forked from TutteInstitute/fast_hdbscan
-
Notifications
You must be signed in to change notification settings - Fork 0
Commit
This commit does not belong to any branch on this repository, and may belong to a fork outside of the repository.
- Loading branch information
Showing
410 changed files
with
21,410 additions
and
5,678 deletions.
There are no files selected for viewing
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
| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,56 @@ | ||
| name: Documentation | ||
| concurrency: | ||
| group: ${{ github.workflow }}-${{ github.event.number }}-${{ github.event.ref }} | ||
| cancel-in-progress: true | ||
|
|
||
| on: | ||
| push: | ||
| branches: | ||
| - main | ||
| paths: | ||
| - 'doc/**' | ||
| - 'multi_mst/*.py' | ||
| - '.github/workflows/Docs.yml' | ||
| workflow_dispatch: | ||
|
|
||
| jobs: | ||
| pages: | ||
| runs-on: ubuntu-20.04 | ||
| environment: | ||
| name: github-pages | ||
| url: ${{ steps.deployment.outputs.page_url }} | ||
| permissions: | ||
| pages: write | ||
| id-token: write | ||
| steps: | ||
| - uses: actions/checkout@v4 | ||
| with: | ||
| fetch-depth: 0 | ||
|
|
||
| - uses: actions/setup-python@v5 | ||
| name: Install python | ||
| with: | ||
| python-version: 3.9 | ||
| cache: 'pip' | ||
|
|
||
| - name: Install dependencies | ||
| run: | | ||
| python -m pip install --upgrade pip | ||
| sudo apt-get install -y pandoc | ||
| pip install -e . | ||
| - name: Prepare Examples | ||
| run: | | ||
| cd notebooks | ||
| for FILE in *.ipynb; do | ||
| cp $FILE ../doc | ||
| done | ||
| cd .. | ||
| - id: deployment | ||
| uses: sphinx-notes/pages@v3 | ||
| with: | ||
| cache: True | ||
| checkout: False | ||
| documentation_path: ./doc | ||
| requirements_path: ./doc/requirements.txt |
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
| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,57 @@ | ||
| name: Publish Python Package | ||
| concurrency: | ||
| group: ${{ github.workflow }}-${{ github.event.number }}-${{ github.event.ref }} | ||
| cancel-in-progress: false | ||
|
|
||
| on: | ||
| push: | ||
| tags: | ||
| - v* | ||
| workflow_dispatch: | ||
|
|
||
| jobs: | ||
| publish_pypi: | ||
| name: Publish to PyPi | ||
| runs-on: ubuntu-20.04 | ||
| permissions: | ||
| # IMPORTANT: this permission is mandatory for trusted publishing | ||
| id-token: write | ||
| contents: write | ||
| environment: | ||
| name: pypi | ||
| url: https://pypi.org/p/multi_mst | ||
| steps: | ||
| - name: Extract version | ||
| id: version | ||
| run: | | ||
| TAG=${{ github.ref }} | ||
| VERSION=${TAG#refs/tags/v} | ||
| echo "version=$VERSION" >> $GITHUB_OUTPUT | ||
| echo "tag=v$VERSION" >> $GITHUB_OUTPUT | ||
| - name: Download sdist | ||
| uses: dawidd6/action-download-artifact@v7 | ||
| with: | ||
| github_token: ${{ secrets.GITHUB_TOKEN }} | ||
| workflow: Tests.yml | ||
| workflow_conclusion: success | ||
| branch: main | ||
| path: . | ||
|
|
||
| - name: Move files to dist | ||
| run: | | ||
| mkdir dist | ||
| mv dists/* dist/ | ||
| if [[ ! -f dist/multi_mst-${{ steps.version.outputs.version }}.tar.gz ]] ; then exit 1; fi | ||
| - name: Create Github Release | ||
| env: | ||
| GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }} | ||
| run: | | ||
| gh release create -R vda-lab/multi_mst -t "Version ${{ steps.version.outputs.version }}" -n "**Full Changelog**: https://github.com/vda-lab/multi_mst/commits/${{ steps.version.outputs.tag }}" "${{ steps.version.outputs.tag }}" dist/*.whl dist/*.tar.gz | ||
| - name: Publish package to (Test)PyPI | ||
| uses: pypa/[email protected] | ||
| # Comment lines below to publish to PyPi instead of test PyPi | ||
| # with: | ||
| # repository-url: https://test.pypi.org/legacy/ |
