pyproject.toml

[build-system]
requires = [
  "setuptools>=61.2",
  "importlib_resources>=1.3;python_version < '3.9'",
  # see https://github.com/numpy/numpy/pull/18389
  "wheel>=0.36.2",

  # Cython 3.0 is the next version after 0.29, and a major change,
  # we forbid it until we can properly test against it
  # https://github.com/yt-project/yt/issues/4355
  "Cython>=0.29.33,<3.0",
  "oldest-supported-numpy",
  "ewah-bool-utils>=1.0.2",
]

[project]
name = "yt"
version = "4.3.dev0"
description = "An analysis and visualization toolkit for volumetric data"
authors = [
    { name = "The yt project", email = "yt-dev@python.org" },
]
classifiers = [
    "Development Status :: 5 - Production/Stable",
    "Environment :: Console",
    "Framework :: Matplotlib",
    "Intended Audience :: Science/Research",
    "License :: OSI Approved :: BSD License",
    "Operating System :: MacOS :: MacOS X",
    "Operating System :: POSIX :: AIX",
    "Operating System :: POSIX :: Linux",
    "Programming Language :: C",
    "Programming Language :: Python :: 3",
    "Programming Language :: Python :: 3 :: Only",
    "Programming Language :: Python :: 3.8",
    "Programming Language :: Python :: 3.9",
    "Programming Language :: Python :: 3.10",
    "Programming Language :: Python :: 3.11",
    "Topic :: Scientific/Engineering :: Astronomy",
    "Topic :: Scientific/Engineering :: Physics",
    "Topic :: Scientific/Engineering :: Visualization",
]
keywords = [
    "astronomy astrophysics visualization amr adaptivemeshrefinement",
]
requires-python = ">=3.8"
dependencies = [
    "cmyt>=1.1.2",
    "ewah-bool-utils>=1.0.2",
    "ipywidgets>=8.0.0",
    "matplotlib>=3.5", # keep in sync with tests/windows_conda_requirements.txt
    "more-itertools>=8.4",
    # https://github.com/scipy/oldest-supported-numpy/issues/76#issuecomment-1628865694
    "numpy>=1.17.5,<2.0",
    "packaging>=20.9",
    "pillow>=6.2.1", # transitive dependency via MPL (>=3.3)
    "tomli-w>=0.4.0",
    "tqdm>=3.4.0",
    "unyt>=2.9.2,<3.0", # see https://github.com/yt-project/yt/issues/4162
    "importlib_resources>=1.3;python_version < '3.9'",
    "tomli>=1.2.3;python_version < '3.11'",
    "typing-extensions>=4.1.0;python_version < '3.11'",
]

[project.readme]
file = "README.md"
content-type = "text/markdown"

[project.license]
text = "BSD 3-Clause"

[project.urls]
Homepage = "https://yt-project.org/"
Documentation = "https://yt-project.org/doc/"
Source = "https://github.com/yt-project/yt/"
Tracker = "https://github.com/yt-project/yt/issues"

[project.entry-points."nose.plugins.0.10"]
# this section can be cleaned when nose tests on GHA are removed
answer-testing = "yt.utilities.answer_testing.framework:AnswerTesting"

[project.optional-dependencies]
# some generic, reusable constraints on optional-deps
HDF5 = ["h5py>=3.1.0"]
netCDF4 = ["netCDF4!=1.6.1,>=1.5.3"]  # see https://github.com/Unidata/netcdf4-python/issues/1192
Fortran = ["f90nml>=1.1"]

