Remove VCF docs and refer to bio2zarr and vcztools #24
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name: Build NumPy 2 | |
on: | |
push: | |
pull_request: | |
jobs: | |
build: | |
# Scheduled runs only on the origin org | |
if: (github.event_name == 'schedule' && github.repository_owner == 'sgkit-dev') || (github.event_name != 'schedule') | |
runs-on: ubuntu-latest | |
strategy: | |
matrix: | |
python-version: ["3.10", "3.11"] | |
steps: | |
- uses: actions/checkout@v2 | |
- name: Set up Python ${{ matrix.python-version }} | |
uses: actions/setup-python@v2 | |
with: | |
python-version: ${{ matrix.python-version }} | |
- name: Install dependencies | |
run: | | |
python -m pip install --upgrade pip | |
pip install -r requirements.txt -r requirements-dev.txt | |
pip install -U 'numpy<2.1' | |
- name: Run pre-commit | |
uses: pre-commit/action@v2.0.0 | |
- name: Test with pytest (numba jit disabled) | |
env: | |
NUMBA_DISABLE_JIT: 1 | |
run: | | |
# avoid guvectorized functions #1194 | |
pytest -v sgkit/tests/test_pedigree.py | |
- name: Test with pytest and coverage | |
run: | | |
pytest -v --cov=sgkit --cov-report=term-missing |