lint with isort as well

Clinical-Genomics · Nov 22, 2024 · 7aad734 · 7aad734
1 parent c54ba69
commit 7aad734
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diff --git a/.github/workflows/linting_and_fixing.yml b/.github/workflows/linting_and_fixing.yml
@@ -40,3 +40,5 @@ jobs:
         # stop the build if there are Python syntax errors or undefined names
         flake8: true
         flake8_args: "stranger/ --count --select=E9,F63,F7,F82 --show-source --statistics"
+        isort: true
+        isort_args: "-m 3 --tc --fgw 0 --up -n -l 100"
diff --git a/README.md b/README.md
@@ -22,6 +22,7 @@ uv pip install --editable .
 ## Usage
 
 ```
+uv run stranger --help
 Usage: stranger [OPTIONS] VCF
 
   Annotate str variants with str status

diff --git a/pyproject.toml b/pyproject.toml
@@ -52,12 +52,16 @@ target-version = ['py313']
 src = ["stranger", "tests", "scripts"]
 line-length = 100
 
+[tool.isort]
+profile = "black"
+
 [dependency-groups]
 dev = [
     "pytest-cov>=4.1.0",
     "pytest>=7.4.4",
 ]
 lint = [
     "black>=23.3.0",
+    "isort>=5.11.5",
     "ruff>=0.8.0",
 ]
diff --git a/uv.lock b/uv.lock