add no_ssl parameter as flag to verify or not #25
Workflow file for this run
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name: Integration Tests | |
on: | |
pull_request: | |
branches: [master] | |
jobs: | |
build: | |
runs-on: ubuntu-latest | |
steps: | |
- uses: actions/checkout@v2 | |
- name: Set up Python 3.8 | |
uses: actions/setup-python@v1 | |
with: | |
python-version: 3.8 | |
- name: Install dependencies & package | |
run: | | |
python -m pip install --upgrade pip | |
pip install -r requirements.txt -r requirements-dev.txt | |
python setup.py install | |
- name: Test download of databases | |
run: fusion_report download --cosmic_usr "${{ secrets.COSMIC_USERNAME }}" --cosmic_passwd "${{ secrets.COSMIC_PASSWD }}" ./db | |
- name: Test run | |
run: | | |
fusion_report run "example-sample" ./docs/example ./db/ \ | |
--arriba tests/test_data/arriba.tsv \ | |
--fusioncatcher tests/test_data/fusioncatcher.txt \ | |
--starfusion tests/test_data/starfusion.tsv \ | |
--export csv |