font could be found for family "Arial"
Warning in axis(side = side, at = at, labels = labels, ...) :
  no font could be found for family "Arial"
Warning in axis(side = side, at = at, labels = labels, ...) :
  no font could be found for family "Arial"
Warning in axis(side = side, at = at, labels = labels, ...) :
  no font could be found for family "Arial"
Warning in axis(side = side, at = at, labels = labels, ...) :
  no font could be found for family "Arial"
Warning in axis(side = side, at = at, labels = labels, ...) :
  no font could be found for family "Arial"
Warning in axis(side = side, at = at, labels = labels, ...) :
  no font could be found for family "Arial"
Warning in axis(side = side, at = at, labels = labels, ...) :
  no font could be found for family "Arial"
Warning in axis(side = side, at = at, labels = labels, ...) :
  no font could be found for family "Arial"
Warning in axis(side = side, at = at, labels = labels, ...) :
  no font could be found for family "Arial"
Warning in axis(side = side, at = at, labels = labels, ...) :
  no font could be found for family "Arial"
Warning in axis(side = side, at = at, labels = labels, ...) :
  no font could be found for family "Arial"
Warning in axis(side = side, at = at, labels = labels, ...) :
  no font could be found for family "Arial"
Warning in axis(side = side, at = at, labels = labels, ...) :
  no font could be found for family "Arial"
Warning in axis(side = side, at = at, labels = labels, ...) :
  no font could be found for family "Arial"
Warning in axis(side = side, at = at, labels = labels, ...) :
  no font could be found for family "Arial"
Warning in axis(side = side, at = at, labels = labels, ...) :
  no font could be found for family "Arial"
Warning in axis(side = side, at = at, labels = labels, ...) :
  no font could be found for family "Arial"
Warning in axis(side = side, at = at, labels = labels, ...) :
  no font could be found for family "Arial"
Warning in axis(side = side, at = at, labels = labels, ...) :
  no font could be found for family "Arial"
Warning in axis(side = side, at = at, labels = labels, ...) :
  no font could be found for family "Arial"
Warning in axis(side = side, at = at, labels = labels, ...) :
  no font could be found for family "Arial"
Warning in axis(side = side, at = at, labels = labels, ...) :
  no font could be found for family "Arial"
Warning in axis(side = side, at = at, labels = labels, ...) :
  no font could be found for family "Arial"
Warning in axis(side = side, at = at, labels = labels, ...) :
  no font could be found for family "Arial"
Warning in axis(side = side, at = at, labels = labels, ...) :
  no font could be found for family "Arial"
Warning in axis(side = side, at = at, labels = labels, ...) :
  no font could be found for family "Arial"
Warning in axis(side = side, at = at, labels = labels, ...) :
  no font could be found for family "Arial"
Warning in axis(side = side, at = at, labels = labels, ...) :
  no font could be found for family "Arial"
Warning in title(...) : no font could be found for family "Arial"
Warning in title(...) : no font could be found for family "Arial"
Warning in title(...) : no font could be found for family "Arial"
Warning in title(...) : no font could be found for family "Arial"
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  no font could be found for family "Arial"
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  no font could be found for family "Arial"
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  no font could be found for family "Arial"
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  no font could be found for family "Arial"
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  no font could be found for family "Arial"
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  no font could be found for family "Arial"
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  no font could be found for family "Arial"
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  no font could be found for family "Arial"
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  no font could be found for family "Arial"
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  no font could be found for family "Arial"
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  no font could be found for family "Arial"
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  no font could be found for family "Arial"
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  no font could be found for family "Arial"
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  no font could be found for family "Arial"
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  no font could be found for family "Arial"
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  no font could be found for family "Arial"
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  no font could be found for family "Arial"
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  no font could be found for family "Arial"
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  no font could be found for family "Arial"
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  no font could be found for family "Arial"
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  no font could be found for family "Arial"
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  no font could be found for family "Arial"
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  no font could be found for family "Arial"
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  no font could be found for family "Arial"
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  no font could be found for family "Arial"
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  no font could be found for family "Arial"
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  no font could be found for family "Arial"
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  no font could be found for family "Arial"
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  no font could be found for family "Arial"
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  no font could be found for family "Arial"
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  no font could be found for family "Arial"
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  no font could be found for family "Arial"
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  no font could be found for family "Arial"
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  no font could be found for family "Arial"
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  no font could be found for family "Arial"
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  no font could be found for family "Arial"
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  no font could be found for family "Arial"
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  no font could be found for family "Arial"
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  no font could be found for family "Arial"
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  no font could be found for family "Arial"
--- finished re-building ‘TargetDecoyFDR_Example.Rmd’

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

Error: Vignette re-building failed.
Execution halted