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|
[build-system]
requires = ["hatchling", "hatch-vcs"]
build-backend = "hatchling.build"
[project]
name = "hdmf"
authors = [
{ name="Ryan Ly", email="rly@lbl.gov" },
{ name="Andrew Tritt", email="ajtritt@lbl.gov" },
{ name="Oliver Ruebel", email="oruebel@lbl.gov" },
{ name="Ben Dichter", email="ben.dichter@gmail.com" },
{ name="Matthew Avaylon", email="mavaylon@lbl.gov" },
]
description = "A hierarchical data modeling framework for modern science data standards"
readme = "README.rst"
requires-python = ">=3.8"
license = {text = "BSD-3-Clause"}
classifiers = [
"Programming Language :: Python",
"Programming Language :: Python :: 3.8",
"Programming Language :: Python :: 3.9",
"Programming Language :: Python :: 3.10",
"Programming Language :: Python :: 3.11",
"Programming Language :: Python :: 3.12",
"License :: OSI Approved :: BSD License",
"Development Status :: 5 - Production/Stable",
"Operating System :: OS Independent",
"Intended Audience :: Developers",
"Intended Audience :: Science/Research",
"Topic :: Scientific/Engineering :: Medical Science Apps.",
]
dependencies = [
"h5py>=2.10",
"jsonschema>=2.6.0",
'numpy>=1.18',
"pandas>=1.0.5",
"ruamel.yaml>=0.16",
"scipy>=1.4",
"importlib-resources; python_version < '3.9'", # TODO: remove when minimum python version is 3.9
]
dynamic = ["version"]
[project.optional-dependencies]
tqdm = ["tqdm>=4.41.0"]
termset = ["linkml-runtime>=1.5.5; python_version >= '3.9'",
"schemasheets>=0.1.23; python_version >= '3.9'",
"oaklib>=0.5.12; python_version >= '3.9'",
"pyyaml>=6.0.1; python_version >= '3.9'"]
[project.urls]
"Homepage" = "https://github.com/hdmf-dev/hdmf"
"Bug Tracker" = "https://github.com/hdmf-dev/hdmf/issues"
[project.scripts]
validate_hdmf_spec = "hdmf.testing.validate_spec:main"
[tool.hatch.version]
source = "vcs"
[tool.hatch.build.hooks.vcs]
# this file is created/updated when the package is installed and used in
# src/hdmf/__init__.py to set `hdmf.__version__`
version-file = "src/hdmf/_version.py"
[tool.hatch.build.targets.sdist]
exclude = [
".git*",
".codecov.yml",
".readthedocs.yaml",
".mailmap",
".pre-commit-config.yaml",
]
[tool.hatch.build.targets.wheel]
packages = ["src/hdmf"]
exclude = [
".git*",
".codecov.yml",
".readthedocs.yaml",
".mailmap",
".pre-commit-config.yaml",
]
# [tool.mypy]
# no_incremental = true # needed b/c mypy and ruamel.yaml do not play nice. https://github.com/python/mypy/issues/12664
# [tool.interrogate]
# fail-under = 95
# verbose = 1
[tool.pytest.ini_options]
norecursedirs = "tests/unit/helpers"
[tool.codespell]
skip = "htmlcov,.git,.mypy_cache,.pytest_cache,.coverage,*.pdf,*.svg,venvs,.tox,hdmf-common-schema,./docs/_build/*,*.ipynb"
ignore-words-list = "datas,assertIn"
[tool.coverage.run]
branch = true
source = ["hdmf"]
[tool.coverage.report]
exclude_lines = [
"pragma: no cover",
"@abstract"
]
omit = [
"*/hdmf/_due.py",
"*/hdmf/testing/*",
]
# [tool.black]
# line-length = 120
# preview = true
# exclude = ".git|.mypy_cache|.tox|.venv|venv|.ipynb_checkpoints|_build/|dist/|__pypackages__|.ipynb"
# force-exclude = "src/hdmf/common/hdmf-common-schema|docs/gallery"
[tool.ruff]
lint.select = ["E", "F", "T100", "T201", "T203"]
exclude = [
".git",
".tox",
"__pycache__",
"build/",
"dist/",
"src/hdmf/common/hdmf-common-schema",
"docs/source/conf.py",
"src/hdmf/_due.py",
"docs/source/tutorials/",
"docs/_build/",
]
line-length = 120
[tool.ruff.lint.per-file-ignores]
"docs/gallery/*" = ["E402", "T201"]
"src/*/__init__.py" = ["F401"]
"setup.py" = ["T201"]
"test_gallery.py" = ["T201"]
[tool.ruff.lint.mccabe]
max-complexity = 17
|
