pyproject.toml

[project]
authors = [
  { name = "Robbin Bouwmeester", email = "robbin.bouwmeester@ugent.be" },
  { name = "Henry Webel", email = "henry.webel@sund.ku.dk" },
] # TODO: Add others
description = "ProteoBench compares the outputs of mass spectrometry-based proteomics data analysis pipelines"
classifiers = [
  "Intended Audience :: Science/Research",
  "License :: OSI Approved :: Apache Software License",
  "Operating System :: OS Independent",
  "Programming Language :: Python :: 3",
  "Topic :: Scientific/Engineering :: Bio-Informatics",
  "Development Status :: 4 - Beta",
]

keywords = ['proteomics', 'peptides', 'retention time', 'mass spectrometry']
requires-python = ">=3.8"
dynamic = ["version"]
dependencies = [
  "pandas",
  "openpyxl",
  "numpy",
  "plotly",
  "streamlit>=1.31",
  "streamlit_extras",
  "streamlit-plotly-events",
  "matplotlib",
  "importlib-metadata; python_version < '3.8'", # ? can be removed?
  "toml",
  "PyGithub",
  "GitPython",
  "st-pages<1.0",
]
license = { file = "LICENSE" }
name = "proteobench"
readme = "README.md"

[project.optional-dependencies]
dev = ["black~=23.0", "jupyterlab", "notebook", "tqdm", "wget", "nox", "pytest"]
docs = [
  "sphinx",
  "sphinx-design",
  "sphinx-rtd-theme",
  "sphinx-autobuild",
  "myst-parser>=0.3.0",
  "pydata-sphinx-theme",
]
web = ["streamlit>1.27", "scipy"]

[project.urls]
"Bug Tracker" = "https://github.com/ProteoBench/ProteoBench/issues/"
"Homepage" = "https://github.com/ProteoBench"

[build-system]
requires = ["setuptools>=64", "setuptools_scm>=8"]
build-backend = "setuptools.build_meta"

[tool.setuptools_scm]
# https://setuptools-scm.readthedocs.io/
# used to pick up the version from the git tags or the latest commit.

[tool.setuptools.packages.find]
include = ["proteobench"]

[tool.isort]
profile = "black"

[tool.black]
line-length = 120
target-version = ['py38']

[tool.flake8]
max-line-length = 120