Fixed broken database setup command, new -omics variants keys #107
Workflow file for this run
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| name: Publish to PyPI, Docker Hub and GitHub IO | |
| on: | |
| release: | |
| types: | |
| - created | |
| jobs: | |
| build-n-publish: | |
| name: Build and publish Python distribution to PyPI | |
| runs-on: ubuntu-latest | |
| steps: | |
| - name: Check out git repository | |
| uses: actions/checkout@v4 | |
| - name: Set up Python 3.11 | |
| uses: actions/setup-python@v5 | |
| with: | |
| python-version: 3.11 | |
| - name: Install build tools | |
| run: >- | |
| python -m | |
| pip install | |
| wheel | |
| twine | |
| --user | |
| - name: Build a binary wheel and a source tarball | |
| run: >- | |
| python | |
| setup.py | |
| sdist | |
| bdist_wheel | |
| - name: Publish distribution 📦 to PyPI | |
| uses: pypa/gh-action-pypi-publish@release/v1 | |
| with: | |
| user: __token__ | |
| password: ${{ secrets.pypi_password }} | |
| docker-image-CI: | |
| name: Docker Image CI | |
| runs-on: ubuntu-latest | |
| steps: | |
| - name: Check out git repository | |
| uses: actions/checkout@v3 | |
| - name: Publish main image (Dockerfile) to Registry | |
| uses: elgohr/Publish-Docker-Github-Action@v5 | |
| with: | |
| name: clinicalgenomics/scout | |
| username: ${{ secrets.DOCKER_USERNAME }} | |
| password: ${{ secrets.DOCKER_PASSWORD }} | |
| tags: "latest,${{ github.event.release.tag_name }}" | |
| - name: Publish server image (Dockerfile-server) to Registry | |
| uses: elgohr/Publish-Docker-Github-Action@v5 | |
| with: | |
| name: clinicalgenomics/scout-server | |
| username: ${{ secrets.DOCKER_USERNAME }} | |
| password: ${{ secrets.DOCKER_PASSWORD }} | |
| dockerfile: Dockerfile-server | |
| tags: "latest,${{ github.event.release.tag_name }}" | |
| deploy-docs: | |
| name: Deploy Docs to GitHubIO | |
| runs-on: ubuntu-latest | |
| steps: | |
| - name: Checkout repo | |
| uses: actions/checkout@v4 | |
| - name: Setup environment for docs deployment | |
| uses: actions/setup-python@v5 | |
| with: | |
| python-version: 3.x | |
| - name: Install mkdocs | |
| run: pip install mkdocs mkdocs-material markdown-include | |
| - name: Deploy documentation | |
| run: mkdocs gh-deploy --force |