CI Runner #3
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| name: CI Runner | |
| on: | |
| workflow_dispatch: | |
| inputs: | |
| resource_path: | |
| description: 'Bioimageio wide, version specific resource identifier "resource_path/version"' | |
| required: true | |
| type: string | |
| package_url: | |
| description: 'Presigned url for the package zip-file' | |
| required: true | |
| type: string | |
| env: | |
| S3_HOST: ${{vars.S3_HOST}} | |
| S3_BUCKET: ${{vars.S3_BUCKET}} | |
| S3_FOLDER: ${{vars.S3_FOLDER}} | |
| S3_ACCESS_KEY_ID: ${{secrets.S3_ACCESS_KEY_ID}} | |
| S3_SECRET_ACCESS_KEY: ${{secrets.S3_SECRET_ACCESS_KEY}} | |
| jobs: | |
| validate: | |
| runs-on: ubuntu-latest | |
| strategy: | |
| fail-fast: false | |
| outputs: | |
| dynamic_test_cases: ${{ steps.validate.outputs.dynamic_test_cases }} | |
| has_dynamic_test_cases: ${{ steps.validate.outputs.has_dynamic_test_cases }} | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - name: Install workflow script dependencies | |
| run: | | |
| echo "Installing workflow script dependencies" | |
| python -m pip install --upgrade pip | |
| python -m pip install "minio==7.2.3" "ruyaml==0.91.0" "bioimageio.spec==0.4.9.post5" "typer" | |
| - name: Unzip model file | |
| run: | | |
| python .github/scripts/update_status.py "${{ inputs.resource_path }}" "Unzip and upload to ${{env.S3_HOST}}/${{env.S3_BUCKET}}/${{env.S3_FOLDER}}/${{inputs.resource_path}}/files" "1" | |
| python .github/scripts/unzip_package.py "${{inputs.resource_path}}" "${{inputs.package_url}}" | |
| - name: Validate format | |
| id: validate | |
| run: | | |
| python .github/scripts/update_status.py "${{ inputs.resource_path }}" "Starting validation" "2" | |
| python .github/scripts/validate_format.py "${{ inputs.resource_path }}" | |
| - run: | | |
| python .github/scripts/update_status.py "${{ inputs.resource_path }}" "Starting additional tests" "3" | |
| if: steps.validate.outputs.has_dynamic_test_cases == 'yes' | |
| - run: | | |
| python .github/scripts/update_status.py "${{ inputs.resource_path }}" "Validation done" "3" | |
| if: steps.validate.outputs.has_dynamic_test_cases == 'no' | |
| test: | |
| needs: validate | |
| if: needs.validate.outputs.has_dynamic_test_cases == 'yes' | |
| runs-on: ubuntu-latest | |
| strategy: | |
| fail-fast: false | |
| matrix: ${{ fromJson(needs.static-validation.outputs.dynamic_test_cases) }} # [{env_name: ..., weight_format: ...}, ...] | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - name: install validation dependencies | |
| id: create_env | |
| uses: mamba-org/setup-micromamba@v1 | |
| with: | |
| cache-downloads: true | |
| environment-name: ${{ matrix.env_name }} | |
| environment-file: conda_env_${{ matrix.weight_format }}.yaml | |
| create-args: >- # script dependencies | |
| typer | |
| conda-forge::bioimageio.spec | |
| continue-on-error: true # we inspect this step's outcome in test_dynamically.py | |
| timeout-minutes: 60 | |
| - name: install minimal script dependencies if val env failed | |
| if: ${{ steps.create_env.outcome != 'success' }} | |
| run: pip install typer bioimageio.spec | |
| - name: dynamic validation | |
| shell: bash -l {0} | |
| run: python scripts/test_dynamically.py "https://${{env.S3_HOST}}/${{env.S3_BUCKET}}/${{env.S3_FOLDER}}/${{inputs.resource_path}}/files/rdf.yaml" ${{ matrix.weight_format }} --create-env-outcome ${{ steps.create_env.outcome }} --${{ contains(inputs.deploy_to, 'gh-pages') && 'no-ignore' || 'ignore' }}-rdf-source-field-in-validation | |
| timeout-minutes: 60 | |
| conclude: | |
| needs: test | |
| if: always() # run even if test job fails | |
| runs-on: ubuntu-latest | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - run: | | |
| python .github/scripts/update_status.py "${{ inputs.resource_path }}" "Awaiting review" "4" |