66 lines
1.9 KiB
Python
66 lines
1.9 KiB
Python
try:
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from setuptools import setup, Extension
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from setuptools.command.build_ext import build_ext
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except ImportError:
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from distutils.core import setup
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from distutils.extension import Extension
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from distutils.command.build_ext import build_ext
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import sys, platform, subprocess
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def readme():
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with open('python/README.rst') as f:
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return f.read()
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class LibMM2Build(build_ext):
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# Uses Makefile to build library, avoids duplicating logic
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# determining which objects to compile but does require
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# end users to have Make (since precompiled wheels are not
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# distributed on PyPI).
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def run(self):
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def compile_libminimap2(*args, **kwargs):
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cmd = ['make', 'libminimap2.a'] + list(args)
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subprocess.check_call(cmd)
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options = []
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if platform.machine() in ["aarch64", "arm64"]:
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options = ["arm_neon=1", "aarch64=1"]
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self.execute(
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compile_libminimap2, options,
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'Compiling libminimap2 using Makefile')
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build_ext.run(self)
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setup(
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name = 'mappy',
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version = '2.25',
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url = 'https://github.com/lh3/minimap2',
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description = 'Minimap2 python binding',
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long_description = readme(),
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author = 'Heng Li',
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author_email = 'lh3@me.com',
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license = 'MIT',
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keywords = 'sequence-alignment',
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scripts = ['python/minimap2.py'],
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cmdclass = {'build_ext': LibMM2Build},
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ext_modules = [
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Extension(
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'mappy',
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sources = ['python/mappy.pyx'],
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depends = ['python/cmappy.h', 'python/cmappy.pxd'],
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include_dirs = ['.'],
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extra_objects = ['libminimap2.a'],
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libraries = ['z', 'm', 'pthread'])],
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classifiers = [
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'Development Status :: 5 - Production/Stable',
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'License :: OSI Approved :: MIT License',
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'Operating System :: POSIX',
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'Programming Language :: C',
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'Programming Language :: Cython',
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'Programming Language :: Python :: 2.7',
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'Programming Language :: Python :: 3',
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'Intended Audience :: Science/Research',
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'Topic :: Scientific/Engineering :: Bio-Informatics'],
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setup_requires=["cython"])
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