Epidata-CI #1315
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| name: Epidata-CI | |
| on: | |
| schedule: | |
| - cron: "40 1 * * *" | |
| push: | |
| branches: | |
| - 'main' | |
| tags: | |
| - version-* | |
| paths: | |
| - '**/memilio-epidata/**' | |
| - '.github/**' | |
| pull_request: | |
| types: [opened, reopened, synchronize, ready_for_review] | |
| paths: | |
| - '**/memilio-epidata/**' | |
| - '.github/**' | |
| workflow_dispatch: | |
| jobs: | |
| pre-commit: | |
| runs-on: ubuntu-latest | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - uses: actions/setup-python@v5 | |
| with: | |
| python-version: 3.11 | |
| - uses: pre-commit/[email protected] | |
| build-py-epidata: | |
| runs-on: ubuntu-latest | |
| container: quay.io/pypa/manylinux_2_28_x86_64 | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - uses: ./.github/actions/build-py | |
| with: | |
| package: epidata | |
| build-py-plot: | |
| if: github.event.pull_request.draft == false | |
| runs-on: ubuntu-latest | |
| container: quay.io/pypa/manylinux_2_28_x86_64 | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - uses: ./.github/actions/build-py | |
| with: | |
| package: plot | |
| test-py-epidata: | |
| needs: build-py-epidata | |
| strategy: | |
| matrix: | |
| version: ["3.8", "3.11"] | |
| runs-on: ubuntu-latest | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - uses: ./.github/actions/test-py | |
| with: | |
| version: ${{ matrix.version }} | |
| package: epidata | |
| coverage: ON | |
| test-py-plot: | |
| if: github.event.pull_request.draft == false | |
| needs: [build-py-plot, build-py-epidata] | |
| strategy: | |
| matrix: | |
| version: ["3.8", "3.11"] | |
| runs-on: ubuntu-latest | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - uses: ./.github/actions/test-py | |
| with: | |
| version: ${{ matrix.version }} | |
| package: plot | |
| coverage: ON | |
| merge-artifacts: | |
| runs-on: ubuntu-latest | |
| strategy: | |
| matrix: | |
| packages: [epidata, plot] | |
| needs: [test-py-plot, test-py-epidata] | |
| steps: | |
| - name: merge epidata reports | |
| uses: actions/upload-artifact/merge@v4 | |
| with: | |
| name: test-py-coverage-reports-${{ matrix.packages }} | |
| pattern: test-py-coverage-reports-${{ matrix.packages }}-* | |
| test-pylint-epidata: | |
| needs: build-py-epidata | |
| runs-on: ubuntu-latest | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - uses: ./.github/actions/test-pylint | |
| with: | |
| package: epidata | |
| test-pylint-plot: | |
| needs: build-py-plot | |
| runs-on: ubuntu-latest | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - uses: ./.github/actions/test-pylint | |
| with: | |
| package: plot | |
| download-data: | |
| needs: build-py-epidata | |
| runs-on: ubuntu-latest | |
| continue-on-error: true | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - name: Install dependencies | |
| run: | | |
| sudo apt-get -qq update | |
| sudo apt-get -qq -y install python3-pip gnupg | |
| python -m pip install --upgrade pip | |
| - name: Download Python Wheels | |
| uses: actions/download-artifact@v4 | |
| with: | |
| name: python-wheels-epidata | |
| path: pycode/wheelhouse | |
| - name: Set up Python 3.11 | |
| uses: actions/setup-python@v5 | |
| with: | |
| python-version: 3.11 | |
| - name: Install Python Wheels | |
| run: | | |
| for pkg in `ls pycode/wheelhouse/*cp311*.whl`; do python -m pip install $pkg; done # packages that contain native extensions are version specific | |
| for pkg in `ls pycode/wheelhouse/*py3*.whl`; do python -m pip install $pkg; done # pure python packages are not version specific | |
| - name: Download Data | |
| run: | | |
| mkdir -p data_dl | |
| getcasedata -o data_dl --no-progress-indicators | |
| getpopuldata -o data_dl --no-progress-indicators | |
| getjhdata -o data_dl --no-progress-indicators | |
| getdividata -o data_dl --no-progress-indicators | |
| getcommutermobility -o data_dl --no-progress-indicators | |
| getvaccinationdata -o data_dl --no-progress-indicators | |
| gethospitalizationdata -o data_dl --no-progress-indicators | |
| - name: Upload Data | |
| uses: actions/upload-artifact@v4 | |
| with: | |
| name: data | |
| path: | | |
| data_dl/*.json | |
| data_dl/Germany/*.json | |
| data_dl/Spain/*.json | |
| data_dl/France/*.json | |
| data_dl/Italy*.json | |
| data_dl/SouthKorea/*.json | |
| data_dl/US/*.json | |
| data_dl/China/*.json | |
| retention-days: 1 | |