# frontend-specific requirements
# all frontends should have a target, even if no additional requirements are needed
# note that, because pip normalizes underscores to hyphens, we need to apply this transformation
# in target names here so that recursive dependencies link correctly.
# This does *not* prevent end-users to write, say `pip install yt[enzo_e]`.
# We also normalize all target names to lower case for consistency.
adaptahop = []
ahf = []
amrvac = ["yt[Fortran]"]
art = []
arepo = ["yt[HDF5]"]
artio = []
athena = []
athena-pp = []
boxlib = []
cf-radial = ["xarray>=0.16.1", "arm-pyart!=1.12.5,>=1.11.4"]
chimera = ["yt[HDF5]"]
chombo = ["yt[HDF5]"]
cholla = ["yt[HDF5]"]
eagle = ["yt[HDF5]"]
enzo-e = ["yt[HDF5]", "libconf>=1.0.1"]
enzo = ["yt[HDF5]", "libconf>=1.0.1"]
exodus-ii = ["yt[netCDF4]"]
fits = ["astropy>=4.0.1", "regions>=0.7"]
flash = ["yt[HDF5]"]
gadget = ["yt[HDF5]"]
gadget-fof = ["yt[HDF5]"]
gamer = ["yt[HDF5]"]
gdf = ["yt[HDF5]"]
gizmo = ["yt[HDF5]"]
halo-catalog = ["yt[HDF5]"]
http-stream = ["requests>=2.20.0"]
moab = ["yt[HDF5]"]
nc4-cm1 = ["yt[netCDF4]"]
open-pmd = ["yt[HDF5]"]
owls = ["yt[HDF5]"]
owls-subfind = ["yt[HDF5]"]
ramses = ["yt[Fortran]"]
rockstar = []
sdf = ["requests>=2.20.0"]
stream = []
swift = ["yt[HDF5]"]
tipsy = []
ytdata = ["yt[HDF5]"]

# "full" should contain all optional dependencies intended for users (not devs)
# in particular it should enable support for all frontends
full = [
    "firefly>=3.2.0",
    "glueviz>=0.13.3",
    "ipython>=2.0.0",
    "miniballcpp>=0.2.1",
    "mpi4py>=3.0.3",
    "pandas>=1.1.2",
    "pooch>=0.7.0",
    "pyaml>=17.10.0",
    "pykdtree>=1.3.1",
    "pyx>=0.15",
    "scipy>=1.5.0",
    "glue-core!=1.2.4;python_version >= '3.10'",  # see https://github.com/glue-viz/glue/issues/2263
    "ratarmount~=0.8.1;platform_system!='Windows' and platform_system!='Darwin'",
    "yt[adaptahop]",
    "yt[ahf]",
    "yt[amrvac]",
    "yt[art]",
    "yt[arepo]",
    "yt[artio]",
    "yt[athena]",
    "yt[athena_pp]",
    "yt[boxlib]",
    "yt[cf_radial]",
    "yt[chimera]",
    "yt[chombo]",
    "yt[cholla]",
    "yt[eagle]",
    "yt[enzo_e]",
    "yt[enzo]",
    "yt[exodus_ii]",
    "yt[fits]",
    "yt[flash]",
    "yt[gadget]",
    "yt[gadget_fof]",
    "yt[gamer]",
    "yt[gdf]",
    "yt[gizmo]",
    "yt[halo_catalog]",
    "yt[http_stream]",
    "yt[moab]",
    "yt[nc4_cm1]",
    "yt[open_pmd]",
    "yt[owls]",
    "yt[owls_subfind]",
    "yt[ramses]",
    "yt[rockstar]",
    "yt[sdf]",
    "yt[stream]",
    "yt[swift]",
    "yt[tipsy]",
    "yt[ytdata]",
]

# dev-only extra targets
doc = [
    "alabaster",
    "bottle",
    "jinja2<3.1.0", # see https://github.com/readthedocs/readthedocs.org/issues/9037
    "jupyter-client<7.0",
    "nbconvert==5.6.1",
    "nose==1.3.7",
    "pytest>=6.1",
    "pyx>=0.15",
    "runnotebook",
    "scipy<=1.7.1", # see https://github.com/yt-project/yt/issues/3966 and https://github.com/scipy/scipy/issues/16602
    "sphinx==3.5.4",
    "sphinx-bootstrap-theme",
    "sphinx-rtd-theme",
]
mapserver = [
    "bottle",
]
minimal = [
    "cmyt==1.1.2",
    "ewah-bool-utils==1.0.2",
    "ipywidgets==8.0.0",
    "matplotlib==3.5",
    "more-itertools==8.4",
    "numpy==1.17.5",
    "packaging==20.9",
    "pillow==6.2.1",
    "tomli-w==0.4.0",
    "tqdm==3.4.0",
    "unyt==2.9.2",
    "importlib_resources==1.3;python_version < '3.9'",
    "tomli==1.2.3;python_version < '3.11'",
    "typing-extensions==4.1.0;python_version < '3.11'",
]
test = [
    "pyaml>=17.10.0",
    "pytest>=6.1",
    "pytest-mpl>=0.16.1",
    "sympy!=1.10,!=1.9", # see https://github.com/sympy/sympy/issues/22241
    "nose~=1.3.7; python_version < '3.10'",
    "nose-exclude; python_version < '3.10'",
    "nose-timer~=1.0.0; python_version < '3.10'",
]
typecheck = [
    "mypy==1.0.0",
    "types-PyYAML==6.0.12.2",
    "types-chardet==5.0.4",
    "types-requests==2.28.11.5",
    "importlib_resources==1.3;python_version < '3.9'",
    "typing-extensions==4.1.0;python_version < '3.11'",
]

