CovidHub-ensemble #13

	name: "CovidHub-ensemble"
	on:
	workflow_dispatch:
	schedule:
	- cron: "00 15 * * 4"

	jobs:
	generate-covidhub-ensemble:
	if: ${{ github.repository_owner == 'CDCgov' }}
	runs-on: ubuntu-22.04
	env:
	GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }}
	steps:
	- name: Get Token
	id: get_workflow_token
	uses: peter-murray/workflow-application-token-action@v4
	with:
	application_id: ${{ vars.GH_APP_ID }}
	application_private_key: ${{ secrets.GH_APP_KEY }}

	- uses: actions/checkout@v4
	- uses: r-lib/actions/setup-r@v2
	with:
	install-r: false
	use-public-rspm: true

	- name: Install system dependencies
	run: \|
	sudo apt-get update
	sudo apt-get install -y libcurl4-openssl-dev

	- name: Install dependencies
	run: \|
	install.packages(c("hubEnsembles", "dplyr", "lubridate", "purrr", "yaml", "argparser", "remotes"))
	remotes::install_github("hubverse-org/hubData")
	shell: Rscript {0}

	- name: generate ensemble
	run: \|
	REF_DATE=$(Rscript -e "cat(strftime(lubridate::ceiling_date(lubridate::today(), 'week', week_start = 6, change_on_boundary = FALSE)))")
	Rscript src/get_ensemble.R --reference-date "$REF_DATE" --base_hub_path "."

	- name: Commit changes
	uses: EndBug/add-and-commit@v9
	with:
	message: "Add CovidHub ensemble forecasts"
	default_author: github_actions
	push: true
	new_branch: add-ensemble

	- name: Create pull request
	id: create_pr
	run: \|
	gh pr create --base main --head add-ensemble --title "Add ensemble forecast" --body "This PR is generated automatically to add a quantile median ensemble forecast."
	env:
	GH_TOKEN: ${{ steps.get_workflow_token.outputs.token }}

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