Generate weekly visualization data #11
Workflow file for this run
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
| name: Generate weekly visualization data | |
| on: | |
| workflow_dispatch: | |
| schedule: | |
| - cron: '00 16 * * 4' | |
| jobs: | |
| update-visualization-data: | |
| 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: ${{ secrets.GH_APP_KEY }} | |
| - name: Checkout code | |
| uses: actions/checkout@v4 | |
| - name: Setup R | |
| uses: r-lib/actions/setup-r@v2 | |
| with: | |
| install-r: false | |
| use-public-rspm: true | |
| - name: Install dependencies | |
| run: | | |
| install.packages(c("argparser", "fs", "readr", "dplyr", "remotes", "RcppTOML", "tidyr", "lubridate", "glue")) | |
| remotes::install_github('cdcgov/forecasttools') | |
| remotes::install_github("hubverse-org/hubData") | |
| shell: Rscript {0} | |
| - name: Generate data files | |
| run: | | |
| REF_DATE=$(Rscript -e "cat(strftime(lubridate::ceiling_date(lubridate::today(), 'week', week_start = 6, change_on_boundary = FALSE)))") | |
| Rscript src/get_covid_hosp_data.R --reference_date "$REF_DATE" --base_hub_path "." --target_data FALSE | |
| Rscript src/get_forecast_data.R --reference_date "$REF_DATE" --base_hub_path "." --horizons_to_include 0 1 2 | |
| Rscript src/get_map_data.R --reference_date "$REF_DATE" --base_hub_path "." --horizons_to_include 0 1 2 | |
| Rscript src/get_webtext.R --reference_date "$REF_DATE" --base_hub_path "." | |
| env: | |
| NHSN_API_KEY_ID: ${{ secrets.NHSN_API_KEY_ID }} | |
| NHSN_API_KEY_SECRET: ${{ secrets.NHSN_API_KEY_SECRET }} | |
| - name: Commit changes | |
| uses: EndBug/add-and-commit@v9 | |
| with: | |
| message: "Update weekly data and web text" | |
| default_author: github_actions | |
| push: true | |
| new_branch: add-viz-data | |
| - name: Create pull request | |
| run: | | |
| gh pr create --base main --head add-viz-data --title "Weekly forecast visualization data" --body "This PR adds weekly visualization data files to the repo." | |
| env: | |
| GH_TOKEN: ${{ steps.get_workflow_token.outputs.token }} |