Merge pull request #548 from gagneurlab/dev #902
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| name: Build | |
| on: [push,pull_request] | |
| jobs: | |
| build-linux: | |
| runs-on: ubuntu-latest | |
| # container: | |
| # image: mambaorg/micromamba:latest | |
| steps: | |
| - uses: actions/checkout@v2 | |
| - name: Setup environment with micromamba | |
| uses: mamba-org/provision-with-micromamba@v10 | |
| - name: Check micromamba install | |
| shell: bash -l {0} | |
| run: | | |
| micromamba --version | |
| micromamba env list | |
| # - name: Install dependencies | |
| # run: mamba env update -f environment.yml | |
| - name: Lint with flake8 | |
| shell: bash -l {0} | |
| run: | | |
| # stop the build if there are Python syntax errors or undefined names | |
| flake8 . --count --builtins="snakemake" --select=E9,F63,F7,F82 --show-source --statistics | |
| # exit-zero treats all errors as warnings. The GitHub editor is 127 chars wide | |
| flake8 . --count --exit-zero --max-complexity=10 --max-line-length=127 --statistics | |
| - name: Install DROP | |
| shell: bash -l {0} | |
| run: pip install -e . | |
| - name: Test with pytest | |
| shell: bash -l {0} | |
| env: | |
| GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }} | |
| run: | | |
| micromamba install pytest | |
| pip install -r tests/requirements.txt | |
| pytest |