" Language: Markdown with chunks of R, Python and other languages
" Maintainer: This runtime file is looking for a new maintainer.
" Former Maintainer: Jakson Alves de Aquino <jalvesaq@gmail.com>
" Former Repository: https://github.com/jalvesaq/R-Vim-runtime
" Last Change: 2023 Dec 24  07:21AM
"   2024 Feb 19 by Vim Project (announce adoption)
"
"   For highlighting pandoc extensions to markdown like citations and TeX and
"   many other advanced features like folding of markdown sections, it is
"   recommended to install the vim-pandoc filetype plugin as well as the
"   vim-pandoc-syntax filetype plugin from https://github.com/vim-pandoc.


if exists("b:current_syntax")
  finish
endif

let s:cpo_save = &cpo
set cpo&vim

let g:rmd_include_latex = get(g:, 'rmd_include_latex', 1)
if g:rmd_include_latex == 0 || g:rmd_include_latex == 1
  let b:rmd_has_LaTeX = v:false
elseif g:rmd_include_latex == 2
  let b:rmd_has_LaTeX = v:true
endif

" Highlight the header of the chunks as R code
let g:rmd_syn_hl_chunk = get(g:, 'rmd_syn_hl_chunk', 0)

" Pandoc-syntax has more features, but it is slower.
" https://github.com/vim-pandoc/vim-pandoc-syntax

" Don't waste time loading syntax that will be discarded:
let s:save_pandoc_lngs = get(g:, 'pandoc#syntax#codeblocks#embeds#langs', [])
let g:pandoc#syntax#codeblocks#embeds#langs = []

let g:rmd_dynamic_fenced_languages = get(g:, 'rmd_dynamic_fenced_languages', v:true)

" Step_1: Source pandoc.vim if it is installed:
runtime syntax/pandoc.vim
if exists("b:current_syntax")
  if hlexists('pandocDelimitedCodeBlock')
    syn clear pandocDelimitedCodeBlock
  endif

  if len(s:save_pandoc_lngs) > 0 && !exists('g:rmd_fenced_languages')
    let g:rmd_fenced_languages = deepcopy(s:save_pandoc_lngs)
  endif

  " Recognize inline R code
  syn region rmdrInline matchgroup=rmdInlineDelim start="`r "  end="`" contains=@Rmdr containedin=pandocLaTeXRegion,yamlFlowString keepend
else
  " Step_2: Source markdown.vim if pandoc.vim is not installed

  " Configuration if not using pandoc syntax:
  " Add syntax highlighting of YAML header
  let g:rmd_syn_hl_yaml = get(g:, 'rmd_syn_hl_yaml', 1)
  " Add syntax highlighting of citation keys
  let g:rmd_syn_hl_citations = get(g:, 'rmd_syn_hl_citations', 1)

  " R chunks will not be highlighted by syntax/markdown because their headers
  " follow a non standard pattern: "```{lang" instead of "^```lang".
  " Make a copy of g:markdown_fenced_languages to highlight the chunks later:
  if exists('g:markdown_fenced_languages') && !exists('g:rmd_fenced_languages')
    let g:rmd_fenced_languages = deepcopy(g:markdown_fenced_languages)
  endif

  if exists('g:markdown_fenced_languages') && len(g:markdown_fenced_languages) > 0
    let s:save_mfl = deepcopy(g:markdown_fenced_languages)
  endif
  " Don't waste time loading syntax that will be discarded:
  let g:markdown_fenced_languages = []
  runtime syntax/markdown.vim
  if exists('s:save_mfl') > 0
    let g:markdown_fenced_languages = deepcopy(s:save_mfl)
    unlet s:save_mfl
  endif
  syn region rmdrInline matchgroup=rmdInlineDelim start="`r "  end="`" contains=@Rmdr keepend

  " Step_2a: Add highlighting for both YAML and citations which are pandoc
  " specific, but also used in Rmd files

