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setup.cfg
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setup.cfg
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[metadata]
name = pyfamsa
version = attr: pyfamsa._version.__version__
author = Martin Larralde
author_email = [email protected]
url = https://github.com/althonos/pyfamsa
description = Cython bindings and Python interface to FAMSA, an algorithm for ultra-scale multiple sequence alignments.
long_description = file: README.md
long_description_content_type = text/markdown
license = GPL-3.0-only
platform = any
keywords = bioinformatics, sequence, alignment, protein, MSA
classifier =
Development Status :: 3 - Alpha
Intended Audience :: Developers
Intended Audience :: Science/Research
License :: OSI Approved :: GNU General Public License v3 (GPLv3)
Operating System :: OS Independent
Programming Language :: C
Programming Language :: Cython
Programming Language :: Python :: 3.6
Programming Language :: Python :: 3.7
Programming Language :: Python :: 3.8
Programming Language :: Python :: 3.9
Programming Language :: Python :: 3.10
Programming Language :: Python :: 3.11
Programming Language :: Python :: 3.12
Programming Language :: Python :: Implementation :: CPython
Programming Language :: Python :: Implementation :: PyPy
Topic :: Scientific/Engineering :: Bio-Informatics
Topic :: Scientific/Engineering :: Medical Science Apps.
Typing :: Typed
project_urls =
Documentation = https://pyfamsa.readthedocs.io/en/stable/
Bug Tracker = https://github.com/althonos/pyfamsa/issues
Changelog = https://github.com/althonos/pyfamsa/blob/main/CHANGELOG.md
Coverage = https://codecov.io/gh/althonos/pyfamsa/
Builds = https://github.com/althonos/pyfamsa/actions
PyPI = https://pypi.org/project/pyfamsa
[options]
zip_safe = false
packages = pyfamsa, pyfamsa.tests, pyfamsa.tests.data
include_package_data = false
python_requires = >=3.6
setup_requires =
setuptools >=46.4
cython ~=3.0
scoring-matrices ~=0.2.0
semantic-version ~=2.10
install_requires =
scoring-matrices ~=0.2.0
tests_require =
importlib-resources ; python_version < '3.9'
# [options.entry_points]
# console_scripts =
# pyfamsa = pyfamsa.cli:main
[options.package_data]
pyfamsa = py.typed, *.pyi
pyfamsa.tests = requirements.txt
pyfamsa.tests.data = *
[coverage:run]
plugins = Cython.Coverage
[coverage:report]
include = pyfamsa/*
omit = pyfamsa/tests/*
show_missing = true
exclude_lines =
pragma: no cover
if typing.TYPE_CHECKING:
@abc.abstractmethod
@abc.abstractproperty
raise NotImplementedError
return NotImplemented
raise MemoryError()
[pydocstyle]
inherit = false
ignore = D102,D105,D200,D203,D213,D406,D407
match-dir = (?!tests)(?!docs)[^\.].*
match = (?!test)(?!setup)[^\._].*\.py
[mypy]
disallow_any_decorated = true
disallow_any_generics = true
disallow_any_unimported = false
disallow_subclassing_any = false
disallow_untyped_calls = true
disallow_untyped_defs = true
ignore_missing_imports = true
warn_unused_ignores = true
warn_return_any = true
exclude = pyfamsa/tests/*
[mypy-pyfamsa.tests]
disallow_untyped_defs = false
[isort]
known_first_party = pyfamsa, famsa
known_standard_library = cpython, cython, _unicode
known_third_party = libc, libcpp
line_length = 88
profile = black
skip_gitignore = true
skip_glob = vendor/FAMSA/*