From 5a1f51a7e9c6e2d94f55c116f87bc3d7a1ea9d01 Mon Sep 17 00:00:00 2001
From: "pre-commit-ci[bot]"
 <66853113+pre-commit-ci[bot]@users.noreply.github.com>
Date: Mon, 1 Jun 2026 20:50:13 +0000
Subject: [PATCH 1/2] [pre-commit.ci] pre-commit autoupdate
MIME-Version: 1.0
Content-Type: text/plain; charset=UTF-8
Content-Transfer-Encoding: 8bit

updates:
- [github.com/biomejs/pre-commit: v2.4.15 → v2.4.16](https://github.com/biomejs/pre-commit/compare/v2.4.15...v2.4.16)
- [github.com/tox-dev/pyproject-fmt: v2.21.2 → v2.23.0](https://github.com/tox-dev/pyproject-fmt/compare/v2.21.2...v2.23.0)
- [github.com/astral-sh/ruff-pre-commit: v0.15.13 → v0.15.15](https://github.com/astral-sh/ruff-pre-commit/compare/v0.15.13...v0.15.15)
---
 .pre-commit-config.yaml | 6 +++---
 1 file changed, 3 insertions(+), 3 deletions(-)

diff --git a/.pre-commit-config.yaml b/.pre-commit-config.yaml
index f59006b..cca0b46 100644
--- a/.pre-commit-config.yaml
+++ b/.pre-commit-config.yaml
@@ -7,16 +7,16 @@ default_stages:
 minimum_pre_commit_version: 2.16.0
 repos:
   - repo: https://github.com/biomejs/pre-commit
-    rev: v2.4.15
+    rev: v2.4.16
     hooks:
       - id: biome-format
         exclude: ^\.cruft\.json$ # inconsistent indentation with cruft - file never to be modified manually.
   - repo: https://github.com/tox-dev/pyproject-fmt
-    rev: v2.21.2
+    rev: v2.23.0
     hooks:
       - id: pyproject-fmt
   - repo: https://github.com/astral-sh/ruff-pre-commit
-    rev: v0.15.13
+    rev: v0.15.15
     hooks:
       - id: ruff-check
         types_or: [python, pyi, jupyter]

From e7e18a13da9b0654b944d32e3bdfebbd21f54b90 Mon Sep 17 00:00:00 2001
From: "pre-commit-ci[bot]"
 <66853113+pre-commit-ci[bot]@users.noreply.github.com>
Date: Mon, 1 Jun 2026 20:50:33 +0000
Subject: [PATCH 2/2] [pre-commit.ci] auto fixes from pre-commit.com hooks

for more information, see https://pre-commit.ci
---
 pyproject.toml | 10 +++++-----
 1 file changed, 5 insertions(+), 5 deletions(-)

diff --git a/pyproject.toml b/pyproject.toml
index 13a3b12..266a85a 100644
--- a/pyproject.toml
+++ b/pyproject.toml
@@ -79,12 +79,13 @@ urls.Homepage = "https://github.com/quadbio/cellmapper"
 urls.Source = "https://github.com/quadbio/cellmapper"
 
 [tool.hatch]
+version.source = "vcs"
 envs.default.installer = "uv"
 envs.default.features = [ "dev" ]
 envs.docs.features = [ "doc" ]
 envs.docs.scripts.build = "sphinx-build -M html docs docs/_build {args}"
-envs.docs.scripts.open = "python -m webbrowser -t docs/_build/html/index.html"
 envs.docs.scripts.clean = "git clean -fdX -- {args:docs}"
+envs.docs.scripts.open = "python -m webbrowser -t docs/_build/html/index.html"
 envs.hatch-test.features = [ "dev", "test" ]
 envs.hatch-test.matrix = [
   # Test the lowest and highest supported Python versions with normal deps
@@ -95,9 +96,8 @@ envs.hatch-test.matrix = [
 # If the matrix variable `deps` is set to "pre",
 # set the environment variable `UV_PRERELEASE` to "allow".
 envs.hatch-test.overrides.matrix.deps.env-vars = [
-  { key = "UV_PRERELEASE", value = "allow", if = [ "pre" ] },
+  { value = "allow", key = "UV_PRERELEASE", if = [ "pre" ] },
 ]
-version.source = "vcs"
 
 [tool.ruff]
 line-length = 120
@@ -138,11 +138,11 @@ lint.per-file-ignores."tests/*" = [ "D" ]
 lint.pydocstyle.convention = "numpy"
 
 [tool.pytest]
-testpaths = [ "tests" ]
-strict = true
 addopts = [
   "--import-mode=importlib", # allow using test files with same name
 ]
+strict = true
+testpaths = [ "tests" ]
 
 [tool.coverage]
 run.omit = [