diff --git a/.github/workflows/fastqc.yml b/.github/workflows/fastqc.yml
index 45c2fbe4..352c7bb3 100644
--- a/.github/workflows/fastqc.yml
+++ b/.github/workflows/fastqc.yml
@@ -26,5 +26,12 @@ jobs:
         wget -qO- get.nextflow.io | bash
         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
-    - run: nextflow run ./software/fastqc/test/ -profile docker
+    - run: pytest --tag fastqc --symlink