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Install dask[dataframe] explicitly to fix upstream error #64

Install dask[dataframe] explicitly to fix upstream error

Install dask[dataframe] explicitly to fix upstream error #64

Workflow file for this run

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", "3.12"]
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-numpy2.txt -r requirements-numpy2-dev.txt
# update bio2zarr for NumPy 2, see https://github.com/sgkit-dev/bio2zarr/issues/256
pip install -U 'numpy<2.1' -U git+https://github.com/sgkit-dev/bio2zarr.git
# - name: Run pre-commit
# uses: pre-commit/[email protected]
- 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