  " You don't need this if either your markdown/syntax.vim already highlights
  " the YAML header or you are writing standard markdown
  if g:rmd_syn_hl_yaml
    " Basic highlighting of YAML header
    syn match rmdYamlFieldTtl /^\s*\zs\w\%(-\|\w\)*\ze:/ contained
    syn match rmdYamlFieldTtl /^\s*-\s*\zs\w\%(-\|\w\)*\ze:/ contained
    syn region yamlFlowString matchgroup=yamlFlowStringDelimiter start='"' skip='\\"' end='"' contains=yamlEscape,rmdrInline contained
    syn region yamlFlowString matchgroup=yamlFlowStringDelimiter start="'" skip="''"  end="'" contains=yamlSingleEscape,rmdrInline contained
    syn match  yamlEscape contained '\\\%([\\"abefnrtv\^0_ NLP\n]\|x\x\x\|u\x\{4}\|U\x\{8}\)'
    syn match  yamlSingleEscape contained "''"
    syn match yamlComment /#.*/ contained
    " A second colon is a syntax error, unless within a string or following !expr
    syn match yamlColonError /:\s*[^'^"^!]*:/ contained
    if &filetype == 'quarto'
      syn region pandocYAMLHeader matchgroup=rmdYamlBlockDelim start=/\%(\%^\|\_^\s*\n\)\@<=\_^-\{3}\ze\n.\+/ end=/^---$/ keepend contains=rmdYamlFieldTtl,yamlFlowString,yamlComment,yamlColonError
    else
      syn region pandocYAMLHeader matchgroup=rmdYamlBlockDelim start=/\%(\%^\|\_^\s*\n\)\@<=\_^-\{3}\ze\n.\+/ end=/^\([-.]\)\1\{2}$/ keepend contains=rmdYamlFieldTtl,yamlFlowString,yamlComment,yamlColonError
    endif
    hi def link rmdYamlBlockDelim Delimiter
    hi def link rmdYamlFieldTtl Identifier
    hi def link yamlFlowString String
    hi def link yamlComment Comment
    hi def link yamlColonError Error
  endif

  " Conceal char for manual line break
  if &encoding ==# 'utf-8'
    syn match rmdNewLine '  $' conceal cchar=↵
  endif

  " You don't need this if either your markdown/syntax.vim already highlights
  " citations or you are writing standard markdown
  if g:rmd_syn_hl_citations
    " From vim-pandoc-syntax
    " parenthetical citations
    syn match pandocPCite /\^\@<!\[[^\[\]]\{-}-\{0,1}@[[:alnum:]_][[:alnum:]à-öø-ÿÀ-ÖØ-ß_:.#$%&\-+?<>~\/]*.\{-}\]/ contains=pandocEmphasis,pandocStrong,pandocLatex,pandocCiteKey,@Spell,pandocAmpersandEscape display
    " in-text citations with location
    syn match pandocICite /@[[:alnum:]_][[:alnum:]à-öø-ÿÀ-ÖØ-ß_:.#$%&\-+?<>~\/]*\s\[.\{-1,}\]/ contains=pandocCiteKey,@Spell display
    " cite keys
    syn match pandocCiteKey /\(-\=@[[:alnum:]_][[:alnum:]à-öø-ÿÀ-ÖØ-ß_:.#$%&\-+?<>~\/]*\)/ containedin=pandocPCite,pandocICite contains=@NoSpell display
    syn match pandocCiteAnchor /[-@]/ contained containedin=pandocCiteKey display
    syn match pandocCiteLocator /[\[\]]/ contained containedin=pandocPCite,pandocICite
    hi def link pandocPCite Operator
    hi def link pandocICite Operator
    hi def link pandocCiteKey Label
    hi def link pandocCiteAnchor Operator
    hi def link pandocCiteLocator Operator
  endif
endif

" Step_3: Highlight code blocks.

syn region rmdCodeBlock matchgroup=rmdCodeDelim start="^\s*```\s*{.*}$" matchgroup=rmdCodeDelim end="^\s*```\ze\s*$" keepend
syn region rmdCodeBlock matchgroup=rmdCodeDelim start="^\s*```.+$" matchgroup=rmdCodeDelim end="^```$" keepend
hi link rmdCodeBlock Special

" Now highlight chunks:
syn region knitrBodyOptions start='^#| ' end='$' contained  containedin=rComment,pythonComment contains=knitrBodyVar,knitrBodyValue transparent
syn match knitrBodyValue ': \zs.*\ze$' keepend contained containedin=knitrBodyOptions
syn match knitrBodyVar '| \zs\S\{-}\ze:' contained containedin=knitrBodyOptions

let g:rmd_fenced_languages = get(g:, 'rmd_fenced_languages', ['r'])

let s:no_syntax_vim = []
function s:IncludeLanguage(lng)
  if a:lng =~ '='
    let ftpy = substitute(a:lng, '.*=', '', '')
    let lnm = substitute(a:lng, '=.*', '', '')
  else
    let ftpy = a:lng
    let lnm  = a:lng
  endif
  if index(s:no_syntax_vim, ftpy) >= 0
    return
  endif
  if len(globpath(&rtp, "syntax/" . ftpy . ".vim"))
    unlet! b:current_syntax
    exe 'syn include @Rmd'.lnm.' syntax/'.ftpy.'.vim'
    let b:current_syntax = "rmd"
    if g:rmd_syn_hl_chunk
      exe 'syn match knitrChunkDelim /```\s*{\s*'.lnm.'/ contained containedin=knitrChunkBrace contains=knitrChunkLabel'
      exe 'syn match knitrChunkLabelDelim /```\s*{\s*'.lnm.',\=\s*[-[:alnum:]]\{-1,}[,}]/ contained containedin=knitrChunkBrace'
      syn match knitrChunkDelim /}\s*$/ contained containedin=knitrChunkBrace
      exe 'syn match knitrChunkBrace /```\s*{\s*'.lnm.'.*$/ contained containedin=rmd'.lnm.'Chunk contains=knitrChunkDelim,knitrChunkLabelDelim,@Rmd'.lnm
      exe 'syn region rmd'.lnm.'Chunk start="^\s*```\s*{\s*=\?'.lnm.'\>.*$" matchgroup=rmdCodeDelim end="^\s*```\ze\s*$" keepend contains=knitrChunkBrace,@Rmd'.lnm

