[build-system]
requires = ["setuptools>=61.0", "wheel"]
build-backend = "setuptools.build_meta"
[project]
name = "genome-mcp"
version = "0.2.6"
description = "Genome MCP server - 优化版本：智能基因组数据访问"
readme = "README.md"
license = "MIT"
authors = [
{name = "gqy20", email = "qingyu_ge@foxmail.com"}
]
maintainers = [
{name = "gqy20", email = "qingyu_ge@foxmail.com"}
]
keywords = ["mcp", "genomics", "bioinformatics", "ncbi", "gene"]
classifiers = [
"Development Status :: 4 - Beta",
"Intended Audience :: Science/Research",
"Operating System :: OS Independent",
"Programming Language :: Python :: 3",
"Programming Language :: Python :: 3.11",
"Programming Language :: Python :: 3.12",
"Topic :: Scientific/Engineering :: Bio-Informatics",
]
requires-python = ">=3.11"
dependencies = [
"aiohttp>=3.8.0",
"fastmcp>=2.0.0",
"typing-extensions>=4.0.0",
]
[project.optional-dependencies]
dev = [
"pytest>=7.0.0",
"pytest-asyncio>=0.21.0",
"black>=23.0.0",
"isort>=5.12.0",
"ruff>=0.1.0",
]
test = [
"pytest>=7.0.0",
"pytest-asyncio>=0.21.0",
"pytest-cov>=4.0.0",
]
[project.urls]
Homepage = "https://github.com/gqy20/genome-mcp"
Repository = "https://github.com/gqy20/genome-mcp"
Documentation = "https://github.com/gqy20/genome-mcp#readme"
"Bug Tracker" = "https://github.com/gqy20/genome-mcp/issues"
[project.scripts]
genome-mcp = "genome_mcp.__main__:main"
# Black配置
[tool.black]
line-length = 88
target-version = ["py311", "py312"]
include = '\.pyi?$'
extend-exclude = '''
/(
# directories
\.eggs
| \.git
| \.hg
| \.mypy_cache
| \.tox
| \.venv
| build
| dist
)/
'''
# isort配置
[tool.isort]
profile = "black"
multi_line_output = 3
line_length = 88
known_first_party = ["genome_mcp"]
known_third_party = ["aiohttp", "fastmcp"]
sections = ["FUTURE", "STDLIB", "THIRDPARTY", "FIRSTPARTY", "LOCALFOLDER"]
# Ruff配置
[tool.ruff]
target-version = "py311"
line-length = 88
[tool.ruff.lint]
select = [
"E", # pycodestyle errors
"W", # pycodestyle warnings
"F", # pyflakes
"I", # isort
"B", # flake8-bugbear
"C4", # flake8-comprehensions
"UP", # pyupgrade
]
ignore = [
"E501", # line too long, handled by black
"B008", # do not perform function calls in argument defaults
"C901", # too complex
]
[tool.ruff.lint.per-file-ignores]
"__init__.py" = ["F401"]
"tests/**/*" = ["B011", "F841"]
# Pytest配置
[tool.pytest.ini_options]
testpaths = ["tests"]
python_files = ["test_*.py", "*_test.py"]
python_classes = ["Test*"]
python_functions = ["test_*"]
addopts = [
"--strict-markers",
"--strict-config",
"--verbose",
"--tb=short",
]
markers = [
"slow: marks tests as slow (deselect with '-m \"not slow\"')",
"integration: marks tests as integration tests",
"unit: marks tests as unit tests",
]
asyncio_mode = "auto"
filterwarnings = [
"error",
"ignore::UserWarning",
"ignore::DeprecationWarning",
]
[dependency-groups]
dev = [
"pre-commit>=4.5.0",
"pytest>=8.4.2",
"pytest-asyncio>=1.2.0",
]