Move test files to tests/cognitive_tests/ and fix dependencies #353
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
| name: NeuroFlex CI/CD | |
| on: | |
| push: | |
| branches: [main] | |
| pull_request: | |
| branches: [main] | |
| jobs: | |
| test: | |
| runs-on: ubuntu-latest | |
| steps: | |
| - uses: actions/checkout@v2 | |
| - name: Set up Python 3.8 | |
| uses: actions/setup-python@v2 | |
| with: | |
| python-version: 3.8 | |
| - name: Cache dependencies | |
| uses: actions/cache@v2 | |
| with: | |
| path: ~/.cache/pip | |
| key: ${{ runner.os }}-pip-${{ hashFiles('requirements.txt') }} | |
| restore-keys: | | |
| ${{ runner.os }}-pip- | |
| - name: Install dependencies | |
| run: | | |
| python -m pip install --upgrade pip | |
| pip install -r requirements.txt | |
| - name: Create necessary directories | |
| run: | | |
| mkdir -p ${{ github.workspace }}/data | |
| mkdir -p ${{ github.workspace }}/path/to/save | |
| - name: Set ALPHAFOLD_PATH environment variable | |
| run: echo "ALPHAFOLD_PATH=${{ github.workspace }}/alphafold" >> $GITHUB_ENV | |
| - name: Run tests | |
| run: | | |
| pytest tests/ --disable-warnings | |
| env: | |
| NEUROFLEX_DATA_DIR: ${{ github.workspace }}/data | |
| NEUROFLEX_SAVE_DIR: ${{ github.workspace }}/path/to/save | |
| ALPHAFOLD_PATH: ${{ env.ALPHAFOLD_PATH }} | |
| build: | |
| needs: test | |
| runs-on: ubuntu-latest | |
| steps: | |
| - uses: actions/checkout@v2 | |
| - name: Set up Python 3.8 | |
| uses: actions/setup-python@v2 | |
| with: | |
| python-version: 3.8 | |
| - name: Cache dependencies | |
| uses: actions/cache@v2 | |
| with: | |
| path: ~/.cache/pip | |
| key: ${{ runner.os }}-pip-${{ hashFiles('requirements.txt') }} | |
| restore-keys: | | |
| ${{ runner.os }}-pip- | |
| - name: Install dependencies | |
| run: | | |
| python -m pip install --upgrade pip | |
| pip install -r requirements.txt | |
| - name: Build package | |
| run: | | |
| pip install build | |
| python -m build | |
| - name: Check dist folder | |
| run: | | |
| ls -l dist/ | |
| publish: | |
| needs: build | |
| runs-on: ubuntu-latest | |
| if: github.event_name == 'push' && startsWith(github.ref, 'refs/tags') | |
| steps: | |
| - uses: actions/checkout@v2 | |
| - name: Set up Python 3.8 | |
| uses: actions/setup-python@v2 | |
| with: | |
| python-version: 3.8 | |
| - name: Install build tools | |
| run: | | |
| python -m pip install --upgrade pip | |
| pip install build twine | |
| - name: Verify distribution files | |
| run: | | |
| ls -l dist/ | |
| - name: Publish to PyPI | |
| env: | |
| TWINE_USERNAME: "__token__" | |
| TWINE_PASSWORD: ${{ secrets.PYPI_API_TOKEN }} | |
| run: | | |
| python -m twine upload dist/* --skip-existing | |
| update_workflow: | |
| needs: publish | |
| runs-on: ubuntu-latest | |
| steps: | |
| - uses: actions/checkout@v2 | |
| - name: Set up Python 3.8 | |
| uses: actions/setup-python@v2 | |
| with: | |
| python-version: 3.8 | |
| - name: Update workflow | |
| run: | | |
| echo "Updating workflow in GitHub" | |
| # Add any additional steps needed to update the workflow |