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Merge branch 'main' into issue-456 #1339

Merge branch 'main' into issue-456

Merge branch 'main' into issue-456 #1339

Workflow file for this run

name: Python CQA
on: [push, pull_request]
# TODO: separate lint and test jobs; lint first, test "needs" lint
# https://docs.github.com/en/actions/reference/workflow-syntax-for-github-actions#jobs
jobs:
test:
runs-on: ubuntu-latest
strategy:
fail-fast: false
matrix:
python-version: ["3.10", "3.11", "3.12"]
env:
SEQREPO_ROOT_DIR: ./tests/data/seqrepo/latest
steps:
- uses: actions/checkout@v4
with:
submodules: recursive
- uses: actions/cache@v4
with:
path: ~/.cache/pip
key: ${{ runner.os }}-pip-test-${{ hashFiles('pyproject.toml') }}
restore-keys: |
${{ runner.os }}-pip-
- name: Set up Python ${{ matrix.python-version }}
uses: actions/setup-python@v5
with:
python-version: ${{ matrix.python-version }}
- name: Update pip and setuptools
run: |
python -m pip install --upgrade pip setuptools
- name: Install dependencies
run: |
pip install -e .[dev,extras]
- name: Test with pytest
run: |
python -m pytest
precommit_hooks:
runs-on: ubuntu-latest
steps:
- uses: actions/checkout@v4
- uses: actions/setup-python@v5
- uses: pre-commit/[email protected]