CI Linux #4
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| name: CI Linux | |
| on: | |
| push: | |
| branch: | |
| - master | |
| pull_request: | |
| branch: | |
| - master | |
| schedule: | |
| - cron: 0 7 * * 5 | |
| jobs: | |
| run: | |
| name: Run pipeline | |
| timeout-minutes: 5 | |
| runs-on: ubuntu-latest | |
| defaults: | |
| run: | |
| shell: bash -l {0} | |
| steps: | |
| - uses: actions/checkout@v2 | |
| - uses: conda-incubator/setup-miniconda@v2 | |
| with: | |
| activate-environment: testenv | |
| auto-update-conda: false | |
| environment-file: environment.linux-64.lock | |
| - name: Install and check env | |
| run: | | |
| conda activate testenv | |
| pip install .[dev] | |
| conda info | |
| conda list | |
| dbspro --version | |
| - name: Run flake8 | |
| run: | | |
| conda activate testenv | |
| flake8 src/ tests/ | |
| flake8 --select=W292 --filename '*.yaml,*.yml' | |
| - name: Download test dataset | |
| env: | |
| testdata_version: "0.4" | |
| run: | | |
| wget -nv https://export.uppmax.uu.se/uppstore2018173/DBS-Pro-testdata-${testdata_version}.tar.gz | |
| tar xf DBS-Pro-testdata-${testdata_version}.tar.gz | |
| ln -s DBS-Pro-testdata-${testdata_version} testdata | |
| - name: Run tests | |
| run: | | |
| conda activate testenv | |
| # Required to make umi-tools output consistent. | |
| export PYTHONHASHSEED=1 | |
| pytest -v tests/ |