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minimap2
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Convert python install from build_ext to setuptools setup_requires.

This commit is contained in:
Marcus Stoiber 2021-04-02 06:31:27 -07:00 committed by Heng Li
parent 0b41dd26a2
commit 7db2e8d21a
1 changed files with 3 additions and 13 deletions
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14
setup.py
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@ -4,16 +4,6 @@ except ImportError:
from distutils.core import setup from distutils.core import setup
from distutils.extension import Extension from distutils.extension import Extension
cmdclass = {}
try:
from Cython.Build import build_ext
except ImportError: # without Cython
module_src = 'python/mappy.c'
else: # with Cython
module_src = 'python/mappy.pyx'
cmdclass['build_ext'] = build_ext
import sys, platform import sys, platform
sys.path.append('python') sys.path.append('python')
@ -43,7 +33,7 @@ setup(
keywords = 'sequence-alignment', keywords = 'sequence-alignment',
scripts = ['python/minimap2.py'], scripts = ['python/minimap2.py'],
ext_modules = [Extension('mappy', ext_modules = [Extension('mappy',
sources = [module_src, 'align.c', 'bseq.c', 'chain.c', 'format.c', 'hit.c', 'index.c', 'pe.c', 'options.c', sources = ['python/mappy.pyx', 'align.c', 'bseq.c', 'chain.c', 'format.c', 'hit.c', 'index.c', 'pe.c', 'options.c',
'ksw2_extd2_sse.c', 'ksw2_exts2_sse.c', 'ksw2_extz2_sse.c', 'ksw2_ll_sse.c', 'ksw2_extd2_sse.c', 'ksw2_exts2_sse.c', 'ksw2_extz2_sse.c', 'ksw2_ll_sse.c',
'kalloc.c', 'kthread.c', 'map.c', 'misc.c', 'sdust.c', 'sketch.c', 'esterr.c', 'splitidx.c'], 'kalloc.c', 'kthread.c', 'map.c', 'misc.c', 'sdust.c', 'sketch.c', 'esterr.c', 'splitidx.c'],
depends = ['minimap.h', 'bseq.h', 'kalloc.h', 'kdq.h', 'khash.h', 'kseq.h', 'ksort.h', depends = ['minimap.h', 'bseq.h', 'kalloc.h', 'kdq.h', 'khash.h', 'kseq.h', 'ksort.h',
@ -62,4 +52,4 @@ setup(
'Programming Language :: Python :: 3', 'Programming Language :: Python :: 3',
'Intended Audience :: Science/Research', 'Intended Audience :: Science/Research',
'Topic :: Scientific/Engineering :: Bio-Informatics'], 'Topic :: Scientific/Engineering :: Bio-Informatics'],
cmdclass = cmdclass) setup_requires=["cython"])