CovidHub-baseline #19

	name: "CovidHub-baseline"
	on:
	workflow_dispatch:
	schedule:
	- cron: "30 20 * * 3"

	jobs:
	generate-baseline-forecasts:
	if: ${{ github.repository_owner == 'CDCgov' }}
	runs-on: ubuntu-latest
	env:
	GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }}
	steps:
	- name: Generate Installation Token
	id: get_token
	uses: actions/create-github-app-token@v1
	with:
	app-id: ${{ vars.GH_APP_ID }}
	private-key: ${{ secrets.GH_APP_KEY }}

	- name: Checkout code
	uses: actions/checkout@v4

	- name: Setup R
	uses: r-lib/actions/setup-r@v2
	with:
	install-r: true
	use-public-rspm: true

	- name: Install dependencies
	run: \|
	install.packages(c("fs", "readr", "dplyr", "tidyr", "cli", "lubridate", "nanoparquet", "argparser", "remotes", "genlasso"))
	remotes::install_github("cmu-delphi/epiprocess")
	remotes::install_github("cmu-delphi/epipredict")
	remotes::install_github("cdcgov/forecasttools")
	shell: Rscript {0}

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

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

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

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