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
| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,136 @@ | ||
| name: Tests | ||
| concurrency: | ||
| group: ${{ github.workflow }}-${{ github.event.number }}-${{ github.event.ref }} | ||
| cancel-in-progress: true | ||
|
|
||
| on: | ||
| push: | ||
| branches: | ||
| - main | ||
| paths-ignore: | ||
| - 'doc/**' | ||
| - 'notebooks/**' | ||
| - 'README.md' | ||
| - '.gitignore' | ||
| - '.github/workflows/Docs.yml' | ||
| - '.github/workflows/Publish.yml' | ||
| pull_request: | ||
| branches: | ||
| - main | ||
| paths-ignore: | ||
| - 'doc/**' | ||
| - 'notebooks/**' | ||
| - 'README.md' | ||
| - '.gitignore' | ||
| - '.github/workflows/Docs.yml' | ||
| - '.github/workflows/Publish.yml' | ||
| workflow_dispatch: | ||
|
|
||
| jobs: | ||
| build_dists: | ||
| name: Build dists | ||
| runs-on: ubuntu-20.04 | ||
| outputs: | ||
| WHEEL_NAME: ${{ steps.dists.outputs.WHEEL_NAME }} | ||
| steps: | ||
| - uses: actions/checkout@v4 | ||
| with: | ||
| fetch-depth: 0 | ||
|
|
||
| - uses: actions/setup-python@v5 | ||
| name: Install python | ||
| with: | ||
| python-version: 3.9 | ||
| cache: 'pip' | ||
|
|
||
| - name: Install dependencies | ||
| run: | | ||
| python -m pip install --upgrade pip | ||
| pip install -r requirements.txt | ||
| pip install twine flake8 build | ||
| - name: Lint with flake8 | ||
| run: | | ||
| # stop the build if there are Python syntax errors or undefined names | ||
| flake8 . --count --select=E9,F63,F7,F82 --show-source --statistics | ||
| - name: Build dists | ||
| id: dists | ||
| run: | | ||
| python -m build --sdist --wheel | ||
| python ci/export_name.py | ||
| - name: Check README rendering for PyPI | ||
| run: twine check dist/* | ||
|
|
||
| - name: Upload sdist result | ||
| uses: actions/upload-artifact@v4 | ||
| with: | ||
| name: dists | ||
| path: dist/* | ||
| if-no-files-found: error | ||
|
|
||
| test_sdist: | ||
| name: Test dist for cp${{ matrix.python }}-${{ matrix.platform_id }}-${{ matrix.manylinux_image }} | ||
| needs: build_dists | ||
| runs-on: ${{ matrix.os }} | ||
| strategy: | ||
| fail-fast: true | ||
| matrix: | ||
| include: | ||
| - os: windows-latest | ||
| python: "3.9" | ||
| platform_id: win_amd64 | ||
| - os: windows-latest | ||
| python: "3.10" | ||
| platform_id: win_amd64 | ||
| - os: windows-latest | ||
| python: "3.11" | ||
| platform_id: win_amd64 | ||
|
|
||
| # Linux 64 bit manylinux2014 | ||
| - os: ubuntu-latest | ||
| python: "3.9" | ||
| platform_id: manylinux_x86_64 | ||
| manylinux_image: manylinux2014 | ||
| - os: ubuntu-latest | ||
| python: "3.10" | ||
| platform_id: manylinux_x86_64 | ||
| manylinux_image: manylinux2014 | ||
| - os: ubuntu-latest | ||
| python: "3.11" | ||
| platform_id: manylinux_x86_64 | ||
| manylinux_image: manylinux2014 | ||
|
|
||
| # MacOS x86_64 | ||
| - os: macos-latest | ||
| python: "3.9" | ||
| platform_id: macosx_x86_64 | ||
| - os: macos-latest | ||
| python: "3.10" | ||
| platform_id: macosx_x86_64 | ||
| - os: macos-latest | ||
| python: "3.11" | ||
| platform_id: macosx_x86_64 | ||
| steps: | ||
| - name: Download sdist | ||
| uses: actions/download-artifact@v4 | ||
| with: | ||
| name: dists | ||
| path: dist/ | ||
|
|
||
| - name: Setup Python | ||
| uses: actions/setup-python@v5 | ||
| with: | ||
| python-version: ${{ matrix.python }} | ||
|
|
||
| - name: Install dependencies | ||
| run: | | ||
| python -m pip install --upgrade pip | ||
| pip install pytest | ||
| - name: Run tests | ||
| run: | | ||
| pip install dist/${{ needs.build_dists.outputs.WHEEL_NAME }} | ||
| python -c "from multi_mst.tests import run_tests; run_tests()" | ||
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
Oops, something went wrong.