Split extra dependencies and dependency groups (#1238)

* Split extra dependencies and dependency groups

* Update docs

* Discard changes to CONTRIBUTING.rst

* Use new syntax for dependency groups

* Apply suggestion

.readthedocs.yml

@@ -19,10 +19,8 @@ build:
   os: ubuntu-22.04
   tools:
     python: "3.12"
-
-python:
-  install:
-    - method: pip
-      path: .
-      extra_requirements:
-        - doc
+  jobs:
+    install:
+      - pip install .
+      - pip install dependency-groups
+      - pip-install-dependency-groups doc

pyproject.toml

@@ -52,38 +52,9 @@ dependencies = [
 csv = [
     "pandas",
 ]
-dev = [
-    "bump2version",
-    "coverage",
-    "mypy",
-    "parameterized",
-    "pre-commit-uv",
-    "Pillow",
-    "pytest",
-    "pytest-cov",
-    "pytest-sugar",
-    "tox-uv",
-    "types-Deprecated",
-]
-doc = [
-    "einops",
-    "furo",
-    "matplotlib",
-    "sphinx",
-    "sphinx-autobuild",
-    "sphinx-copybutton",
-    "sphinx-gallery",
-    "sphinxext-opengraph",
-]
 plot = [
     "matplotlib",
 ]
-all = [
-    "torchio[doc]",
-    "torchio[plot]",
-    "torchio[csv]",
-    "torchio[dev]",
-]
 
 [project.scripts]
 tiohd = "torchio.cli.print_info:app"
@@ -97,6 +68,40 @@ Source = "https://github.com/fepegar/torchio"
 Documentation = "http://torchio.rtfd.io"
 "Release notes" = "https://github.com/fepegar/torchio/releases"
 
+[dependency-groups]
+dev = [
+    { include-group = "doc" },
+    { include-group = "maintain" },
+    { include-group = "test" },
+    "ipykernel",
+    "ruff",
+]
+doc = [
+    "einops",
+    "furo",
+    "matplotlib",
+    "sphinx",
+    "sphinx-autobuild",
+    "sphinx-copybutton",
+    "sphinx-gallery",
+    "sphinxext-opengraph",
+]
+maintain = [
+    "bump2version",
+    "pre-commit-uv",
+]
+test = [
+    "coverage",
+    "mypy",
+    "parameterized",
+    "pillow",
+    "pytest",
+    "pytest-cov",
+    "pytest-sugar",
+    "tox-uv",
+    "types-deprecated",
+]
+
 [tool.mypy]
 pretty = true
 
@@ -147,6 +152,5 @@ ignore = [
     "N813",
 ]
 
-
 [tool.ruff.lint.isort]
 force-single-line = true