Replace multiprocessing with threading on hmmalign/muscle step. #38
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| name: Conda build test | |
| on: | |
| push: | |
| branches: ["main", "dev"] | |
| paths: ["**.py", "environment.yml"] | |
| pull_request: | |
| branches: ["main", "dev"] | |
| paths: ["**.py", "environment.yml"] | |
| workflow_dispatch: | |
| jobs: | |
| build-conda-and-test: | |
| name: Build conda env and test | |
| runs-on: ubuntu-latest | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - uses: mamba-org/setup-micromamba@v1 | |
| with: | |
| environment-file: environment.yml | |
| create-args: >- | |
| python=3.10 | |
| flake8 | |
| pytest | |
| pytest-cov | |
| - name: Lint with flake8 | |
| run: | | |
| flake8 . --count --select=E9,F63,F7,F82 --show-source --statistics | |
| flake8 . --count --exit-zero --max-complexity=30 --max-line-length=130 --statistics --ignore=E203,W503,E402 | |
| shell: micromamba-shell {0} | |
| - name: Install package | |
| run: pip install . | |
| shell: micromamba-shell {0} | |
| - name: Pytest | |
| run: pytest --runslow -vv | |
| shell: micromamba-shell {0} |