pyproject.toml

[build-system]
requires = ["setuptools>=61.0"]
build-backend = "setuptools.build_meta"

[project]
name = "barcodebert"
authors = [
  { name="Example Author", email="author@example.com" },
]
description = "repository for training and evaluating BarcodeBERT"
readme = "README.md"
requires-python = ">=3.11"
dependencies = [
    "accelerate>=0.23.0",
    "boto3>=1.28.51",
    "botocore>=1.31.51",
    "cmake>=3.27.5",
    "einops>=0.6.1",
    "matplotlib",
    "numpy>=1.25.0",
    "omegaconf>=2.3.0",
    "opt-einsum>=3.3.0",
    "pandas>=2.1.1",
    "peft>=0.5.0",
    "scikit-learn>=1.3.0",
    "scipy>=1.11.2",
    "seaborn",
    "torch>=2.0.1",
    "torchtext>=0.15.2",
    "torchvision>=0.15.2",
    "transformers>=4.29.2",
    "umap-learn>=0.5.3",
    "wandb",
]
dynamic = ["version"]
classifiers = [
    "Programming Language :: Python :: 3",
    "License :: OSI Approved :: MIT License",
    "Operating System :: OS Independent",
]

[project.optional-dependencies]
dev = ["black==25.1.0", "pre-commit>=3.2.0"]

[project.urls]
Homepage = "https://github.com/Kari-Genomics-Lab/BarcodeBERT"
Issues = "https://github.com/Kari-Genomics-Lab/BarcodeBERT/issues"

[tool.black]
line-length = 120
target-version = ['py311']

[tool.setuptools]
packages = ["barcodebert"]

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