[repo-helper] Configuration Update (#66)

* Updated files with 'repo_helper'.

* [pre-commit.ci] auto fixes from pre-commit.com hooks

for more information, see https://pre-commit.ci

---------

Co-authored-by: repo-helper[bot] <74742576+repo-helper[bot]@users.noreply.github.com>
Co-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>

Author: repo-helper[bot]

.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"

.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"

.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"

.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"

.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"

.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"

.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

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

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: