Improve directory documentation, git annex allocation, and github actions #5

	on:
	push:
	branches:
	- main
	pull_request:
	branches:
	- main
	workflow_dispatch:

	concurrency:
	group: ${{ github.workflow }}
	cancel-in-progress: true

	name: Render and Publish

	# you need these permissions to publish to GitHub pages
	permissions:
	contents: write
	pages: write

	jobs:
	build-deploy:
	runs-on: ubuntu-latest

	steps:
	- name: Check out repository
	uses: actions/checkout@v4


	- uses: actions/setup-python@v4
	name: Install python packages
	with:
	python-version: '3.11'
	- run: pip install jupyter jupyter-cache

	- name: Set up Quarto
	uses: quarto-dev/quarto-actions/setup@v2
	env:
	GH_TOKEN: ${{ secrets.GITHUB_TOKEN }}
	with:
	tinytex: true
	# version: SPECIFIC-QUARTO-VERSION-HERE


	# Remember, you have to first run `quarto publish gh-pages` locally 1 time to initilize this branch
	- name: Publish to GitHub Pages (and render)
	uses: quarto-dev/quarto-actions/publish@v2
	with:
	target: gh-pages
	env:
	GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }} # this secret is always available for github actions

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