pyproject.toml

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

[project]
name = "nanovar"
dynamic = ["version"]
dependencies = [
  "numpy>=1.17.3, <2.0.0",
  "scipy>=1.2.1",
  "biopython>=1.82",
  "pybedtools>=0.8.2",
  "matplotlib>=2.2.3",
  "tensorflow-cpu>=2.0.0, <=2.15.1",
  "natsort>=6.2.0",
  "pysam>=0.15.3",
  "bs4>=0.0.2",
  "pandas>=2.2.3"
]
requires-python = ">= 3.8"
authors = [
  {name = "CY Tham", email = "chengyong.tham@u.nus.edu"},
]
description = "Structural variant caller using low-depth long reads"
readme = "README.md"
classifiers=[
  "Operating System :: POSIX :: Linux",
  "Programming Language :: Python :: 3.8",
  "License :: OSI Approved :: GNU General Public License v3 (GPLv3)",
  "Topic :: Scientific/Engineering :: Bio-Informatics",
]
keywords=["nanovar", "structural variant caller", "sv", "nanopore", "long read", "low coverage", "low depth"]

[tool.setuptools.packages.find]
where = ["src"]

[tool.setuptools]
ext-modules = [
  {name = "nanovar.nv_bam_parser", sources = ["src/nanovar/nv_bam_parser.pyx"]}
]

[tool.setuptools.dynamic]
version = {attr = "nanovar.__version__"}

[project.urls]
Homepage = "https://github.com/cytham/nanovar"
Repository = "https://github.com/cytham/nanovar.git"
Issues = "https://github.com/cytham/nanovar/issues"
Changelog = "https://github.com/cytham/nanovar/blob/main/CHANGELOG.txt"

[project.scripts]
nanovar = "nanovar.nanovar:main"