DEP: make pyproject.toml the one source of truth for test-only dependencies

.github/workflows/ci.yml

@@ -37,13 +37,18 @@ jobs:
 
     steps:
       - uses: actions/checkout@v4
-      - name: Setup Python
-        uses: actions/setup-python@v5
-        with:
-          python-version: ${{ matrix.python-version }}
-      - name: Install Tox and any other packages
-        run: |
-          python -m pip install --upgrade pip
-          python -m pip install tox tox-gh-actions
-      - name: Test
-        run: tox -vvv
+      - name: Install the latest version of uv
+        uses: astral-sh/setup-uv@v3
+      - name: Install tox
+        run: uv tool install --python-preference only-managed --python 3.13 tox --with tox-uv --with tox-gh
+      - name: Install Python
+        if: matrix.python-version != '3.13'
+        run: uv python install --python-preference only-managed ${{ matrix.python-version }}
+      - name: Setup test suite
+        run: tox run -vv --notest --skip-missing-interpreters false
+        env:
+          TOX_GH_MAJOR_MINOR: ${{ matrix.python-version }}
+      - name: Run test suite
+        run: tox run
+        env:
+          TOX_GH_MAJOR_MINOR: ${{ matrix.python-version }}

pyproject.toml

@@ -26,6 +26,7 @@ keywords = [
 requires-python = ">=3.9"
 dependencies = [
     "numpy>=1.19.3, <3.0",
+    "numpy>=1.21.3, <3.0 ; platform_machine=='arm64' and platform_system=='Darwin'",
     "sympy>=1.7",
     "packaging>=20.9",
 ]
@@ -45,6 +46,36 @@ Homepage = "https://github.com/yt-project/unyt"
 Documentation = "https://unyt.readthedocs.io/en/stable/index.html"
 Changelog = "https://unyt.readthedocs.io/en/stable/history.html"
 
+[dependency-groups]
+test = [
+    "pytest-doctestplus>=1.2.1",
+    "pytest>=7.2.1",
+]
+covcheck = [
+    "coverage[toml]>=5.0.0",
+]
+doc = [
+    "docutils>=0.21.2",
+    "sphinx>=7.4.7",
+]
+integration = [
+    "astropy>=4.0.4",
+    "astropy>=5.0.0 ; platform_machine=='arm64' and platform_system=='Darwin'",
+    "dask[array,diagnostics]>=2021.4.1",
+    "dask[array,diagnostics]>=2021.5.1 ; platform_machine=='arm64' and platform_system=='Darwin'",
+    "h5py>=3.0.0",
+    "h5py>=3.7.0 ; platform_machine=='arm64' and platform_system=='Darwin'",
+    "matplotlib>=3.3.3,!=3.5.0",
+    "matplotlib>=3.5.1 ; platform_machine=='arm64' and platform_system=='Darwin'",
+    "pint>=0.9",
+
+    # this is redundant with runtime requirements, but needed for tox + tox-uv with
+    # UV_RESOLUTION=lowest-direct
+    # because tox installs dependency groups *before* installing the package itself
+    "numpy>=1.19.3, <3.0",
+    "numpy>=1.21.3, <3.0 ; platform_machine=='arm64' and platform_system=='Darwin'",
+]
+
 [tool.setuptools]
 include-package-data = true
 zip-safe = false
@@ -119,14 +150,15 @@ write_to = "unyt/_version.py"
 version_scheme = "post-release"
 
 [tool.pytest.ini_options]
-addopts = "--ignore=benchmarks --ignore=paper --ignore=unyt/_mpl_array_converter --color=yes"
+addopts = "-ra --ignore=benchmarks --ignore=paper --ignore=unyt/_mpl_array_converter --color=yes"
 filterwarnings = [
     "error",
     "ignore:Matplotlib is currently using agg, which is a non-GUI backend, so cannot show the figure.:UserWarning",
     "ignore:FigureCanvasAgg is non-interactive, and thus cannot be shown:UserWarning",
     "ignore:distutils Version classes are deprecated. Use packaging.version instead.:DeprecationWarning",
     'ignore:datetime\.datetime\.utcfromtimestamp\(\) is deprecated:DeprecationWarning', # https://github.com/dateutil/dateutil/pull/1285
     'ignore:mpnumeric is deprecated:DeprecationWarning', # sympy 1.12 VS mpmath 1.4, solution: https://github.com/sympy/sympy/pull/25290
+    'ignore:`np.compat`, which was used during the Python 2 to 3 transition, is deprecated since 1.26.0, and will be removed:DeprecationWarning' # from dask 2021.x
 ]
 
