Zotero2yaml

[tomlincr]

Partial fix for #60

Currently needs 2 manual steps
These can be done from anyone's machine (but will need to grant access to the Zotero library

1. Run Zotero on a local machine with access to https://www.zotero.org/groups/4859963/uclhal-publications and from there use the BetterBiBTex export to CSL YAML tool2.

@docsteveharris I've had a go at automating part 1. of your workflow.

• Via the Zotero group Web Library subscribe to their Atom feed: https://api.zotero.org/groups/4859963/items/top?direction=asc&format=atom&sort=title
• Modify API format parameter to bibtex: https://api.zotero.org/groups/4859963/items/top?direction=asc&format=bibtex
• Use pandoc to convert this to YAML, as per: https://kevcaz.insileco.io/notes/biblio/bib2yaml_pandoc/

Notes:

• Would ideally use pandoc docker image:
  • docker:https://pandoc/core:2.19.2 is Alpine based and lacks bash required for using the git-auto-commit-action
  • docker:https://pandoc/core:2.19.2-ubuntu lacks wget/curl for retrieving .bib
  • Can't install missing components in either (may be my lack of familiarity with docker)
• Current fix is therefore to install pandoc from .deb package when workflow is run, clunky but does work
• Therefore (and given the frequent changes currently happening) I've left this workflow to be manually triggered

Suggested improvements:

• Custom dockerfile OR use the official Alpine container and sort out github actions to commit generated .yaml to repo

Questions:

• I've supplied a sample output publications/pubs.yaml - looks like this could be a suitable substrate for your zotero2quarto.py script @docsteveharris ?

[github-actions]

PR Preview Action v1.2.0
🚀 Deployed preview to https://uclhal.github.io/pr-preview/pr-72/
on branch gh-pages at 2022-11-22 11:16 UTC

[tomlincr]

@docsteveharris it seems zotero2quarto.py is run locally?

I'm getting an error trying to run this with either your uclhal_publications_zotero_better_csl.yaml or my pubs.yaml

UnicodeDecodeError: 'charmap' codec can't decode byte 0x81 in position 724: character maps to <undefined>

When you get the chance if you could have a go running it with my pubs.yaml?

If that works we could try adding zotero2quarto.py to the end of my github-actions workflow zotero2yaml.yml and that should fix #60

[docsteveharris]

Hi Chris. I've had a look.
I found the following issues

• It seemed to think there were duplicate entries in the file until I removed the header and footer --- and nocite: "[@*]" lines (1 and 2) and --- at the end.
• I don't think it likes having the abstract at the first field in the YAML dictionary
• It didn't like the date being formatted as a string (e.g. 2022-10 and wanted the 'dictionary format')

  issued:
    - year: 2010
      month: 12

And after that it still didn't work. 😬
Sorry.
I didn't do much in the way of checking my YAML specification but you're right, I built this locally, and used the BetterBiBTex export to generate the file. I think doing this from the web interface makes more sense.

[tomlincr]

Thanks Steve, will have a think 🤔