From 11be5bbbf5dc7de296d08dfdfac896c4548b006f Mon Sep 17 00:00:00 2001
From: "repo-helper[bot]" <74742576+repo-helper[bot]@users.noreply.github.com>
Date: Wed, 8 Jul 2026 22:58:32 +0000
Subject: [PATCH 1/2] Updated files with 'repo_helper'.

---
 .github/workflows/docs_test_action.yml | 2 +-
 .github/workflows/flake8.yml           | 2 +-
 .github/workflows/mypy.yml             | 2 +-
 .github/workflows/python_ci.yml        | 2 +-
 .github/workflows/python_ci_linux.yml  | 2 +-
 .github/workflows/python_ci_macos.yml  | 2 +-
 .pre-commit-config.yaml                | 4 +++-
 justfile                               | 5 +++++
 8 files changed, 14 insertions(+), 7 deletions(-)

diff --git a/.github/workflows/docs_test_action.yml b/.github/workflows/docs_test_action.yml
index cc61c83..76249f1 100644
--- a/.github/workflows/docs_test_action.yml
+++ b/.github/workflows/docs_test_action.yml
@@ -19,7 +19,7 @@ jobs:
         uses: "actions/checkout@v6"
 
       - name: Check for changed files
-        uses: dorny/paths-filter@v2
+        uses: dorny/paths-filter@v4
         id: changes
         with:
           list-files: "json"
diff --git a/.github/workflows/flake8.yml b/.github/workflows/flake8.yml
index 8296b42..1f5be86 100644
--- a/.github/workflows/flake8.yml
+++ b/.github/workflows/flake8.yml
@@ -22,7 +22,7 @@ jobs:
         uses: "actions/checkout@v6"
 
       - name: Check for changed files
-        uses: dorny/paths-filter@v2
+        uses: dorny/paths-filter@v4
         id: changes
         with:
           list-files: "json"
diff --git a/.github/workflows/mypy.yml b/.github/workflows/mypy.yml
index 4b27c5d..2b5e4f8 100644
--- a/.github/workflows/mypy.yml
+++ b/.github/workflows/mypy.yml
@@ -27,7 +27,7 @@ jobs:
         uses: "actions/checkout@v6"
 
       - name: Check for changed files
-        uses: dorny/paths-filter@v2
+        uses: dorny/paths-filter@v4
         id: changes
         with:
           list-files: "json"
diff --git a/.github/workflows/python_ci.yml b/.github/workflows/python_ci.yml
index b301481..b446430 100644
--- a/.github/workflows/python_ci.yml
+++ b/.github/workflows/python_ci.yml
@@ -40,7 +40,7 @@ jobs:
 
       - name: Check for changed files
         if: startsWith(github.ref, 'refs/tags/') != true
-        uses: dorny/paths-filter@v2
+        uses: dorny/paths-filter@v4
         id: changes
         with:
           list-files: "json"
diff --git a/.github/workflows/python_ci_linux.yml b/.github/workflows/python_ci_linux.yml
index 895d5e3..1d666c5 100644
--- a/.github/workflows/python_ci_linux.yml
+++ b/.github/workflows/python_ci_linux.yml
@@ -41,7 +41,7 @@ jobs:
 
       - name: Check for changed files
         if: startsWith(github.ref, 'refs/tags/') != true
-        uses: dorny/paths-filter@v2
+        uses: dorny/paths-filter@v4
         id: changes
         with:
           list-files: "json"
diff --git a/.github/workflows/python_ci_macos.yml b/.github/workflows/python_ci_macos.yml
index dae20ad..401c9b3 100644
--- a/.github/workflows/python_ci_macos.yml
+++ b/.github/workflows/python_ci_macos.yml
@@ -40,7 +40,7 @@ jobs:
 
       - name: Check for changed files
         if: startsWith(github.ref, 'refs/tags/') != true
-        uses: dorny/paths-filter@v2
+        uses: dorny/paths-filter@v4
         id: changes
         with:
           list-files: "json"
diff --git a/.pre-commit-config.yaml b/.pre-commit-config.yaml
index 62451fb..9d62a0b 100644
--- a/.pre-commit-config.yaml
+++ b/.pre-commit-config.yaml
@@ -84,9 +84,11 @@ repos:
     - id: forbid-crlf
 
  - repo: https://github.com/python-formate/snippet-fmt
-   rev: v0.1.5
+   rev: v0.3.1
    hooks:
     - id: snippet-fmt
+      additional_dependencies:
+       - formate-trailing-commas>=0.1.1
 
  - repo: https://github.com/python-formate/formate
    rev: v1.2.1
diff --git a/justfile b/justfile
index 9cd8b78..4307956 100644
--- a/justfile
+++ b/justfile
@@ -23,3 +23,8 @@ bare-ignore:
 
 lint: unused-imports incomplete-defs bare-ignore
 	tox -n qa
+
+uncomm:
+  git status -uall --ignored
+
+# Custom commands can be added below this comment

From 9f2903461cc4a515b65b3d2cae19e3f33c7deb53 Mon Sep 17 00:00:00 2001
From: "pre-commit-ci[bot]"
 <66853113+pre-commit-ci[bot]@users.noreply.github.com>
Date: Wed, 8 Jul 2026 22:59:38 +0000
Subject: [PATCH 2/2] [pre-commit.ci] auto fixes from pre-commit.com hooks

for more information, see https://pre-commit.ci
---
 mh_utils/csv_parser/classes.py | 18 +++++++++---------
 1 file changed, 9 insertions(+), 9 deletions(-)

diff --git a/mh_utils/csv_parser/classes.py b/mh_utils/csv_parser/classes.py
index 054a3d3..e061dcb 100644
--- a/mh_utils/csv_parser/classes.py
+++ b/mh_utils/csv_parser/classes.py
@@ -553,11 +553,11 @@ def reorder_samples(self, order_mapping: Dict, key: str = "sample_name") -> None
 				.. code-block:: python
 
 					order_mapping = {
-						"Propellant 1ug +ve": 0,
-						"Propellant 1mg +ve": 1,
-						"Propellant 1ug -ve": 2,
-						"Propellant 1mg -ve": 3,
-						}
+							"Propellant 1ug +ve": 0,
+							"Propellant 1mg +ve": 1,
+							"Propellant 1ug -ve": 2,
+							"Propellant 1mg -ve": 3,
+							}
 
 		:param key: The name of the property in the sample to sort by.
 		"""
@@ -579,10 +579,10 @@ def rename_samples(self, rename_mapping: Dict, key: str = "sample_name") -> None
 		.. code-block:: python
 
 			rename_mapping = {
-				"Propellant 1ug +ve": "Alliant Unique 1µg/L +ESI",
-				"Propellant 1mg +ve": "Alliant Unique 1mg/L +ESI",
-				"Propellant 1mg -ve": None,
-				}
+					"Propellant 1ug +ve": "Alliant Unique 1µg/L +ESI",
+					"Propellant 1mg +ve": "Alliant Unique 1mg/L +ESI",
+					"Propellant 1mg -ve": None,
+					}
 		"""
 
 		for sample in self: