From c8bbbb28d99619aab0bec18e37d81abe154a491b Mon Sep 17 00:00:00 2001
From: Brian Helba <brian.helba@kitware.com>
Date: Sat, 19 Jul 2025 15:59:40 -0400
Subject: [PATCH] Update MyPy

---
 isic_challenge_scoring/classification.py |  5 +---
 isic_challenge_scoring/segmentation.py   |  5 +---
 pyproject.toml                           | 30 +++++++++++++++---------
 3 files changed, 21 insertions(+), 19 deletions(-)

diff --git a/isic_challenge_scoring/classification.py b/isic_challenge_scoring/classification.py
index 35021b8..8b7e0fc 100644
--- a/isic_challenge_scoring/classification.py
+++ b/isic_challenge_scoring/classification.py
@@ -47,10 +47,7 @@ def __init__(
                 for category in categories
             ]
         )
-        # TODO: Fixed by https://github.com/pandas-dev/pandas-stubs/pull/1105
-        self.macro_average = self.per_category.mean(  # type: ignore[assignment]
-            axis='index'
-        ).rename('macro_average', inplace=True)
+        self.macro_average = self.per_category.mean(axis='index').rename('macro_average')
         self.rocs = {
             category: metrics.roc(
                 truth_probabilities[category],
diff --git a/isic_challenge_scoring/segmentation.py b/isic_challenge_scoring/segmentation.py
index 14e8875..bbc615b 100644
--- a/isic_challenge_scoring/segmentation.py
+++ b/isic_challenge_scoring/segmentation.py
@@ -52,10 +52,7 @@ def __init__(self, image_pairs: Iterable[ImagePair]) -> None:
             ],
         )
 
-        # TODO: Fixed by https://github.com/pandas-dev/pandas-stubs/pull/1105
-        self.macro_average = per_image.mean(axis='index').rename(  # type: ignore[assignment]
-            'macro_average', inplace=True
-        )
+        self.macro_average = per_image.mean(axis='index').rename('macro_average')
 
         self.overall = self.macro_average.at['threshold_jaccard']
         self.validation = self.macro_average.at['threshold_jaccard']
diff --git a/pyproject.toml b/pyproject.toml
index db4e8c5..433ed01 100644
--- a/pyproject.toml
+++ b/pyproject.toml
@@ -81,17 +81,6 @@ line-length = 100
 skip-string-normalization = true
 target-version = ["py313"]
 
-[tool.coverage.run]
-source_pkgs = [
-  "isic_challenge_scoring",
-]
-
-[tool.coverage.paths]
-source = [
-  "isic_challenge_scoring/",
-  ".tox/**/site-packages/isic_challenge_scoring/",
-]
-
 [tool.isort]
 profile = "black"
 line_length = 100
@@ -105,7 +94,12 @@ files = [
   "isic_challenge_scoring",
   "tests",
 ]
+check_untyped_defs = true
+ignore_missing_imports = true
 show_error_codes = true
+warn_redundant_casts = true
+warn_unused_configs = true
+warn_unused_ignores = true
 
 [[tool.mypy.overrides]]
 module = [
@@ -133,3 +127,17 @@ filterwarnings = [
 testpaths = [
   "tests",
 ]
+
+[tool.coverage.run]
+source_pkgs = [
+  "isic_challenge_scoring",
+]
+
+[tool.coverage.paths]
+source = [
+  "isic_challenge_scoring/",
+  ".tox/**/site-packages/isic_challenge_scoring/",
+]
+
+[tool.coverage.report]
+skip_empty = true