223 lines
7.8 KiB
TOML
223 lines
7.8 KiB
TOML
[build-system]
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requires = ["hatchling>=1.25"]
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build-backend = "hatchling.build"
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[project]
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name = "neuropose"
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version = "0.1.0.dev0"
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description = "3D human pose estimation pipeline for clinical movement research, built on MeTRAbs."
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readme = "PYPI_README.md"
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license = { file = "LICENSE" }
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requires-python = ">=3.11,<3.12"
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authors = [
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{ name = "Liqi Shu", email = "liqi_shu@brown.edu" },
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{ name = "Levi Neuwirth", email = "ln@levineuwirth.org" },
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{ name = "David Man", email = "david_man@brown.edu" },
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{ name = "Praneeth Tummala", email = "praneeth_tummala@brown.edu" },
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]
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maintainers = [
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{ name = "Levi Neuwirth", email = "ln@levineuwirth.org" },
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]
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keywords = [
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"pose-estimation",
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"biomechanics",
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"motion-capture",
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"clinical-research",
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"metrabs",
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]
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classifiers = [
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"Development Status :: 2 - Pre-Alpha",
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"Intended Audience :: Science/Research",
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"License :: OSI Approved :: MIT License",
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"Operating System :: POSIX",
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"Operating System :: POSIX :: Linux",
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"Operating System :: MacOS",
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"Programming Language :: Python :: 3",
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"Programming Language :: Python :: 3.11",
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"Topic :: Scientific/Engineering :: Image Recognition",
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"Topic :: Scientific/Engineering :: Medical Science Apps.",
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"Typing :: Typed",
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]
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# Runtime dependencies. The TensorFlow floor is set to 2.16 because that is
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# the first release with native ``darwin/arm64`` wheels published under the
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# ``tensorflow`` package name on PyPI. Older versions would force a marker
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# split to ``tensorflow-macos`` on Apple Silicon. The MeTRAbs SavedModel was
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# serialized with TF 2.10 and uses only stock ops (no custom kernels), so
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# any TF >= 2.10 loads it; 2.16 is chosen for cross-platform install
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# uniformity, not for any MeTRAbs-side requirement.
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#
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# The ``<2.19`` ceiling is a tensorflow-metal compatibility constraint, not
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# a MeTRAbs one. Apple's ``tensorflow-metal`` 1.2.0 (the latest release,
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# Jan 2025) advertises "TF 2.18+" support, but community reports on the
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# Apple Developer forums and tensorflow/tensorflow#84167 show it actually
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# breaks on 2.19+ with symbol-not-found errors and ``InvalidArgumentError``
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# at graph execution time. 2.18.x is the last version confirmed to work
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# cleanly on Apple Silicon GPU. Cap applied globally rather than with a
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# darwin/arm64 marker split to keep dependency resolution identical across
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# platforms; revisit once Apple ships a Metal plugin that tracks mainline
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# TensorFlow again.
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dependencies = [
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"typer>=0.12",
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"pydantic>=2.6",
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"pydantic-settings>=2.2",
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"pyyaml>=6.0",
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"numpy>=1.26",
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"opencv-python-headless>=4.9",
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"matplotlib>=3.8",
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# psutil powers the peak-RSS and process-memory readings captured by
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# PerformanceMetrics in neuropose.io. It is a cross-platform pure-Python
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# wrapper around /proc (Linux), mach (macOS), and Win32 APIs with a
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# small C extension; brought in at runtime because metrics are always
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# collected, not an optional feature.
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"psutil>=5.9",
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"tensorflow>=2.16,<2.19",
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"tensorflow-hub>=0.16",
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]
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[project.optional-dependencies]
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analysis = [
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"fastdtw>=0.3.4",
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"scipy>=1.12",
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"scikit-learn>=1.4",
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"sktime>=0.28",
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]
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# Optional Apple Silicon GPU acceleration via Metal Performance Shaders.
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# This is a PluggableDevice maintained by Apple, NOT by the TensorFlow team,
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# with its own version-compatibility table (see
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# https://developer.apple.com/metal/tensorflow-plugin/) and a documented
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# history of producing numerically-divergent results on some ops under
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# Keras 3. It is deliberately opt-in. Install with
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# `pip install 'neuropose[metal]'` or `uv sync --extra metal`. The platform
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# markers ensure it is silently ignored on every non-Apple-Silicon install.
