Add a stub R script for adding a new modeling round to the hub #24

	name: Create new modeling round

	on:
	push:
	schedule:
	- cron: "0 03 * * 1" # every Monday at 3 AM UTC
	workflow_dispatch:

	permissions:
	contents: write
	pull-requests: write

	jobs:
	create-modeling-round:
	runs-on: ubuntu-latest
	steps:
	- name: Checkout 🛎️
	uses: actions/checkout@v4
	with:
	# don't check out repo folders with large amounts of data
	# (e.g., model-output, target-data)
	sparse-checkout: \|
	auxiliary-data/
	hub-config/
	src/

	- name: Install uv 🌈
	uses: astral-sh/setup-uv@v2
	with:
	version: "0.4.9"

	- name: Set up Python 🐍
	uses: actions/setup-python@v5
	with:
	python-version-file: "src/.python-version"

	- name: Create clade list 🦠
	run: \|
	uv run src/get_clades_to_model.py

	- name: Set up R 📊
	uses: r-lib/actions/setup-r@v2

	- name: Generate new round config 📝
	run: \|
	Rscript src/make_round_config.R

	- name: Get current date and time 🕰️
	run: \|
	PR_DATETIME=$(date +'%Y-%m-%d_%H-%M-%S')
	echo "PR_DATETIME=$PR_DATETIME" >> $GITHUB_ENV

	- name: Create PR for new modeling round 🚀
	env:
	GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
	run: \|
	git config user.name "github-actions[bot]"
	git config user.email "41898282+github-actions[bot]@users.noreply.github.com"
	git checkout -b new_round_"$PR_DATETIME"
	git add auxiliary-data/modeled-clades/
	git commit -m "Add new round $PR_DATETIME"
	git push -u origin new_round_"$PR_DATETIME"
	gh pr create \
	--base main \
	--title "Add new round $PR_DATETIME" \
	--body "This PR was created via GitHub Actions: generate clade list and new round config."

Provide feedback