Update external resources #1203
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| name: Update external resources | |
| on: | |
| schedule: | |
| # Run every day at 00:00 | |
| - cron: '0 0 * * *' | |
| # Enable manually updating the external resources | |
| workflow_dispatch: | |
| jobs: | |
| update_external_resources: | |
| name: Update external resources | |
| runs-on: ubuntu-latest | |
| steps: | |
| # Scheduled workflows run on the default branch | |
| - name: Checkout external-resources branch | |
| uses: actions/checkout@v2 | |
| with: | |
| ref: external-resources | |
| - name: Install environment # Use mamba as in https://github.com/conda-incubator/setup-miniconda/issues/274 and https://github.com/conda-incubator/setup-miniconda#example-10-miniforge | |
| uses: conda-incubator/setup-miniconda@v2 | |
| with: | |
| activate-environment: covid19 | |
| environment-file: environment.yml | |
| auto-activate-base: false | |
| miniforge-variant: Mambaforge | |
| channels: conda-forge | |
| channel-priority: true | |
| use-mamba: true | |
| - name: List information about mamba and environment | |
| shell: bash --login {0} | |
| run: | | |
| mamba info | |
| mamba list | |
| mamba config --show-sources | |
| mamba config --show | |
| printenv | sort | |
| - name: Update JHU CSSE data | |
| shell: bash --login {0} | |
| run: bash csse/generate-csse-stats.sh | |
| - name: Update EBM Data Lab data | |
| shell: bash --login {0} | |
| run: bash ebmdatalab/generate-ebmdatalab-stats.sh | |
| - name: Update OWID data | |
| shell: bash --login {0} | |
| run: bash owiddata/generate-owiddata-stats.sh | |
| - name: Update CORD-19 data | |
| shell: bash --login {0} | |
| run: bash CORD-19/generate-cord19-stats.sh | |
| # - name: Update manuscript statistics data | |
| # shell: bash --login {0} | |
| # run: bash analyze-ms-stats/calc-manuscript-stats.sh | |
| - name: Commit JHU CSSE, EBM Data Lab, OWID, CORD-19, and manuscript growth figures | |
| uses: EndBug/add-and-commit@v4 | |
| with: | |
| add: '*/*.png */*.svg */*/*.png */*/*.svg' | |
| author_name: GitHub Actions | |
| author_email: actions@github.com | |
| message: 'Update JHU CSSE, EBM Data Lab, OWID, CORD-19, and manuscript growth figures' | |
| ref: external-resources | |
| env: | |
| GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }} | |
| - name: Update figure versions | |
| shell: bash --login {0} | |
| run: bash version-figures.sh | |
| - name: Commit JHU CSSE, EBM Data Lab, OWID, CORD-19, and manuscript growth statistics | |
| uses: EndBug/add-and-commit@v4 | |
| with: | |
| add: '*/*.json' | |
| author_name: GitHub Actions | |
| author_email: actions@github.com | |
| message: 'Update JHU CSSE, EBM Data Lab, OWID, CORD-19, and manuscript growth statistics' | |
| ref: external-resources | |
| env: | |
| GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }} |