JOSS template - `link-citations: yes` option fails to link citations

[zeigerpuppy]

with recent versions of pandoc (I have tried with v3.2 and v3.4), I have noticed that the link-citations option in the JOSS template fails.

When the YAML option link-citations: yes is enabled, the citations do not get linked, and are displayed as their bibtex index in the rendered PDF, e.g: [ref-astropy].

To replicate:

In RStudio:

1. install rticles package
2. create new RMarkdown "From Template"
3. select "Journal of Open Source Software Article"
4. edit the <title>.Rmd file and add link-citations: yes in YAML header
5. knit the document

• also see pdf_document2 bibliography references not properly rendered or linked since recent pandoc changes bookdown#1506