From 06c0c4bbad3385d836d60dd75283025ada2bcbb9 Mon Sep 17 00:00:00 2001
From: Dimitri Papadopoulos
 <3234522+DimitriPapadopoulos@users.noreply.github.com>
Date: Sun, 12 Apr 2026 09:57:55 +0200
Subject: [PATCH 1/3] chore: update pre-commit hook sp-repo-review
MIME-Version: 1.0
Content-Type: text/plain; charset=UTF-8
Content-Transfer-Encoding: 8bit

updates:
- github.com/scientific-python/cookie: 2025.05.02 → 2026.04.04

enables a couple ingonred rules:
- PY005: Has tests folder
- PY006: Has pre-commit config
- RF103: pyupgrade must be selected
---
 .pre-commit-config.yaml | 2 +-
 pyproject.toml          | 2 +-
 2 files changed, 2 insertions(+), 2 deletions(-)

diff --git a/.pre-commit-config.yaml b/.pre-commit-config.yaml
index 59c2c983..292ad278 100644
--- a/.pre-commit-config.yaml
+++ b/.pre-commit-config.yaml
@@ -21,7 +21,7 @@ repos:
     - id: ruff-format
 
   - repo: https://github.com/scientific-python/cookie
-    rev: 2025.05.02
+    rev: 2026.04.04
     hooks:
     - id: sp-repo-review
 
diff --git a/pyproject.toml b/pyproject.toml
index 878c912a..2f50fac3 100644
--- a/pyproject.toml
+++ b/pyproject.toml
@@ -122,7 +122,7 @@ exclude_lines = [
 ]
 
 [tool.repo-review]
-ignore = ["PY005", "PY007", "PP302", "PP308", "PP309", "GH103", "GH212", "PC111", "PC140", "PC160", "PC170", "PC180", "MY100", "RF103"]
+ignore = ["PY007", "PP302", "PP308", "PP309", "GH103", "GH212", "PC111", "PC140", "PC160", "PC170", "PC180", "MY100"]
 
 [tool.pytest.ini_options]
 addopts = "-ra --strict-config --strict-markers --cov=numcodecs --cov-report xml --doctest-modules --doctest-glob=*.pyx"

From 88bc65598235165ef17227c8ce27766315dd446b Mon Sep 17 00:00:00 2001
From: Dimitri Papadopoulos
 <3234522+DimitriPapadopoulos@users.noreply.github.com>
Date: Sun, 12 Apr 2026 09:58:44 +0200
Subject: [PATCH 2/3] Apply cookie rule PP304
MIME-Version: 1.0
Content-Type: text/plain; charset=UTF-8
Content-Transfer-Encoding: 8bit

  PyProject:
  └── PP304 Sets the log level in pytest ❌
      log_level should be set. This will allow logs to be displayed on failures.
---
 pyproject.toml | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

diff --git a/pyproject.toml b/pyproject.toml
index 2f50fac3..068602cd 100644
--- a/pyproject.toml
+++ b/pyproject.toml
@@ -125,7 +125,7 @@ exclude_lines = [
 ignore = ["PY007", "PP302", "PP308", "PP309", "GH103", "GH212", "PC111", "PC140", "PC160", "PC170", "PC180", "MY100"]
 
 [tool.pytest.ini_options]
-addopts = "-ra --strict-config --strict-markers --cov=numcodecs --cov-report xml --doctest-modules --doctest-glob=*.pyx"
+addopts = ["-ra", "--strict-config", "--strict-markers", "--cov=numcodecs", "--cov-report", "xml", "--doctest-modules", "--doctest-glob=*.pyx"]
 doctest_optionflags = [
     "NORMALIZE_WHITESPACE",
     "ELLIPSIS",
@@ -148,7 +148,7 @@ norecursedirs = [
     "notebooks",
     "numcodecs.egg-info",
 ]
-log_cli_level = "INFO"
+log_level = "INFO"
 xfail_strict = true
 filterwarnings = [
     "error",

From c2e315a7388caeca4ae30667bc9655b4931c6430 Mon Sep 17 00:00:00 2001
From: Dimitri Papadopoulos
 <3234522+DimitriPapadopoulos@users.noreply.github.com>
Date: Sun, 12 Apr 2026 10:10:19 +0200
Subject: [PATCH 3/3] Temporarily ignore cookie rule GH105
MIME-Version: 1.0
Content-Type: text/plain; charset=UTF-8
Content-Transfer-Encoding: 8bit

  GitHub Actions:
  └── GH105 Use Trusted Publishing instead of token-based publishing on PyPI ❌
---
 pyproject.toml | 16 +++++++++++++++-
 1 file changed, 15 insertions(+), 1 deletion(-)

diff --git a/pyproject.toml b/pyproject.toml
index 068602cd..8d5bcd23 100644
--- a/pyproject.toml
+++ b/pyproject.toml
@@ -122,7 +122,21 @@ exclude_lines = [
 ]
 
 [tool.repo-review]
-ignore = ["PY007", "PP302", "PP308", "PP309", "GH103", "GH212", "PC111", "PC140", "PC160", "PC170", "PC180", "MY100"]
+ignore = [
+    "PY007",
+    "PP302",
+    "PP308",
+    "PP309",
+    "GH103",
+    "GH105",  # https://github.com/zarr-developers/zarr-python/issues/3798
+    "GH212",
+    "MY100",
+    "PC111",
+    "PC140",
+    "PC160",
+    "PC170",
+    "PC180",
+]
 
 [tool.pytest.ini_options]
 addopts = ["-ra", "--strict-config", "--strict-markers", "--cov=numcodecs", "--cov-report", "xml", "--doctest-modules", "--doctest-glob=*.pyx"]