56 lines
1.8 KiB
Python
56 lines
1.8 KiB
Python
try:
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from setuptools import setup, Extension
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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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cmdclass = {}
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try:
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from Cython.Build import build_ext
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except ImportError: # without Cython
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module_src = 'python/mappy.c'
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else: # with Cython
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module_src = 'python/mappy.pyx'
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cmdclass['build_ext'] = build_ext
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import sys
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sys.path.append('python')
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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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setup(
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name = 'mappy',
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version = '2.2rc1',
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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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ext_modules = [Extension('mappy',
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sources = [module_src, 'align.c', 'bseq.c', 'chain.c', 'format.c', 'hit.c', 'index.c',
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'ksw2_extd2_sse.c', 'ksw2_exts2_sse.c', 'ksw2_extz2_sse.c', 'ksw2_ll_sse.c',
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'kalloc.c', 'kthread.c', 'map.c', 'misc.c', 'sdust.c', 'sketch.c'],
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depends = ['minimap.h', 'bseq.h', 'kalloc.h', 'kdq.h', 'khash.h', 'kseq.h', 'ksort.h',
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'ksw2.h', 'kthread.h', 'kvec.h', 'mmpriv.h', 'sdust.h',
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'python/cmappy.h', 'python/cmappy.pxd'],
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extra_compile_args = ['-msse4'], # WARNING: ancient x86_64 CPUs don't have SSE4
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include_dirs = ['.'],
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libraries = ['z', 'm', 'pthread'])],
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classifiers = [
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'Development Status :: 4 - Beta',
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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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cmdclass = cmdclass)
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