      hi link knitrChunkLabel Identifier
      hi link knitrChunkDelim rmdCodeDelim
      hi link knitrChunkLabelDelim rmdCodeDelim
    else
      exe 'syn region rmd'.lnm.'Chunk matchgroup=rmdCodeDelim start="^\s*```\s*{\s*=\?'.lnm.'\>.*$" matchgroup=rmdCodeDelim end="^\s*```\ze\s*$" keepend contains=@Rmd'.lnm
    endif
  else
    " Avoid the cost of running globpath() whenever the buffer is saved
    let s:no_syntax_vim += [ftpy]
  endif
endfunction

for s:type in g:rmd_fenced_languages
  call s:IncludeLanguage(s:type)
endfor
unlet! s:type

let s:LaTeX_included = v:false
function s:IncludeLaTeX()
  let s:LaTeX_included = v:true
  unlet! b:current_syntax
  syn include @RmdLaTeX syntax/tex.vim
  " From vim-pandoc-syntax
  syn region rmdLaTeXInlineMath start=/\v\\@<!\$\S@=/ end=/\v\\@<!\$\d@!/ keepend contains=@RmdLaTeX
  syn match rmdLaTeXCmd /\\[[:alpha:]]\+\(\({.\{-}}\)\=\(\[.\{-}\]\)\=\)*/ contains=@RmdLaTeX
  syn region rmdLaTeX start='\$\$'  end='\$\$' keepend contains=@RmdLaTeX
  syn region rmdLaTeX start=/\\begin{\z(.\{-}\)}/ end=/\\end{\z1}/ keepend contains=@RmdLaTeX
endfunction

function s:CheckRmdFencedLanguages()
  let alines = getline(1, '$')
  call filter(alines, "v:val =~ '^```{'")
  call map(alines, "substitute(v:val, '^```{', '', '')")
  call map(alines, "substitute(v:val, '\\W.*', '', '')")
  for tpy in alines
    if len(tpy) == 0
      continue
    endif
    let has_lng = 0
    for lng in g:rmd_fenced_languages
      if tpy == lng
        let has_lng = 1
        continue
      endif
    endfor
    if has_lng == 0
      let g:rmd_fenced_languages += [tpy]
      call s:IncludeLanguage(tpy)
    endif
  endfor

  if hlexists('pandocLaTeXCommand')
    return
  endif
  if g:rmd_include_latex
    if !b:rmd_has_LaTeX && (search('\$\$', 'wn') > 0 ||
          \ search('\\begin{', 'wn') > 0) ||
          \ search('\\[[:alpha:]]\+', 'wn') ||
          \ search('\$[^\$]\+\$', 'wn')
      let b:rmd_has_LaTeX = v:true
    endif
    if b:rmd_has_LaTeX && !s:LaTeX_included
      call s:IncludeLaTeX()
    endif
  endif
endfunction

if g:rmd_dynamic_fenced_languages
  call s:CheckRmdFencedLanguages()
  augroup RmdSyntax
    autocmd!
    autocmd BufWritePost <buffer> call s:CheckRmdFencedLanguages()
  augroup END
endif

" Step_4: Highlight code recognized by pandoc but not defined in pandoc.vim yet:
syn match pandocDivBegin '^:::\+ {.\{-}}' contains=pandocHeaderAttr
syn match pandocDivEnd '^:::\+$'

hi def link knitrBodyVar PreProc
hi def link knitrBodyValue Constant
hi def link knitrBodyOptions rComment
hi def link pandocDivBegin Delimiter
hi def link pandocDivEnd Delimiter
hi def link rmdInlineDelim Delimiter
hi def link rmdCodeDelim Delimiter

if len(s:save_pandoc_lngs)
  let g:pandoc#syntax#codeblocks#embeds#langs = s:save_pandoc_lngs
endif
unlet s:save_pandoc_lngs
let &cpo = s:cpo_save
unlet s:cpo_save

syntax iskeyword clear

let b:current_syntax = "rmd"

" vim: ts=8 sw=2