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ci(fastqc): Run pytest-workflow instead of workflow

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This will check for the actual output files and their contents not just
whether the module runs or not.
This commit is contained in:
Edmund Miller 2020-11-16 09:37:22 -06:00
parent 07017f401e
commit 6d857a2584
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1 changed files with 8 additions and 1 deletions
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9
.github/workflows/fastqc.yml vendored
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@ -26,5 +26,12 @@ jobs:
wget -qO- get.nextflow.io | bash wget -qO- get.nextflow.io | bash
sudo mv nextflow /usr/local/bin/ sudo mv nextflow /usr/local/bin/
- name: Set up Python
uses: actions/setup-python@v2
with:
python-version: "3.x"
- name: Install dependencies
run: python -m pip install --upgrade pip pytest-workflow
# Test the module # Test the module
- run: nextflow run ./software/fastqc/test/ -profile docker - run: pytest --tag fastqc --symlink