Resolve fetch failures: New csets w/ 0 members #10561
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| name: "Resolve fetch failures: New csets w/ 0 members" | |
| on: | |
| schedule: | |
| - cron: '10 5 * * *' # every day 5:10am GMT (12:10/1:10am EST/EDT) | |
| workflow_dispatch: | |
| inputs: | |
| # todo: support list of IDs (comma-delimited) | |
| version_id: | |
| description: 'Optional: Concept set version ID' | |
| required: false | |
| # type: string # integer not supported; type will be corrected by script | |
| jobs: | |
| resolve-fetch-failures-0-members: | |
| runs-on: ubuntu-latest | |
| steps: | |
| - name: Checkout repository and submodules | |
| uses: actions/checkout@v2 | |
| with: | |
| submodules: recursive | |
| - name: Set up Python version | |
| uses: actions/setup-python@v2 | |
| with: | |
| python-version: '3.10' | |
| - name: Print commit hash & branch for rollbacks & troubleshooting | |
| run: | | |
| echo "Commit hash: ${{ github.sha }}" | |
| echo "Branch: ${{ github.ref }}" | |
| - name: 'Create env file' | |
| run: | | |
| mkdir env | |
| echo "${{ secrets.ENV_FILE }}" > env/.env | |
| - name: Create and start virtual environment | |
| run: | | |
| python3 -m venv venv | |
| source venv/bin/activate | |
| - name: Install dependencies | |
| run: | | |
| # Reactivate install upgrades of pip, wheel, &/or setuptools if needed | |
| # python -m pip install --upgrade pip | |
| # pip install --upgrade wheel | |
| # pip install --upgrade setuptools | |
| # VS Hub SDK w/ OAuth disabled: https://github.com/jhu-bids/TermHub/issues/863 | |
| # TOKEN=$(grep '^PALANTIR_ENCLAVE_AUTHENTICATION_BEARER_TOKEN=' env/.env | cut -d'=' -f2) | |
| # python3 -m pip install vshub_sdk --upgrade --extra-index-url "https://:${TOKEN}@unite.nih.gov/artifacts/api/repositories/ri.artifacts.main.repository.9bc9cc56-4b8c-4560-9bfb-fba8ade55246/contents/release/pypi/simple" --extra-index-url "https://:${TOKEN}@unite.nih.gov/artifacts/api/repositories/ri.foundry-sdk-asset-bundle.main.artifacts.repository/contents/release/pypi/simple" | |
| pip install -r requirements.txt | |
| - name: Resolve fetch failures | |
| run: | | |
| if [ -z "${{ github.event.inputs.version_id }}" ]; then | |
| python backend/db/resolve_fetch_failures_0_members.py | |
| else | |
| python backend/db/resolve_fetch_failures_0_members.py --version-id ${{ github.event.inputs.version_id }} | |
| fi |