DownloadFluID #6

	name: DownloadFluID

	on:

	workflow_dispatch:
	schedule:
	- cron: "30 18 * * 5"


	jobs:

	fluID_job:
	if: github.repository_owner == 'european-modelling-hubs'
	runs-on: ubuntu-latest
	steps:

	# Checkout the python tools repo
	# -------------------------------------------
	- name: checkout python tools repo
	uses: actions/checkout@v3
	with:
	token: ${{ secrets.GITHUB_TOKEN }}
	repository: 'european-modelling-hubs/hub-tools'
	ref: 'main'
	path: './tools/'

	# Checkout the data repository
	# -------------------------------------------
	- name: checkout data repo
	uses: actions/checkout@v3
	with:
	token: ${{ secrets.GITHUB_TOKEN }}
	repository: 'european-modelling-hubs/flu-forecast-hub'
	ref: 'main'
	path: './repo/'



	# Run Pyton code
	# -------------------------
	- uses: actions/setup-python@v4
	with:
	python-version: '3.10'

	- run: pip install pandas==1.2.5 pycountry==23.12.11

	- name: download fluID data
	id: download_fluID_data
	run: \|
	python ./tools/code/get_fluID_data.py --hub_path ./repo --disease "ILI"

	- name: Commit data repo changes
	uses: EndBug/add-and-commit@v7
	with:
	cwd: './repo'
	message: "Update data storage"
	default_author: github_actions
	push: true

	# Save changes to artifact for later persisting
	- name: Save changes to artifact
	env:
	changed_files: ${{ steps.download_fluID_data.outputs.imported_snapshot }}
	run: \|
	echo "{ \"pr-changes\" : \"$changed_files\" }" > pr_changes.json

	- name: Upload changes
	uses: actions/upload-artifact@v2
	with:
	name: pr_changes
	path: ./pr_changes.json

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