Use dependency groups (PEP 735), remove a few extras, add uv-sync CI check

.github/workflows/main.yml

@@ -30,7 +30,7 @@ jobs:
       - name: Install dependencies
         run: |
           python -m pip install --upgrade pip
-          pip install -v --editable .[lint]
+          pip install -v --editable . --group lint
 
       - name: black check
         run: |
@@ -44,6 +44,22 @@ jobs:
         run: |
           cython-lint src/pykrige/
 
+  uv-sync:
+    runs-on: ubuntu-latest
+    steps:
+      - uses: actions/checkout@v7
+        with:
+          persist-credentials: false
+
+      - name: Install uv
+        uses: astral-sh/setup-uv@bec219d24cd3e171d82865faccec33120bb574f4 # v10.1.0
+        with:
+          enable-cache: false
+          version: "0.12.13"  # Released on 2026-09-10
+
+      # Ensure that dependencies and dependency groups are consistent and resolvable.
+      - run: uv sync --all-extras --all-groups --dry-run
+
   build_wheels:
     name: wheels for ${{ matrix.os }}
     runs-on: ${{ matrix.os }}
@@ -101,11 +117,11 @@ jobs:
       - name: Install dependencies
         run: |
           python -m pip install --upgrade pip
-          pip install build
+          pip install --group tests build
 
       - name: Install pykrige
         run: |
-          pip install -v --editable .[test]
+          pip install -v --editable .
 
       - name: Install pinned dependencies
         run: |
@@ -142,11 +158,11 @@ jobs:
       - name: Install dependencies
         run: |
           python -m pip install --upgrade pip
-          pip install "coveralls>=3.0.0"
+          pip install --group dev "coveralls>=3.0.0"
 
       - name: Install pykrige
         run: |
-          pip install -v --editable .[test]
+          pip install -v --editable . --no-build-isolation
 
       - name: Run tests
         env:

.gitignore

@@ -86,6 +86,9 @@ celerybeat-schedule
 # dotenv
 .env
 
+# lock files (pixi, pipenv, uv)
+*.lock
+
 # virtualenv
 .venv
 venv/

.readthedocs.yml

@@ -4,15 +4,12 @@ build:
   os: ubuntu-22.04
   tools:
     python: "3.11"
+  jobs:
+    install:
+    - python -m pip install --upgrade --no-cache-dir pip
+    - python -m pip install --upgrade --upgrade-strategy only-if-needed --no-cache-dir --group docs .
 
 sphinx:
   configuration: docs/source/conf.py
 
 formats: [pdf]
-
-python:
-  install:
-    - method: pip
-      path: .
-      extra_requirements:
-        - doc

pyproject.toml

@@ -1,11 +1,11 @@
 [build-system]
 requires = [
-    "setuptools>=77",
-    "wheel",
+    # keep in sync with [dependency-groups.build]
     "Cython>=3",
     "numpy>=2",
-    "scipy>=1.5.4",
     "pentapy>=1.1.0,<2",
+    "scipy>=1.5.4",
+    "setuptools>=77",
     "setuptools_scm[toml]>=7",
 ]
 build-backend = "setuptools.build_meta"
@@ -54,7 +54,28 @@ dependencies = [
 ]
 
 [project.optional-dependencies]
-doc = [
+plot = ["matplotlib>=3,<4"]
+sklearn = ["scikit-learn>=0.19"]
+
+[project.urls]
+Changelog = "https://github.com/GeoStat-Framework/PyKrige/blob/main/CHANGELOG.md"
+Conda-Forge = "https://anaconda.org/conda-forge/pykrige"
+Documentation = "https://pykrige.readthedocs.io"
+Homepage = "https://github.com/GeoStat-Framework/PyKrige"
+Source = "https://github.com/GeoStat-Framework/PyKrige"
+Tracker = "https://github.com/GeoStat-Framework/PyKrige/issues"
+
+[dependency-groups]
+build = [
+    # keep in sync with [build-system.requires]
+    "Cython>=3",
+    "numpy>=2",
+    "pentapy>=1.1.0,<2",
+    "scipy>=1.5.4",
+    "setuptools>=77",
+    "setuptools_scm[toml]>=7",
+]
+docs = [
     "gstools>=1.4,<2",
     "pillow",
     "scikit-learn>=0.19",
@@ -65,9 +86,7 @@ doc = [
     "sphinx-gallery>=0.8",
     "sphinx-rtd-theme>=2",
 ]
-plot = ["matplotlib>=3,<4"]
-sklearn = ["scikit-learn>=0.19"]
-test = [
+tests = [
     "pytest-cov>=3",
     "scikit-learn>=0.19",
     "gstools>=1.4,<2",
@@ -78,14 +97,12 @@ lint = [
     "isort[colors]",
     "cython-lint",
 ]
-
-[project.urls]
-Changelog = "https://github.com/GeoStat-Framework/PyKrige/blob/main/CHANGELOG.md"
-Conda-Forge = "https://anaconda.org/conda-forge/pykrige"
-Documentation = "https://pykrige.readthedocs.io"
-Homepage = "https://github.com/GeoStat-Framework/PyKrige"
-Source = "https://github.com/GeoStat-Framework/PyKrige"
-Tracker = "https://github.com/GeoStat-Framework/PyKrige/issues"
+dev = [
+    {include-group = "build"},
+    # {include-group = "docs"},
+    {include-group = "tests"},
+    {include-group = "lint"},
+]
 
 [tool.setuptools_scm]
 write_to = "src/pykrige/_version.py"
@@ -156,7 +173,7 @@ build-frontend = "build"
 # Disable building py3.6/7/8, pp3.8, 32bit linux
 skip = ["*-win32", "*_i686", "*-musllinux_*", "cp31?t-*"]
 # Run the package tests using `pytest`
-test-extras = "test"
+test-groups = "tests"
 test-command = "pytest -v {package}/tests"
 
 environment.PIP_ONLY_BINARY = "numpy,scipy"