Merge pull request #21 from ComputationalPhysiology/pre-commit-ci-upd…

…ate-config

[pre-commit.ci] pre-commit autoupdate

.pre-commit-config.yaml

@@ -1,45 +1,37 @@
 repos:
   - repo: https://github.com/pre-commit/pre-commit-hooks
-    rev: v4.4.0
+    rev: v4.6.0
     hooks:
-      - id: check-yaml
-      - id: end-of-file-fixer
       - id: trailing-whitespace
+      - id: end-of-file-fixer
+      - id: check-yaml
+      - id: check-added-large-files
       - id: check-docstring-first
       - id: debug-statements
-      - id: requirements-txt-fixer
-
-  - repo: https://github.com/asottile/reorder_python_imports
-    rev: v3.9.0
-    hooks:
-      - id: reorder-python-imports
+      - id: check-toml
 
-  - repo: https://github.com/psf/black
-    rev: 23.1.0
-    hooks:
-      - id: black
-
-  - repo: https://github.com/pycqa/flake8
-    rev: 6.0.0
-    hooks:
-      - id: flake8
+  - repo: https://github.com/astral-sh/ruff-pre-commit
+    # Ruff version.
+    rev: 'v0.5.0'
+    hooks:
+       # Run the linter.
+      - id: ruff
+        args: [ --fix ]
+      # Run the formatter.
+      - id: ruff-format
 
   - repo: https://github.com/asottile/add-trailing-comma
-    rev: v2.4.0
+    rev: v3.1.0
     hooks:
       - id: add-trailing-comma
 
-  - repo: https://github.com/asottile/setup-cfg-fmt
-    rev: v2.2.0
-    hooks:
-      - id: setup-cfg-fmt
 
   - repo: https://github.com/pre-commit/mirrors-mypy
-    rev: v1.1.1
+    rev: v1.10.1
     hooks:
       - id: mypy
 
   - repo: https://github.com/kynan/nbstripout
-    rev: 0.6.1
+    rev: 0.7.1
     hooks:
       - id: nbstripout

benchmark/dimetrodon.py

@@ -7,6 +7,7 @@
 https://github.com/opencv/opencv_contrib/blob/master/modules/optflow/samples/optical_flow_benchmark.py
 
 """
+
 from pathlib import Path
 
 import cv2

docs/features.ipynb

@@ -2,7 +2,7 @@
  "cells": [
   {
    "cell_type": "markdown",
-   "id": "39d1412a",
+   "id": "0",
    "metadata": {},
    "source": [
     "# Features\n",
@@ -15,7 +15,7 @@
   {
    "cell_type": "code",
    "execution_count": null,
-   "id": "1a4c5dfe",
+   "id": "1",
    "metadata": {},
    "outputs": [],
    "source": [
@@ -34,7 +34,7 @@
   {
    "cell_type": "code",
    "execution_count": null,
-   "id": "5cee0000",
+   "id": "2",
    "metadata": {},
    "outputs": [],
    "source": [
@@ -46,7 +46,7 @@
   {
    "cell_type": "code",
    "execution_count": null,
-   "id": "b7818ccd",
+   "id": "3",
    "metadata": {},
    "outputs": [],
    "source": [
@@ -55,7 +55,7 @@
   },
   {
    "cell_type": "markdown",
-   "id": "4899de0e",
+   "id": "4",
    "metadata": {},
    "source": [
     "And let us compute a velocity and displacement trace. First we create an optical flow object"
@@ -64,7 +64,7 @@
   {
    "cell_type": "code",
    "execution_count": null,
-   "id": "ff496192",
+   "id": "5",
    "metadata": {},
    "outputs": [],
    "source": [
@@ -73,7 +73,7 @@
   },
   {
    "cell_type": "markdown",
-   "id": "7ddfb88f",
+   "id": "6",
    "metadata": {},
    "source": [
     "Then we compute the velocity"
@@ -82,7 +82,7 @@
   {
    "cell_type": "code",
    "execution_count": null,
-   "id": "db9941d8",
+   "id": "7",
    "metadata": {},
    "outputs": [],
    "source": [
@@ -93,7 +93,7 @@
   },
   {
    "cell_type": "markdown",
-   "id": "4c4c7acc",
+   "id": "8",
    "metadata": {},
    "source": [
     "and the mean velocity norm"
@@ -102,7 +102,7 @@
   {
    "cell_type": "code",
    "execution_count": null,
-   "id": "67727c49",
+   "id": "9",
    "metadata": {},
    "outputs": [],
    "source": [
@@ -111,7 +111,7 @@
   },
   {
    "cell_type": "markdown",
-   "id": "7b839ba1",
+   "id": "10",
    "metadata": {},
    "source": [
     "And now we estimate the reference frame"
@@ -120,7 +120,7 @@
   {
    "cell_type": "code",
    "execution_count": null,
-   "id": "48a05765",
+   "id": "11",
    "metadata": {},
    "outputs": [],
    "source": [
@@ -135,7 +135,7 @@
   },
   {
    "cell_type": "markdown",
-   "id": "14d0cf14",
+   "id": "12",
    "metadata": {},
    "source": [
     "And finally compute the displacement"
@@ -144,7 +144,7 @@
   {
    "cell_type": "code",
    "execution_count": null,
-   "id": "e1f18bdc",
+   "id": "13",
    "metadata": {},
    "outputs": [],
    "source": [
@@ -153,7 +153,7 @@
   },
   {
    "cell_type": "markdown",
-   "id": "c4bfd6cb",
+   "id": "14",
    "metadata": {},
    "source": [
     "and compute the mean displacement norm"
@@ -162,7 +162,7 @@
   {
    "cell_type": "code",
    "execution_count": null,
-   "id": "929dac85",
+   "id": "15",
    "metadata": {},
    "outputs": [],
    "source": [
@@ -171,7 +171,7 @@
   },
   {
    "cell_type": "markdown",
-   "id": "5d13cee6",
+   "id": "16",
    "metadata": {},
    "source": [
     "Let us now plot the two traces"
@@ -180,7 +180,7 @@
   {
    "cell_type": "code",
    "execution_count": null,
-   "id": "dc5993d5",
+   "id": "17",
    "metadata": {},
    "outputs": [],
    "source": [
@@ -192,7 +192,7 @@
   },
   {
    "cell_type": "markdown",
-   "id": "3497b3ac",
+   "id": "18",
    "metadata": {},
    "source": [
     "Let us extract the first beat and plot the different features"
@@ -201,7 +201,7 @@
   {
    "cell_type": "code",
    "execution_count": null,
-   "id": "8e6ecca1",
+   "id": "19",
    "metadata": {
     "tags": [
      "hide-input"
@@ -401,7 +401,7 @@
   {
    "cell_type": "code",
    "execution_count": null,
-   "id": "8ab7710a",
+   "id": "20",
    "metadata": {},
    "outputs": [],
    "source": [

docs/gui.ipynb

@@ -3,7 +3,7 @@
   {
    "attachments": {},
    "cell_type": "markdown",
-   "id": "41a80a2a",
+   "id": "0",
    "metadata": {},
    "source": [
     "(gui)=\n",
@@ -27,7 +27,7 @@
   {
    "cell_type": "code",
    "execution_count": null,
-   "id": "d60b3d08",
+   "id": "1",
    "metadata": {
     "tags": [
      "hide-input"