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from setuptools import setup, Extension
from codecs import open
import os
cmdclass = {}
long_description = ""
# Build directly from cython source file(s) if user wants so (probably for some experiments).
# Otherwise, pre-generated c source file(s) are used.
# User has to set environment variable EDLIB_USE_CYTHON.
# e.g.: EDLIB_USE_CYTHON=1 python setup.py install
USE_CYTHON = os.getenv('EDLIB_USE_CYTHON', False)
if USE_CYTHON:
from Cython.Build import build_ext
edlib_module_src = "edlib.pyx"
cmdclass['build_ext'] = build_ext
else:
edlib_module_src = "edlib.bycython.cpp"
# Load README.rst into long description.
# User can skip using README.rst as long description: EDLIB_OMIT_README_RST=1 python setup.py install
OMIT_README_RST = True # os.getenv('EDLIB_OMIT_README_RST', False)
if not OMIT_README_RST:
here = os.path.abspath(os.path.dirname(__file__))
with open(os.path.join(here, 'README.rst'), encoding='utf-8') as f:
long_description = f.read()
setup(
# Information
name = "edlib",
description = "Lightweight, super fast library for sequence alignment using edit (Levenshtein) distance.",
long_description = long_description,
version = "1.3.8.post2",
url = "https://github.com/Martinsos/edlib",
author = "Martin Sosic",
author_email = "sosic.martin@gmail.com",
license = "MIT",
keywords = "edit distance levenshtein align sequence bioinformatics",
# Build instructions
ext_modules = [Extension("edlib",
[edlib_module_src, "edlib/src/edlib.cpp"],
include_dirs=["edlib/include"],
depends=["edlib/include/edlib.h"],
language="c++",
extra_compile_args=["-O3", "-std=c++11"])],
cmdclass = cmdclass
)
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