Error(s) in re-building vignettes:
--- re-building ‘autogating_cytometree.Rmd’ using rmarkdown
Warning in engine$weave(file, quiet = quiet, encoding = enc) :
  Pandoc (>= 1.12.3) not available. Falling back to R Markdown v1.
Loading required package: Rcpp
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  font "Times-Roman" could not be found for family "serif"
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  font "Times-Roman" could not be found for family "serif"
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  font "Times-Roman" could not be found for family "serif"
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  font "Times-Roman" could not be found for family "serif"
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  font "Times-Roman" could not be found for family "serif"
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  font "Times-Roman" could not be found for family "serif"
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  font "Times-Roman" could not be found for family "serif"
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  font "Times-Roman" could not be found for family "serif"
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  font "Times-Roman" could not be found for family "serif"
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  font "Times-Roman" could not be found for family "serif"
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  font "Times-Roman" could not be found for family "serif"
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  font "Times-Roman" could not be found for family "serif"
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  font "Times-Roman" could not be found for family "serif"
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  font "Times-Roman" could not be found for family "serif"
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  font "Times-Roman" could not be found for family "serif"
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  font "Times-Roman" could not be found for family "serif"
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  font "Times-Roman" could not be found for family "serif"
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  font "Times-Roman" could not be found for family "serif"
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  font "Times-Roman" could not be found for family "serif"
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  font "Times-Roman" could not be found for family "serif"
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  font "Times-Roman" could not be found for family "serif"
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  font "Times-Roman" could not be found for family "serif"
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  font "Times-Roman" could not be found for family "serif"
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  font "Times-Roman" could not be found for family "serif"
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  font "Times-Roman" could not be found for family "serif"
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  font "Times-Roman" could not be found for family "serif"
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  font "Times-Roman" could not be found for family "serif"
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  font "Times-Roman" could not be found for family "serif"
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  font "Times-Roman" could not be found for family "serif"
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  font "Times-Roman" could not be found for family "serif"
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  font "Times-Roman" could not be found for family "serif"
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  font "Times-Roman" could not be found for family "serif"
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  font "Times-Roman" could not be found for family "serif"
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  font "Times-Roman" could not be found for family "serif"
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  font "Times-Roman" could not be found for family "serif"
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  font "Times-Roman" could not be found for family "serif"
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  font "Times-Roman" could not be found for family "serif"
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  font "Times-Roman" could not be found for family "serif"
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  font "Times-Roman" could not be found for family "serif"
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  font "Times-Roman" could not be found for family "serif"
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  font "Times-Roman" could not be found for family "serif"
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  font "Times-Roman" could not be found for family "serif"
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  font "Times-Roman" could not be found for family "serif"
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  font "Times-Roman" could not be found for family "serif"
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  font "Times-Roman" could not be found for family "serif"
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  font "Times-Roman" could not be found for family "serif"
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  font "Times-Roman" could not be found for family "serif"
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  font "Times-Roman" could not be found for family "serif"
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  font "Times-Roman" could not be found for family "serif"
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  font "Times-Roman" could not be found for family "serif"
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  font "Times-Roman" could not be found for family "serif"
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  font "Times-Roman" could not be found for family "serif"
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  font "Times-Roman" could not be found for family "serif"
Quitting from lines 86-88 (autogating_cytometree.Rmd) 
Error: processing vignette 'autogating_cytometree.Rmd' failed with diagnostics:
polygon edge not found
--- failed re-building ‘autogating_cytometree.Rmd’

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

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

Error: Vignette re-building failed.
Execution halted