References are placed in the "body" for JATS output.

[estedeahora]

Explain the problem.

I have a Markdown document that I want to export to JATS. In this document I have at the end a Div with an "appendix", which is placed after the references section. Following the JATS indication this appendix should go in the "back". For this I use a Lua filter, which extracts the content of the Div block from the appendix and saves it in the metadata (then I insert it in the back with a small change in the template).

The problem is that when I do this, the References are placed in the body (instead of in the back).

I call Pandoc with the following line command:

pandoc +RTS -K512m -RTS example.md --to jats_publishing+element_citations --from markdown --output example.xml -s --reference-links=true --lua-filter=get_appendix.lua --citeproc

I share my Markdown file (example.md).

The filter (get_appendix.lua) I use is:

local app = nil
local RawBlock = pandoc.RawBlock

function Div(div)
    if(div.identifier == "app") then
        app = div.content
        div = RawBlock('jats', '')
    end
    return div
end

function Meta(m)
    if(app) then
        m.app = app
    end
    return(m)
end

Interestingly, when I add and modify the line div = RawBlock('jats', '') to div = pandoc.Header(1, '') the References return to the "back" (although a phantom section is generated). I guess citeproc does something with the Div of the references.

Pandoc version?
Pandoc 3.1.8

[jgm]

Does it help if you put --citeproc before the filter on the command line?

[estedeahora]

Does it help if you put --citeproc before the filter on the command line?

No. It continuos placing the references in the body.

[estedeahora]

Could it be related to issue 9017 and issue 8364?

[jgm]

To reproduce without the Lua script:

---
affiliation:
- id: aff1
  name: Affiliation name
author:
- affiliation:
  - aff1
  email: my_email@mail.com
  given-names: Juan
  surname: Pérez
date:
  type: pub
  year: 2023
issue: 20
journal:
  eissn: 1234-5678
  title: Journal title
lang: es-ES
title: Title article
references:
- author:
  - family: Author
    given: N.
  id: Author2004
  issued: 2004
  title: This is a title book
  type: book

---

# Introduction

Lorem ipsum dolor [@Author2004].

# References

::: {#refs}
:::

Blah