odcambc · odcambc · Feb 4, 2025 · Feb 4, 2025 · Feb 4, 2025 · Feb 4, 2025
diff --git a/.gitignore b/.gitignore
@@ -20,3 +20,10 @@ example/
 *.dict
 *.fastq
 .Rproj.user
+.venv*/
+reports/full_e2e/latest.json
+
+.cache/
+.mypy_cache/
+.pytest_cache/
+__pycache__/
diff --git a/dumpling_env.yaml b/dumpling_env.yaml
@@ -16,5 +16,5 @@ dependencies:
   - regex
   - pip
   - pip:
-      - multiqc>=1.19
+      - multiqc>=1.25
       - regex
diff --git a/pytest.ini b/pytest.ini
@@ -0,0 +1,11 @@
+[pytest]
+testpaths = tests
+python_files = test_*.py
+python_functions = test_*
+addopts = -v --tb=short
+markers =
+    unit: Unit tests (fast, isolated)
+    integration: Integration tests (may use filesystem)
+    slow: Slow tests (full pipeline validation)
+filterwarnings =
+    ignore::DeprecationWarning
diff --git a/renv.lock b/renv.lock
-Original file line number
+Diff line change
@@ Expand Up / @@ -16,5 +16,5 @@ dependencies: @@
       - regex
       - pip
       - pip:
-          - multiqc>=1.19
+          - multiqc>=1.25
           - regex