Merge pull request #1 from fcbg-hnp-meeg/dependabot/github_actions/ac…

…tions/setup-python-5

Bump actions/setup-python from 4 to 5

.github/workflows/code-style.yml

@@ -16,7 +16,7 @@ jobs:
       - name: Checkout repository
         uses: actions/checkout@v4
       - name: Setup Python 3.9
-        uses: actions/setup-python@v4
+        uses: actions/setup-python@v5
         with:
           python-version: '3.9'
           architecture: 'x64'
@@ -41,7 +41,5 @@ jobs:
           ignore_words_file: ./.codespellignore
       - name: Run pydocstyle
         run: pydocstyle .
-      - name: Run bibclean
-        run: bibclean-check doc/references.bib
       - name: Run toml-sort
         run: toml-sort pyproject.toml --check

.github/workflows/pytest.yml

@@ -31,7 +31,7 @@ jobs:
       - name: Checkout repository
         uses: actions/checkout@v4
       - name: Setup Python ${{ matrix.python-version }}
-        uses: actions/setup-python@v4
+        uses: actions/setup-python@v5
         with:
           python-version: ${{ matrix.python-version }}
           architecture: 'x64'
@@ -67,7 +67,7 @@ jobs:
       - name: Checkout repository
         uses: actions/checkout@v4
       - name: Setup Python ${{ matrix.python-version }}
-        uses: actions/setup-python@v4
+        uses: actions/setup-python@v5
         with:
           python-version: ${{ matrix.python-version }}
           architecture: 'x64'

README.md

@@ -1,7 +1,7 @@
 [![Code style: black](https://img.shields.io/badge/code%20style-black-000000.svg)](https://github.com/psf/black)
 [![Imports: isort](https://img.shields.io/badge/%20imports-isort-%231674b1?style=flat&labelColor=ef8336)](https://pycqa.github.io/isort/)
-[![codecov](https://codecov.io/gh/mscheltienne/template-python/branch/main/graph/badge.svg?token=KRYRRUXDYY)](https://codecov.io/gh/mscheltienne/template-python)
-[![tests](https://github.com/mscheltienne/template-python/actions/workflows/pytest.yml/badge.svg?branch=main)](https://github.com/mscheltienne/template-python/actions/workflows/pytest.yml)
+[![codecov](https://codecov.io/gh/mscheltienne/mri-qtm-brush/graph/badge.svg?token=NEg1gMT5vJ)](https://codecov.io/gh/mscheltienne/mri-qtm-brush)
+[![tests](https://github.com/fcbg-hnp-meeg/mri-qtm-brush/actions/workflows/pytest.yml/badge.svg?branch=main)](https://github.com/fcbg-hnp-meeg/mri-qtm-brush/actions/workflows/pytest.yml)
 
 # MRI-QTM brush
 

mri_qtm_brush/_transform.py

@@ -51,7 +51,7 @@ def quat_to_rot(quat: NDArray[float]) -> NDArray[float]:
 
 
 def quat_to_affine(quat: NDArray[float]) -> NDArray[float]:
-    """Convert quaternion to 4x4 affine transformaton."""
+    """Convert quaternion to 4x4 affine transformation."""
     assert quat.shape == (6,)
     affine = np.eye(4)
     affine[:3, :3] = quat_to_rot(quat[:3])

mri_qtm_brush/qtm.py

@@ -12,7 +12,7 @@
 
 
 def on_packet_callback(packet):  # noqa: D401
-    """Callback function that is called everytime a data packet arrives from QTM."""
+    """Callback function that is called every time a data packet arrives from QTM."""
     global affine_array
     global markers_old
 

mri_qtm_brush/render.py

@@ -1,12 +1,13 @@
 from __future__ import annotations  # c.f. PEP 563, PEP 649
 
 import multiprocessing as mp
+
 import numpy as np
 import pyvista as pv
 from pyvistaqt import BackgroundPlotter
 
-from .utils.logs import logger
 from .utils._checks import check_type
+from .utils.logs import logger
 
 
 class Render(BackgroundPlotter):
@@ -31,7 +32,7 @@ def __init__(
                 (28.15, 42.21, -31.08),
                 (50.67, -44.29, -28.88),
                 (-92.50, 1.43, 14.89),
-                (-265, 0, 0)
+                (-265, 0, 0),
             ]
         ]
         for point in self._points:

pyproject.toml

@@ -59,7 +59,6 @@ full = [
   'mri_qtm_brush[all]',
 ]
 style = [
-  'bibclean',
   'black',
   'codespell',
   'isort',