Add MEDIAR models for cell segmentation #966
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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: Annolid CI | |
| on: | |
| push: | |
| branches: [ main ] | |
| pull_request: | |
| branches: [ main ] | |
| jobs: | |
| build: | |
| runs-on: ubuntu-latest | |
| steps: | |
| - uses: actions/checkout@v2 | |
| - name: Set up Python 3.7 | |
| uses: actions/setup-python@v2 | |
| with: | |
| python-version: 3.7 | |
| - name: Install dependencies | |
| run: | | |
| python -m pip install --upgrade pip | |
| pip install flake8 pytest | |
| if [ -f requirements.txt ]; then pip install -r requirements.txt; fi | |
| - name: Lint with flake8 | |
| run: | | |
| # stop the build if there are Python syntax errors or undefined names | |
| flake8 . --count --select=E9,F63,F7,F82 --exclude=_build,.svn,CVS,.bzr,.hg,.git,__pycache__,.tox,.nox,.eggs,*.egg --show-source --statistics | |
| # exit-zero treats all errors as warnings. The GitHub editor is 127 chars wide | |
| flake8 . --count --exit-zero --max-complexity=10 --max-line-length=127 --statistics | |
| - name: Test with pytest | |
| run: | | |
| pytest | |
| - uses: ammaraskar/sphinx-action@master | |
| with: | |
| docs-folder: "docs/" | |
| # Publish built docs to gh-pages branch. | |
| # =============================== | |
| - name: Commit documentation changes | |
| run: | | |
| git clone https://github.com/healthonrails/annolid.git --branch gh-pages --single-branch gh-pages | |
| cp -r docs/build/html/* gh-pages/ | |
| cd gh-pages | |
| touch .nojekyll | |
| git config --local user.email "[email protected]" | |
| git config --local user.name "GitHub Action" | |
| git add . | |
| git commit -m "Update documentation" -a || true | |
| # The above command will fail if no changes were present, so we ignore | |
| # that. | |
| - name: Push changes | |
| uses: ad-m/github-push-action@master | |
| with: | |
| branch: gh-pages | |
| directory: gh-pages | |
| github_token: ${{ secrets.GITHUB_TOKEN }} | |
| # =============================== |