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

Attaching package: 'isoreader'

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

    filter

Quitting from lines 42-44 (continuous_flow.Rmd) 
Error: processing vignette 'continuous_flow.Rmd' failed with diagnostics:
unused argument (options = list(TRUE, TRUE, "markup", FALSE, NULL, TRUE, FALSE, "#>", TRUE, TRUE, "normalsize", "#F7F7F7", 0, "cache/", NULL, TRUE, NULL, FALSE, FALSE, "high", "asis", "default", "figure/", "png", NULL, 72, "png", 7, 7, "figure", NULL, NULL, "fig:", NULL, "", NULL, NULL, NULL, 1, TRUE, FALSE, 1, "controls,loop", TRUE, FALSE, FALSE, NULL, NULL, NULL, "R", FALSE, TRUE, TRUE, "unnamed-chunk-2", c("# all available examples", "iso_get_reader_examples() %>% rmarkdown::paged_table()"), 504, 504, 
    " message = FALSE"))
--- failed re-building ‘continuous_flow.Rmd’

--- re-building ‘development.Rmd’ using rmarkdown
Warning in engine$weave(file, quiet = quiet, encoding = enc) :
  Pandoc (>= 1.12.3) and/or pandoc-citeproc not available. Falling back to R Markdown v1.
Quitting from lines 36-52 (development.Rmd) 
Error: processing vignette 'development.Rmd' failed with diagnostics:
unused argument (options = list(TRUE, TRUE, "markup", FALSE, NULL, TRUE, FALSE, "#>", TRUE, TRUE, "normalsize", "#F7F7F7", 0, "cache/", NULL, TRUE, NULL, FALSE, FALSE, "high", "asis", "default", "figure/", "png", NULL, 72, "png", 7, 7, "figure", NULL, NULL, "fig:", NULL, "", NULL, NULL, NULL, 1, TRUE, FALSE, 1, "controls,loop", TRUE, FALSE, TRUE, NULL, NULL, NULL, "R", FALSE, TRUE, TRUE, "unnamed-chunk-1", c("new_reader <- function(ds, options = list()) {", "  isoreader:::log_message(\"this is the new reader!\")", 
"  str(ds)", "  return(ds)", "}", "", "# register new reader", "readers <- iso_register_dual_inlet_file_reader(\".new.did\", \"new_reader\")", "rmarkdown::paged_table(readers)", "", "# copy an example file from the package with the new extension", "iso_get_reader_example(\"dual_inlet_example.did\") %>% file.copy(to = \"example.new.did\")", "", "# read the file", "iso_read_dual_inlet(\"example.new.did\", read_cache = FALSE)", "file.remove(\"example.new.did\")"), 504, 504, ""))
--- failed re-building ‘development.Rmd’

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

Attaching package: 'isoreader'

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

    filter

Quitting from lines 45-47 (dual_inlet.Rmd) 
Error: processing vignette 'dual_inlet.Rmd' failed with diagnostics:
unused argument (options = list(TRUE, TRUE, "markup", FALSE, NULL, TRUE, FALSE, "#>", TRUE, TRUE, "normalsize", "#F7F7F7", 0, "cache/", NULL, TRUE, NULL, FALSE, FALSE, "high", "asis", "default", "figure/", "png", NULL, 72, "png", 7, 7, "figure", NULL, NULL, "fig:", NULL, "", NULL, NULL, NULL, 1, TRUE, FALSE, 1, "controls,loop", TRUE, FALSE, FALSE, NULL, NULL, NULL, "R", FALSE, TRUE, TRUE, "unnamed-chunk-2", c("# all available examples", "iso_get_reader_examples() %>% rmarkdown::paged_table()"), 504, 504, 
    " message=FALSE"))
--- failed re-building ‘dual_inlet.Rmd’

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

Attaching package: 'isoreader'

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

    filter

--- finished re-building ‘operations.Rmd’

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

Attaching package: 'isoreader'

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

    filter

Quitting from lines 43-45 (quick_start.Rmd) 
Error: processing vignette 'quick_start.Rmd' failed with diagnostics:
unused argument (options = list(TRUE, TRUE, "markup", FALSE, NULL, TRUE, FALSE, "#>", TRUE, TRUE, "normalsize", "#F7F7F7", 0, "cache/", NULL, TRUE, NULL, FALSE, FALSE, "high", "asis", "default", "figure/", "png", NULL, 72, "png", 7, 7, "figure", NULL, NULL, "fig:", NULL, "", NULL, NULL, NULL, 1, TRUE, FALSE, 1, "controls,loop", TRUE, FALSE, TRUE, NULL, NULL, NULL, "R", FALSE, TRUE, TRUE, "unnamed-chunk-2", c("# all available examples", "iso_get_reader_examples() %>% rmarkdown::paged_table()"), 504, 504, 
    ""))
--- failed re-building ‘quick_start.Rmd’

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

Attaching package: 'isoreader'

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

    filter

Quitting from lines 47-49 (scan.Rmd) 
Error: processing vignette 'scan.Rmd' failed with diagnostics:
unused argument (options = list(TRUE, TRUE, "markup", FALSE, NULL, TRUE, FALSE, "#>", TRUE, TRUE, "normalsize", "#F7F7F7", 0, "cache/", NULL, TRUE, NULL, FALSE, FALSE, "high", "asis", "default", "figure/", "png", NULL, 72, "png", 7, 7, "figure", NULL, NULL, "fig:", NULL, "", NULL, NULL, NULL, 1, TRUE, FALSE, 1, "controls,loop", TRUE, FALSE, FALSE, NULL, NULL, NULL, "R", FALSE, TRUE, TRUE, "unnamed-chunk-2", c("# all available examples", "iso_get_reader_examples() %>% rmarkdown::paged_table()"), 504, 504, 
    " message=FALSE"))
--- failed re-building ‘scan.Rmd’

SUMMARY: processing the following files failed:
  ‘continuous_flow.Rmd’ ‘development.Rmd’ ‘dual_inlet.Rmd’
  ‘quick_start.Rmd’ ‘scan.Rmd’

Error: Vignette re-building failed.
Execution halted