chrov/pyproject.toml at main · rraadd88/chrov · GitHub

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[project]
name = "chrov"
description = "Chromosome Visualization library in Python."
authors = [
  { name = "rraadd88", email = "rohanadandage@gmail.com" }
]
urls = { "Homepage" = "http://github.com/rraadd88/chrov" }
version = "0.0.4"
requires-python = ">=3.10"
classifiers = [
  "Programming Language :: Python",
  "Programming Language :: Python :: 3",
  "Programming Language :: Python :: 3.10",
  "Programming Language :: Python :: 3.11",
  "Programming Language :: Python :: 3.12"
]
license = "GPL-3.0-or-later"
readme = "README.md"
dependencies = [
    "argh>=0.31.3",
    "bioservices>=1.12.1",
    "fastcore==1.7.10",
    # "ipykernel>=6.29.5",
    # "jupyter>=1.1.1",
    # "mudata>=0.3.1",
    # "networkx>=3.4.2",
    # "numpy<2",
    # "omegaconf>=2.3.0",
    # "papermill>=2.6.0",
    # "pingouin==0.5.5",
    # "pyarrow>=19.0.1",
    # "roux",
    # "sluf>=0.1.0",
    # "statsmodels==0.14.2",
    "matplotlib>=3.10.1",
    "nbdev==2.3.31",
    "numpy<2",
    "pandas>=2",
    "pybiomart==0.2.0",
    "pyensembl",
    "pyranges>=0.1.4",
    "roux",
    "scipy>=1.15.2",
    "seaborn>=0.13.2",
    "setuptools>=77.0.3",
]

[dependency-groups]
dev = [
    "tox",
    "tox-gh-actions",
    "pytest",
    "jupyter",
    "ipywidgets",
    "ipykernel",
    "black",
    "coveralls == 3.*",
    "flake8",
    "isort",
    "pytest-cov == 2.*",
    "testbook",
    "papermill",
    # "regex",
    # lazydocs",
]
lint = [
  "ruff"
]

[tool.uv.sources]
roux = { git = "https://github.com/rraadd88/roux.git", rev = "master" }
pyensembl = { git = "https://github.com/rraadd88/pyensembl.git", rev = "patch-2" }

[project.scripts]
chrov = "chrov.run:parser.dispatch"

[tool.black]
experimental-string-processing = true
line-length = 120
skip-string-normalization = true

[tool.isort]
profile = "black"

[tool.setuptools]
package-dir = { "chrov" = "modules" }
packages = ["chrov"]

[tool.setuptools.package-data]
chrov = [
    "modules/*.py",
    # "notebooks*/*.ipynb"
]