pyproject.toml

[build-system]
requires = ["setuptools>=61.2"]
build-backend = "setuptools.build_meta"

[project]
name = "ilmn-pelops"
description = "Dedicated caller for DUX4 rearrangements from whole genome sequencing data."
keywords = ["DUX4", "acute lymphoblastic leukaemia", "whole-genome sequencing", "IGH::DUX4 rearrangements"]
license = { text = "PolyForm Strict License 1.0.0" }
classifiers = [
    "Development Status :: 4 - Beta",
    "Intended Audience :: Developers",
    "Intended Audience :: Science/Research",
    "Environment :: Console",
    "Natural Language :: English",
    "Programming Language :: Python :: 3.7",
    "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",
    "Operating System :: MacOS :: MacOS X",
    "Operating System :: POSIX :: Linux",
    "Topic :: Scientific/Engineering :: Bio-Informatics",
]

dynamic = ["readme", "version"]
requires-python = ">=3.7"
dependencies = ["pysam", "importlib-metadata", "typing-extensions"]
authors = [
  { name = "Stefano Berri", email = "sberri@illumina.com" },
  { name = "Pascal Grobecker", email = "pgrobecker@illumina.com" },
  { name = "Kai Jie Chow", email = "kchow@illumina.com" },
  { name = "Martina Mijuskovic", email = "mmijuskovic@illumina.com" },
]
maintainers = [
  { name = "Stefano Berri", email = "sberri@illumina.com" },
  { name = "Kai Jie Chow", email = "kchow@illumina.com" },
]

[project.urls]
Repository = "https://github.com/Illumina/Pelops"

[project.scripts]
pelops = "ilmn.pelops.cli:main"

[tool.setuptools.packages.find]
include = ["ilmn.*"]
namespaces = true

[tool.setuptools.dynamic]
readme = { file = ["README.md"], content-type = "text/markdown" }
version = { file = ["Versionfile"] }

[tool.black]
exclude = '''
    /( .history | .tox | .git | build | .mypy_cache)/
    '''

[tool.isort]
profile = "black"