Standardized dependency installation for GitHub actions #3469
Workflow file for this run
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| # This workflow will install Python dependencies, run tests and lint with a single version of Python | |
| # For more information see: https://help.github.com/actions/language-and-framework-guides/using-python-with-github-actions | |
| name: CI-PyTest | |
| on: | |
| push: | |
| branches: [master] | |
| pull_request: {} | |
| jobs: | |
| full-test: | |
| runs-on: ubuntu-latest | |
| steps: | |
| - name: Checkout code | |
| uses: actions/checkout@v4 | |
| - name: Call reusable workflow to install dependencies | |
| id: dependencies | |
| uses: ./.github/workflows/dependencies | |
| - name: Run generic unit tests | |
| if: ${{steps.dependencies.outputs.other_modified_files_count > 0}} # Run on any non-docs change | |
| run: | | |
| pytest --cov=. --cov-report=xml -k "generic" | |
| - name: Run classification unit tests with histology | |
| if: ${{steps.dependencies.outputs.other_modified_files_count > 0}} # Run on any non-docs change | |
| run: | | |
| pytest --cov=. --cov-report=xml --cov-append -k "classification and histology" | |
| - name: Run classification unit tests | |
| if: ${{steps.dependencies.outputs.other_modified_files_count > 0}} # Run on any non-docs change | |
| run: | | |
| pytest --cov=. --cov-report=xml --cov-append -k "classification and not histology" | |
| - name: Run segmentation unit tests | |
| if: ${{steps.dependencies.outputs.other_modified_files_count > 0}} # Run on any non-docs change | |
| run: | | |
| pytest --cov=. --cov-report=xml --cov-append -k "segmentation and not transunet" | |
| - name: Run regression unit tests | |
| if: ${{steps.dependencies.outputs.other_modified_files_count > 0}} # Run on any non-docs change | |
| run: | | |
| pytest --cov=. --cov-report=xml --cov-append -k "regression" | |
| - name: Run transunet unit tests | |
| if: ${{steps.dependencies.outputs.other_modified_files_count > 0}} # Run on any non-docs change | |
| run: | | |
| pytest --cov=. --cov-report=xml --cov-append -k "transunet" | |
| - name: Run entrypoints tests | |
| if: ${{steps.dependencies.outputs.other_modified_files_count > 0}} # Run on any non-docs change | |
| run: | | |
| pytest --cov=. --cov-report=xml --cov-append -k "entrypoints" | |
| - name: Run test for update_version | |
| if: ${{steps.dependencies.outputs.other_modified_files_count > 0}} # Run on any non-docs change | |
| run: | | |
| pytest --cov=. --cov-report=xml --cov-append -k "update_version" | |
| - name: Upload coverage | |
| if: ${{steps.dependencies.outputs.other_modified_files_count > 0}} # Run on any non-docs change | |
| uses: codecov/codecov-action@v1 | |
| with: | |
| token: ${{ secrets.CODECOV_TOKEN }} | |
| file: ./coverage.xml | |
| flags: unittests | |
| - name: Upload coverage to Codacy | |
| if: github.ref == 'refs/heads/master' # only run when on master | |
| uses: codacy/[email protected] | |
| with: | |
| project-token: ${{ secrets.CODACY_PROJECT_TOKEN }} | |
| coverage-reports: ./coverage.xml |