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metal = [
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"tensorflow-metal>=1.2,<2; sys_platform == 'darwin' and platform_machine == 'arm64'",
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]
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[project.urls]
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Homepage = "https://git.levineuwirth.org/neuwirth/neuropose"
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Repository = "https://git.levineuwirth.org/neuwirth/neuropose"
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Issues = "https://git.levineuwirth.org/neuwirth/neuropose/issues"
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Changelog = "https://git.levineuwirth.org/neuwirth/neuropose/src/branch/main/CHANGELOG.md"
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[project.scripts]
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neuropose = "neuropose.cli:run"
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# ---------------------------------------------------------------------------
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# Dependency groups (PEP 735). Install a group with `uv sync --group dev` or
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# `uv pip install --group dev`. These are not shipped with the wheel.
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# ---------------------------------------------------------------------------
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[dependency-groups]
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dev = [
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"pytest>=8.0",
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"pytest-cov>=5.0",
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"ruff>=0.8",
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"pyright>=1.1.390",
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"pre-commit>=4.0",
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"mkdocs-material>=9.5",
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"mkdocstrings[python]>=0.26",
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# Analyzer subpackage runtime deps. Duplicated from the `analysis`
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# optional-dependencies extra so dev contributors can run the analyzer
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# tests without also having to install the extra. sktime is NOT
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# included here because we do not (yet) wrap it — users who want
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# classification install `pip install neuropose[analysis]` themselves.
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"fastdtw>=0.3.4",
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"scipy>=1.12",
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]
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# ---------------------------------------------------------------------------
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# Ruff (linter + formatter). See https://docs.astral.sh/ruff/rules/ for the
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# meaning of each rule code. The selection is deliberately broader than the
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# Python community default — we want lint noise early rather than cruft late.
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# ---------------------------------------------------------------------------
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[tool.ruff]
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line-length = 100
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target-version = "py311"
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src = ["src", "tests"]
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extend-exclude = ["notebooks"]
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[tool.ruff.lint]
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select = [
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"E", "W", # pycodestyle
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"F", # pyflakes
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"I", # isort
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"B", # flake8-bugbear
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"UP", # pyupgrade
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"SIM", # flake8-simplify
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"RUF", # ruff-specific
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"N", # pep8-naming
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"C4", # flake8-comprehensions
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"PTH", # flake8-use-pathlib
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"PT", # flake8-pytest-style
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"TID", # flake8-tidy-imports
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"NPY", # numpy-specific
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"D", # pydocstyle
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]
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ignore = [
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"D100", # missing module docstring — too strict for internal modules
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"D104", # missing package docstring — too strict for __init__.py
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"D203", # conflicts with D211
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"D213", # conflicts with D212
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]
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[tool.ruff.lint.per-file-ignores]
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"tests/**" = ["D", "PLR2004"]
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"scripts/**" = ["D"]
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"src/neuropose/_*.py" = ["D"]
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[tool.ruff.lint.pydocstyle]
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convention = "numpy"
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[tool.ruff.lint.isort]
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known-first-party = ["neuropose"]
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[tool.ruff.format]
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docstring-code-format = true
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# ---------------------------------------------------------------------------
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# Pytest.
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# ---------------------------------------------------------------------------
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[tool.pytest.ini_options]
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testpaths = ["tests"]
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pythonpath = ["src"]
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addopts = ["--strict-markers", "--strict-config", "-ra"]
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markers = [
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"slow: tests that require model download or are otherwise slow (deselect with '-m \"not slow\"')",
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]
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# ---------------------------------------------------------------------------
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# Pyright. "standard" rather than "strict" because the TensorFlow / OpenCV /
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# scikit-learn stubs would generate thousands of unknown-type warnings under
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# strict mode. We tighten toward strict after the MeTRAbs stack is pinned.
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# ---------------------------------------------------------------------------
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[tool.pyright]
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include = ["src", "tests"]
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exclude = [
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"**/__pycache__",
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"**/.venv",
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"notebooks",
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]
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pythonVersion = "3.11"
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typeCheckingMode = "standard"
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reportMissingTypeStubs = "none"
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reportUnknownMemberType = "none"
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reportUnknownArgumentType = "none"
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reportUnknownVariableType = "none"
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reportUnknownParameterType = "none"
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# ---------------------------------------------------------------------------
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# Hatch build configuration.
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# ---------------------------------------------------------------------------
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[tool.hatch.build.targets.wheel]
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packages = ["src/neuropose"]
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[tool.hatch.build.targets.sdist]
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include = [
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"src/neuropose",
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"README.md",
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"LICENSE",
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"CHANGELOG.md",
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"AUTHORS.md",
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"CITATION.cff",
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]
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