 [tool.coverage.run]

tox.ini

@@ -1,108 +1,95 @@
 [tox]
+min_version = 4.22.0 # for pep 735 dependency groups
 envlist = py39-docs,begin,py39-dependencies,py39-versions,py{39,310,311,312},py39-unyt-module-test-function,end
 isolated_build = True
+requires =
+    tox-uv # for oldest dependency testing
 
-[gh-actions]
+[gh]
 python =
-    3.9: py39, py39-docs, py39-dependencies, py39-versions, py39-unyt-module-test-function
-    3.10: py310
-    3.11: py311
-    3.12: py312
+    3.9 = py39, py39-docs, py39-dependencies, py39-versions, py39-unyt-module-test-function
+    3.10 = py310
+    3.11 = py311
+    3.12 = py312
 
 [testenv]
+depends = begin
 package = wheel
 wheel_build_env = .pkg
 setenv =
     PYTHONPATH = {toxinidir}
     MPLBACKEND = agg
 recreate = true
-depends = begin
-deps =
-    pytest
-    h5py
-    !py39: pint
-    !py39: astropy!=6.1.1
-    coverage[toml]>=5.0
-    pytest-cov
-    pytest-doctestplus
-    matplotlib!=3.5.0
-    docutils
-    dask[array,diagnostics]
+dependency_groups =
+    test
+    covcheck
+    doc
+    integration
+uv_resolution =
+    # install the oldest versions of all dependencies
+    versions: lowest-direct
 commands =
-    pytest --cov=unyt --cov-append --doctest-modules --doctest-plus --doctest-rst --basetemp={envtmpdir}
+    coverage run --append -m pytest --doctest-modules --doctest-plus --doctest-rst --basetemp={envtmpdir}
     coverage report --omit='.tox/*'
 
 [testenv:py39]
 # skip doctest on py39 because doctests require numpy>=2.0 and all optional deps,
 # but some of our optional deps (pint, astropy) don't have a version that support
 # both numpy>=2.0 and Python 3.9
 commands=
-    pytest --cov=unyt --cov-append --basetemp={envtmpdir}
+    coverage run --append -m pytest --basetemp={envtmpdir}
     coverage report --omit='.tox/*'
 
 [testenv:py39-versions]
-deps =
-    docutils
-    pytest
-    sympy==1.7
-    numpy==1.19.3
-    h5py==3.0.0
-    pint==0.9
-    astropy==4.0.4
-    matplotlib==3.3.3
-    coverage[toml]
-    pytest-cov
-    pytest-doctestplus
-    dask[array,diagnostics]==2021.04.1
 commands =
+    {list_dependencies_command}
     # don't do doctests on old numpy versions
-    pytest --cov=unyt --cov-append --basetemp={envtmpdir}
+    coverage run --append -m pytest --basetemp={envtmpdir}
     coverage report --omit='.tox/*'
 
 [testenv:py39-dependencies]
-deps =
-    docutils
-    pytest
-    coverage[toml]
-    pytest-cov
-    pytest-doctestplus
 depends = begin
+dependency_groups =
+    doc
+    test
+    covcheck
 commands =
     # don't do doctests in rst files due to lack of way to specify optional
     # test dependencies there
-    pytest --cov=unyt --cov-append --doctest-modules --doctest-plus --basetemp={envtmpdir}
+    coverage run --append -m pytest --doctest-modules --doctest-plus --basetemp={envtmpdir}
     coverage report --omit='.tox/*'
 
 [testenv:py39-docs]
 allowlist_externals = make
 changedir = docs
-deps =
-    pytest
-    sphinx
-    matplotlib!=3.5.0
-    dask[array,diagnostics]
+dependency_groups =
+    test
+    doc
+    integration
 commands =
     make clean
     python -m sphinx -M html "." "_build" -W
 
 [testenv:py39-unyt-module-test-function]
 depends = py39
+dependency_groups =
+    test
 commands =
     python -c 'import unyt; unyt.test()'
 
 [testenv:begin]
-commands =
-    coverage erase
 depends =
 skip_install = true
-deps =
-    coverage[toml]
+dependency_groups =
+    covcheck
+commands =
+    coverage erase
 
 [testenv:end]
+depends = py{39,310,311,312}
+skip_install = true
+dependency_groups =
+    covcheck
 commands =
     coverage report --omit='.tox/*'
     coverage html --omit='.tox/*'
-skip_install = true
-depends = py{39,310,311,312}
-deps =
-    coverage[toml]