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Test #53

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Test

Test #53

Workflow file for this run

.github/workflows/test.yml at aabd625
name: Test
on:
- push
- pull_request
jobs:
test:
name: Test
runs-on: ubuntu-22.04
strategy:
matrix:
include:
- python-version: '3.9'
- python-version: '3.10'
- python-version: '3.11'
- python-version: '3.12'
- python-version: '3.13'
- python-version: '3.14'
steps:
- name: Checkout code
uses: actions/checkout@v4
- name: Setup Python ${{ matrix.python-version }}
uses: actions/setup-python@v5
with:
python-version: ${{ matrix.python-version }}
- name: Update pip
run: python -m pip install -U pip wheel setuptools build
- name: Install test requirements
run: python -m pip install -e ".[train]"
- name: Download local data
run: python setup.py download_pfam -i
- name: Test package
run: python -m unittest discover -v
wheel:
runs-on: ubuntu-latest
name: Build universal wheel
needs:
- test
steps:
- name: Checkout code
uses: actions/checkout@v4
with:
submodules: true
- name: Setup Python 3.14
uses: actions/setup-python@v5
with:
python-version: "3.14"
- name: Install build requirements
run: python -m pip install -U pip wheel setuptools build
- name: Build wheel
run: python -m build --wheel --outdir dist
- name: Store built wheels
uses: actions/upload-artifact@v4
with:
name: wheel
path: dist/*
sdist:
runs-on: ubuntu-latest
name: Build source distribution
needs:
- test
steps:
- name: Checkout code
uses: actions/checkout@v4
with:
submodules: true
- name: Set up Python 3.14
uses: actions/setup-python@v5
with:
python-version: "3.14"
- name: Install build requirements
run: python -m pip install -U pip wheel setuptools build
- name: Build distribution
run: python -m build --sdist --outdir dist
- name: Store built wheels
uses: actions/upload-artifact@v4
with:
name: sdist
path: dist/*
install-sdist:
runs-on: ubuntu-latest
name: Install source distribution
needs:
- sdist
steps:
- name: Set up Python 3.14
uses: actions/setup-python@v5
with:
python-version: "3.14"
- name: Update pip
run: python -m pip install -U pip wheel setuptools build
- name: Install build requirements
run: python -m pip install -U pyhmmer rich
- name: Download source distribution
uses: actions/download-artifact@v4
with:
name: sdist
path: dist/
merge-multiple: true
- name: Install package from source
run: python -m pip install --no-build-isolation --find-link dist/ chamois-tool
upload:
environment: PyPI
runs-on: ubuntu-latest
if: startsWith(github.ref, 'refs/tags/v')
permissions:
id-token: write
name: Upload
needs:
- sdist
- install-sdist
- wheel
steps:
- name: Download source distribution
uses: actions/download-artifact@v4
with:
name: sdist
path: dist/
merge-multiple: true
- name: Download wheel distributions
uses: actions/download-artifact@v4
with:
pattern: wheel
path: dist/
merge-multiple: true
- name: Publish distributions to PyPI
uses: pypa/gh-action-pypi-publish@release/v1
release:
environment: GitHub Releases
runs-on: ubuntu-latest
if: "startsWith(github.ref, 'refs/tags/v')"
name: Release
needs: upload
permissions:
contents: write
steps:
- name: Checkout code
uses: actions/checkout@v4
- name: Release a Changelog
uses: rasmus-saks/release-a-changelog-action@v1.2.0
with:
github-token: '${{ secrets.GITHUB_TOKEN }}'
attach:
runs-on: ubuntu-latest
name: Attach artifacts to GitHub release
if: startsWith(github.ref, 'refs/tags/v')
needs: release
permissions:
contents: write
steps:
- name: Checkout code
uses: actions/checkout@v2
with:
submodules: true
- name: Set up Python 3.14
uses: actions/setup-python@v2
with:
python-version: 3.14
- name: Install build requirements
run: python -m pip install -U pip wheel setuptools
- name: Install project dependencies
run: python -m pip install -e .
- name: Build new HMM artifacts
run: python setup.py download_pfam -f -r
- name: Upload HMM
uses: softprops/action-gh-release@v2
with:
files: build/lib/chamois/domains/Pfam38.0.hmm.zst