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[build-system]
build-backend = "setuptools.build_meta"
requires = ["setuptools>=67.0", "setuptools_scm[toml]>=8.0"]
[project]
name = "weblogo"
dynamic = ["version"]
description ="WebLogo3 : Sequence Logos Redrawn"
authors = [
{ name = "Gavin Crooks", email = "gec@threeplusone.com" },
]
readme = "README.md"
license = { file = "LICENSE" }
keywords = ["bioinformatics", "visualization", "sequence logos"]
classifiers = [
"Programming Language :: Python :: 3",
"License :: OSI Approved :: MIT License",
"Operating System :: OS Independent",
]
requires-python = ">=3.10"
dependencies = [
"numpy",
"scipy",
]
[project.urls]
"Homepage" = "https://github.com/gecrooks/weblogo"
"Documentation" = "https://weblogo.readthedocs.io/"
"Issue Tracker" = "https://github.com/gecrooks/weblogo/issues"
[project.scripts]
weblogo = "weblogo._cli:main"
transformseq = "weblogo._transformseq:main"
[project.optional-dependencies]
dev = [
"setuptools_scm",
"pytest",
"pytest-cov",
"mypy",
"sphinx",
"guzzle_sphinx_theme",
"ruff",
"pre-commit",
]
docs = [
"sphinx",
"guzzle_sphinx_theme",
]
[tool.setuptools.packages.find]
include = ["weblogo*"]
[tool.setuptools_scm]
fallback_version = "0.0.0.dev"
[tool.ruff]
# https://docs.astral.sh/ruff/configuration/
line-length = 88
indent-width = 4
exclude = [
"_ext",
]
[tool.ruff.lint]
ignore = []
[tool.ruff.lint.per-file-ignores]
# Don't complaine about unused imports in __init__.py
"__init__.py" = ["F401", "F403"]
# pytest configuration
# https://docs.pytest.org/en/7.2.x/reference/customize.html
[tool.pytest.ini_options]
testpaths = "tests"
[tool.coverage.run]
branch = true
source = ["weblogo"]
parallel = true
[tool.coverage.report]
omit = ['*_test.py',
'weblogo/utils/deoptparse.py',
'weblogo/_ext/*']
exclude_lines = [
'\#\s*pragma: no cover',
'^\s*raise AssertionError\b',
'^\s*raise NotImplementedError\b',
'^\s*return NotImplemented\b',
'^\s*raise$',
'^assert False\b',
'''^if __name__ == ['"]__main__['"]:$''',
]
# mypy typecheck configuration
# https://mypy.readthedocs.io/en/stable/config_file.html
[tool.mypy]
files = 'weblogo'
# Suppresses error about unresolved imports
ignore_missing_imports = true
# Disallows functions without type annotations
disallow_untyped_defs = false
|
