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pyproject.toml
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83 lines (75 loc) · 2.12 KB
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[project]
name = "spras"
version = "0.6.0"
description = "Signaling Pathway Reconstruction Analysis Streamliner"
authors = [
]
license = { file = "LICENSE" }
readme = "README.md"
classifiers = [
"Development Status :: 3 - Alpha",
"Intended Audience :: Science/Research",
"License :: OSI Approved :: MIT License",
"Operating System :: OS Independent",
"Programming Language :: Python :: 3",
"Topic :: Scientific/Engineering :: Bio-Informatics",
]
requires-python = ">=3.11"
dependencies = [
"adjusttext==0.7.3",
"snakemake==9.6.2",
"docker==7.1.0",
"matplotlib==3.10.3",
"networkx==3.5",
"pandas==2.3.0",
"pydantic==2.11.7",
"numpy==2.3.1",
"requests==2.32.4",
"scikit-learn==1.7.0",
"seaborn==0.13.2",
"spython==0.3.14",
# toolchain deps
"pip==25.3",
]
[project.optional-dependencies]
dev = [
# Only required for development
"pre-commit==4.2.0",
"pytest==8.4.1",
"pytest-split==0.10.0",
]
[project.urls]
"Homepage" = "https://github.com/Reed-CompBio/spras"
"Issues" = "https://github.com/Reed-CompBio/spras/issues"
[build-system]
requires = ["setuptools>=64.0"]
build-backend = "setuptools.build_meta"
[tool.ruff]
target-version = "py311"
# Autofix errors when possible
fix = true
# Select categories or specific rules from https://beta.ruff.rs/docs/rules/
select = [
"B", # flake8-bugbear
"D300", # docstring triple-single-quotes
"E101", # mixed-spaces-and-tabs
"E711", # none-comparison
"E713", # not-in-test
"E714" , # not-is-test
"F401", # unused imports
"F821", # undefined-name
"F823", # undefined-local
"F841", # unused-variable
"I", # isort
"W292", # missing-newline-at-end-of-file
]
[tool.setuptools.packages.find]
where = ["."]
include = ["spras*"]
# Include non-python executables
[tool.setuptools.package-data]
"spras" = ["cgroup_wrapper.sh"]
# packages tells setuptools what the exported package is called (ie allows import spras)
packages = ["spras", "spras.analysis", "spras.config"]