[project.scripts]
yt = "yt.utilities.command_line:run_main"

[tool.setuptools]
include-package-data = true
zip-safe = false

[tool.setuptools.packages.find]
namespaces = false


[tool.black]
line-length = 88
target-version = ['py38']
include = '\.pyi?$'
exclude = '''
/(
    \.eggs
  | \.git
  | \.hg
  | \.mypy_cache
  | \.tox
  | \.venv
  | _build
  | buck-out
  | build
  | dist
  | yt/frontends/stream/sample_data
)/
| yt/visualization/_colormap_data.py
'''

[tool.ruff]
exclude = [
    "doc",
    "benchmarks",
    "*/api.py",
    "*/__init__.py",
    "*/__config__.py",
    "yt/units",
    "yt/frontends/stream/sample_data",
    "yt/utilities/fits_image.py",
    "yt/utilities/lodgeit.py",
    "yt/mods.py",
    "yt/visualization/_colormap_data.py",
]
select = [
    "E",
    "F",
    "W",
    "C4",   # flake8-comprehensions
    "B",    # flake8-bugbear
    "G",    # flake8-logging-format
    "YTT",  # flake8-2020
    "UP",   # pyupgrade
    "I",    # isort
]
ignore = [
    "E501",  # line too long
    "E741",  # Do not use variables named 'I', 'O', or 'l'
    "B018",  # Found useless expression. # disabled because ds.index is idiomatic
]


[tool.ruff.isort]
combine-as-imports = true
known-third-party = [
  "IPython",
  "nose",
  "numpy",
  "sympy",
  "matplotlib",
  "unyt",
  "git",
  "yaml",
  "dateutil",
  "requests",
  "coverage",
  "pytest",
  "pyx",
  "glue",
]
known-first-party = ["yt"]

