UMAP Recalculation: New option to recalculate UMAP for selected clusters #153
Workflow file for this run
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| # This workflows will upload a Python Package using Twine when a release is created | |
| # For more information see: https://help.github.com/en/actions/language-and-framework-guides/using-python-with-github-actions#publishing-to-package-registries | |
| name: tests | |
| on: | |
| push: | |
| branches: | |
| - main | |
| - npe2 | |
| - action_test | |
| tags: | |
| - "v*" # Push events to matching v*, i.e. v1.0, v20.15.10 | |
| pull_request: | |
| branches: | |
| - main | |
| - npe2 | |
| workflow_dispatch: | |
| jobs: | |
| test: | |
| name: ${{ matrix.platform }} py${{ matrix.python-version }} | |
| runs-on: ${{ matrix.platform }} | |
| strategy: | |
| matrix: | |
| #platform: [ubuntu-latest, windows-latest, macos-latest] | |
| platform: [ubuntu-latest] | |
| #python-version: ['3.8', '3.9', '3.10'] | |
| python-version: ['3.10'] | |
| defaults: | |
| run: | |
| shell: bash -el {0} | |
| steps: | |
| - uses: actions/checkout@v3 | |
| - name: Set up conda ${{ matrix.python-version }} | |
| uses: conda-incubator/setup-miniconda@v2 | |
| with: | |
| mamba-version: "*" | |
| activate-environment: napari-tomotwin | |
| channel-priority: true | |
| python-version: ${{ matrix.python-version }} | |
| channels: conda-forge, defaults | |
| environment-file: conda_env.yml | |
| - run: conda --version | |
| - run: conda init bash | |
| - run: | | |
| which python | |
| - name: Install dependencies | |
| run: | | |
| python -m pip install --upgrade pip | |
| pip install setuptools setuptools_scm pylint tox tox-gh-actions pytest pytest-coverage pytest-xvfb twine build napari-boxmanager | |
| pip install . | |
| - name: Debug Info | |
| run: | | |
| which python | |
| pip freeze | |
| - name: Analysing the code with pylint | |
| run: | | |
| pylint -E $(git ls-files '*.py') | |
| - name: Tests | |
| run: | | |
| pytest -v --cov=./ --cov-report=xml --cov-config=.coveragerc | |
| env: | |
| PLATFORM: ${{ matrix.platform }} | |
| - name: Upload coverage reports to Codecov | |
| uses: codecov/codecov-action@v3 | |
| deploy: | |
| # this will run when you have tagged a commit, starting with "v*" | |
| # and requires that you have put your twine API key in your | |
| # github secrets (see readme for details) | |
| needs: [test] | |
| runs-on: ubuntu-latest | |
| if: contains(github.ref, 'tags') | |
| steps: | |
| - uses: actions/checkout@v3 | |
| - name: Set up Python | |
| uses: actions/setup-python@v4 | |
| with: | |
| python-version: "3.x" | |
| - name: Install dependencies | |
| run: | | |
| python -m pip install --upgrade pip | |
| pip install -U setuptools setuptools_scm wheel twine build | |
| - name: Build and publish | |
| env: | |
| TWINE_USERNAME: __token__ | |
| TWINE_PASSWORD: ${{ secrets.TWINE_API_KEY }} | |
| run: | | |
| git tag | |
| python -m build . | |
| twine upload dist/* |