From 75e657b36ce9a8f2edec7654fd9b0c16640a5fe6 Mon Sep 17 00:00:00 2001
From: "scverse-pr-creator[bot]"
 <272303624+scverse-pr-creator[bot]@users.noreply.github.com>
Date: Mon, 1 Jun 2026 18:11:57 +0000
Subject: [PATCH 1/3] Update instance repo from cookiecutter template

---
 .cruft.json | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

diff --git a/.cruft.json b/.cruft.json
index ade7dd9..384c8e7 100644
--- a/.cruft.json
+++ b/.cruft.json
@@ -1,6 +1,6 @@
 {
   "template": "/home/runner/work/cookiecutter-scverse/cookiecutter-scverse",
-  "commit": "856d5bb4b232ef755a4039ef7f6c1e2af2320345",
+  "commit": "5638864698f2448bfa7581142d272b42d236e33c",
   "checkout": null,
   "context": {
     "cookiecutter": {
@@ -36,7 +36,7 @@
         "trim_blocks": true
       },
       "_template": "/home/runner/work/cookiecutter-scverse/cookiecutter-scverse",
-      "_commit": "856d5bb4b232ef755a4039ef7f6c1e2af2320345"
+      "_commit": "5638864698f2448bfa7581142d272b42d236e33c"
     }
   },
   "directory": null

From d9971f9a2d298186c412bf35a8413eb6cb34224c Mon Sep 17 00:00:00 2001
From: "scverse-pr-creator[bot]"
 <272303624+scverse-pr-creator[bot]@users.noreply.github.com>
Date: Mon, 1 Jun 2026 18:24:06 +0000
Subject: [PATCH 2/3] Update instance repo from cookiecutter template

---
 .cruft.json             | 4 ++--
 .pre-commit-config.yaml | 6 +++---
 2 files changed, 5 insertions(+), 5 deletions(-)

diff --git a/.cruft.json b/.cruft.json
index 384c8e7..bdd2c4e 100644
--- a/.cruft.json
+++ b/.cruft.json
@@ -1,6 +1,6 @@
 {
   "template": "/home/runner/work/cookiecutter-scverse/cookiecutter-scverse",
-  "commit": "5638864698f2448bfa7581142d272b42d236e33c",
+  "commit": "2e57ddc829dc46e27a428f412a0c1249d72200f4",
   "checkout": null,
   "context": {
     "cookiecutter": {
@@ -36,7 +36,7 @@
         "trim_blocks": true
       },
       "_template": "/home/runner/work/cookiecutter-scverse/cookiecutter-scverse",
-      "_commit": "5638864698f2448bfa7581142d272b42d236e33c"
+      "_commit": "2e57ddc829dc46e27a428f412a0c1249d72200f4"
     }
   },
   "directory": null
diff --git a/.pre-commit-config.yaml b/.pre-commit-config.yaml
index f2ae6fe..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: v0.15.14
+    rev: v0.15.15
     hooks:
       - id: ruff-check
         types_or: [python, pyi, jupyter]

From 891c8b7f075d50524c02b300b850df33d12aa6df Mon Sep 17 00:00:00 2001
From: "scverse-pr-creator[bot]"
 <272303624+scverse-pr-creator[bot]@users.noreply.github.com>
Date: Mon, 1 Jun 2026 23:41:01 +0000
Subject: [PATCH 3/3] Update instance repo from cookiecutter template

---
 pyproject.toml | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

diff --git a/pyproject.toml b/pyproject.toml
index e1b18d7..6c6f207 100644
--- a/pyproject.toml
+++ b/pyproject.toml
@@ -116,11 +116,11 @@ lint.per-file-ignores."tests/*" = [ "D" ]
 lint.pydocstyle.convention = "numpy"
 
 [tool.pytest]
-strict = true
-testpaths = [ "tests" ]
 addopts = [
   "--import-mode=importlib", # allow using test files with same name
 ]
+strict = true
+testpaths = [ "tests" ]
 
 [tool.coverage]
 run.omit = [