# The -s option prevents pytest from capturing output sent to stdout
# -v runs pytest in verbose mode
# -rsfE: The -r tells pytest to provide extra test summary info on the events
# specified by the characters following the r. s: skipped, f: failed, E: error
[tool.pytest.ini_options]
addopts = '''
    -s
    -v
    -rsfE
    --ignore-glob='*_nose.py'
    --ignore='yt/data_objects/level_sets/tests/test_clump_finding.py'
    --ignore='yt/data_objects/tests/test_connected_sets.py'
    --ignore='yt/data_objects/tests/test_data_containers.py'
    --ignore='yt/data_objects/tests/test_dataset_access.py'
    --ignore='yt/data_objects/tests/test_disks.py'
    --ignore='yt/data_objects/tests/test_particle_filter.py'
    --ignore='yt/data_objects/tests/test_particle_trajectories.py'
    --ignore='yt/data_objects/tests/test_pickling.py'
    --ignore='yt/data_objects/tests/test_regions.py'
    --ignore='yt/fields/tests/test_particle_fields.py'
    --ignore='yt/fields/tests/test_vector_fields.py'
    --ignore='yt/fields/tests/test_xray_fields.py'
    --ignore='yt/frontends/adaptahop/tests/test_outputs.py'
    --ignore='yt/frontends/ahf/tests/test_outputs.py'
    --ignore='yt/frontends/amrvac/tests/test_outputs.py'
    --ignore='yt/frontends/amrvac/tests/test_units_override.py'
    --ignore='yt/frontends/arepo/tests/test_outputs.py'
    --ignore='yt/frontends/art/tests/test_outputs.py'
    --ignore='yt/frontends/artio/tests/test_outputs.py'
    --ignore='yt/frontends/athena/tests/test_outputs.py'
    --ignore='yt/frontends/athena_pp/tests/test_outputs.py'
    --ignore='yt/frontends/boxlib/tests/test_outputs.py'
    --ignore='yt/frontends/cf_radial/tests/test_outputs.py'
    --ignore='yt/frontends/chimera/tests/test_outputs.py'
    --ignore='yt/frontends/cholla/tests/test_outputs.py'
    --ignore='yt/frontends/chombo/tests/test_outputs.py'
    --ignore='yt/frontends/eagle/tests/test_outputs.py'
    --ignore='yt/frontends/enzo/tests/test_outputs.py'
    --ignore='yt/frontends/enzo_e/tests/test_outputs.py'
    --ignore='yt/frontends/exodus_ii/tests/test_outputs.py'
    --ignore='yt/frontends/fits/tests/test_outputs.py'
    --ignore='yt/frontends/flash/tests/test_outputs.py'
    --ignore='yt/frontends/gadget/tests/test_outputs.py'
    --ignore='yt/frontends/gadget_fof/tests/test_outputs.py'
    --ignore='yt/frontends/gamer/tests/test_outputs.py'
    --ignore='yt/frontends/gdf/tests/test_outputs.py'
    --ignore='yt/frontends/gdf/tests/test_outputs_nose.py'
    --ignore='yt/frontends/gizmo/tests/test_outputs.py'
    --ignore='yt/frontends/halo_catalog/tests/test_outputs.py'
    --ignore='yt/frontends/moab/tests/test_c5.py'
    --ignore='yt/frontends/nc4_cm1/tests/test_outputs.py'
    --ignore='yt/frontends/open_pmd/tests/test_outputs.py'
    --ignore='yt/frontends/owls/tests/test_outputs.py'
    --ignore='yt/frontends/owls_subfind/tests/test_outputs.py'
    --ignore='yt/frontends/ramses/tests/test_outputs.py'
    --ignore='yt/frontends/rockstar/tests/test_outputs.py'
    --ignore='yt/frontends/tipsy/tests/test_outputs.py'
    --ignore='yt/frontends/ytdata/tests/test_old_outputs.py'
    --ignore='yt/frontends/ytdata/tests/test_outputs.py'
    --ignore='yt/frontends/ytdata/tests/test_unit.py'
    --ignore='yt/geometry/coordinates/tests/test_axial_pixelization.py'
    --ignore='yt/geometry/coordinates/tests/test_cylindrical_coordinates.py'
    --ignore='yt/geometry/coordinates/tests/test_spherical_coordinates.py'
    --ignore='yt/tests/test_funcs.py'
    --ignore='yt/utilities/lib/cykdtree/tests/__init__.py'
    --ignore='yt/utilities/lib/cykdtree/tests/test_kdtree.py'
    --ignore='yt/utilities/lib/cykdtree/tests/test_plot.py'
    --ignore='yt/utilities/lib/cykdtree/tests/test_utils.py'
    --ignore='yt/utilities/tests/test_cosmology.py'
    --ignore='yt/visualization/tests/test_callbacks.py'
    --ignore='yt/visualization/tests/test_color_maps.py'
    --ignore='yt/visualization/tests/test_geo_projections.py'
    --ignore='yt/visualization/tests/test_image_writer.py'
    --ignore='yt/visualization/tests/test_line_plots.py'
    --ignore='yt/visualization/tests/test_mesh_slices.py'
    --ignore='yt/visualization/tests/test_norm_api_custom_norm.py'
    --ignore='yt/visualization/tests/test_norm_api_inf_zlim.py'
    --ignore='yt/visualization/tests/test_norm_api_lineplot.py'
    --ignore='yt/visualization/tests/test_norm_api_particleplot.py'
    --ignore='yt/visualization/tests/test_norm_api_phaseplot_set_colorbar_explicit.py'
    --ignore='yt/visualization/tests/test_norm_api_phaseplot_set_colorbar_implicit.py'
    --ignore='yt/visualization/tests/test_norm_api_profileplot.py'
    --ignore='yt/visualization/tests/test_norm_api_set_background_color.py'
    --ignore='yt/visualization/tests/test_particle_plot.py'
    --ignore='yt/visualization/tests/test_plot_modifications.py'
    --ignore='yt/visualization/tests/test_plotwindow.py'
    --ignore='yt/visualization/tests/test_profile_plots.py'
    --ignore='yt/visualization/tests/test_raw_field_slices.py'
    --ignore='yt/visualization/volume_rendering/tests/test_mesh_render.py'
    --ignore='yt/visualization/volume_rendering/tests/test_vr_orientation.py'

'''


[tool.check-manifest]
# ignore generated C/C++ files, otherwise reported as "missing from VCS" (Version Control System)
# Please resist the temptation to use patterns instead of exact file names here.
ignore = [
  "yt/frontends/artio/_artio_caller.c",
  "yt/frontends/gamer/cfields.c",
  "yt/frontends/ramses/io_utils.c",
  "yt/geometry/fake_octree.c",
  "yt/geometry/grid_container.c",
  "yt/geometry/grid_visitors.c",
  "yt/geometry/oct_container.c",
  "yt/geometry/oct_visitors.c",
  "yt/geometry/particle_deposit.c",
  "yt/geometry/particle_oct_container.cpp",
  "yt/geometry/particle_smooth.c",
  "yt/geometry/selection_routines.c",
  "yt/utilities/cython_fortran_utils.c",
  "yt/utilities/lib/_octree_raytracing.cpp",
  "yt/utilities/lib/allocation_container.c",
  "yt/utilities/lib/alt_ray_tracers.c",
  "yt/utilities/lib/amr_kdtools.c",
  "yt/utilities/lib/autogenerated_element_samplers.c",
  "yt/utilities/lib/basic_octree.c",
  "yt/utilities/lib/bitarray.c",
  "yt/utilities/lib/bounded_priority_queue.c",
  "yt/utilities/lib/bounding_volume_hierarchy.cpp",
  "yt/utilities/lib/contour_finding.c",
  "yt/utilities/lib/cosmology_time.c",
  "yt/utilities/lib/cykdtree/kdtree.cpp",
  "yt/utilities/lib/cykdtree/utils.cpp",
  "yt/utilities/lib/cyoctree.c",
  "yt/utilities/lib/cyoctree.cpp",
  "yt/utilities/lib/depth_first_octree.c",
  "yt/utilities/lib/distance_queue.c",
  "yt/utilities/lib/element_mappings.c",
  "yt/utilities/lib/ewah_bool_wrap.cpp",
  "yt/utilities/lib/fnv_hash.c",
  "yt/utilities/lib/fortran_reader.c",
  "yt/utilities/lib/geometry_utils.cpp",
  "yt/utilities/lib/grid_traversal.cpp",
  "yt/utilities/lib/image_samplers.cpp",
  "yt/utilities/lib/image_utilities.c",
  "yt/utilities/lib/interpolators.c",
  "yt/utilities/lib/lenses.c",
  "yt/utilities/lib/line_integral_convolution.c",
  "yt/utilities/lib/marching_cubes.cpp",
  "yt/utilities/lib/mesh_triangulation.c",
  "yt/utilities/lib/mesh_utilities.c",
  "yt/utilities/lib/misc_utilities.cpp",
  "yt/utilities/lib/origami.c",
  "yt/utilities/lib/particle_kdtree_tools.cpp",
  "yt/utilities/lib/particle_mesh_operations.c",
  "yt/utilities/lib/partitioned_grid.cpp",
  "yt/utilities/lib/pixelization_routines.cpp",
  "yt/utilities/lib/points_in_volume.c",
  "yt/utilities/lib/primitives.c",
  "yt/utilities/lib/quad_tree.c",
  "yt/utilities/lib/ragged_arrays.c",
  "yt/utilities/lib/write_array.c",
]


[tool.mypy]
python_version = 3.8
show_error_codes = true
ignore_missing_imports = true
warn_unused_configs = true
warn_unused_ignores = true
warn_unreachable = true
show_error_context = true
exclude = "(test_*|lodgeit)"