fredrikappelros / align Goto Github PK
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License: MIT License
Performs global and local sequence alignment.
License: MIT License
Can you please upload align
to PyPI, so that anyone can easily install it via pip
?
Hello, it seems that setup.py
is missing NumPy includes, which results in the following compilation error:
building 'align' extension
creating build
creating build/temp.macosx-10.8-intel-2.7
clang -fno-strict-aliasing -fno-common -dynamic -g -Os -pipe -fno-common -fno-strict-aliasing -fwrapv -mno-fused-madd -DENABLE_DTRACE -DMACOSX -DNDEBUG -Wall -Wstrict-prototypes -Wshorten-64-to-32 -DNDEBUG -g -Os -Wall -Wstrict-prototypes -DENABLE_DTRACE -arch i386 -arch x86_64 -pipe -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c align.c -o build/temp.macosx-10.8-intel-2.7/align.o
clang: error: no such file or directory: 'align.c'
clang: error: no input files
error: command 'clang' failed with exit status 1
Here's a working version of setup.py
:
from setuptools import setup
from setuptools.extension import Extension
from Cython.Distutils import build_ext
import numpy as np
setup(name="calign",
version='0.1',
description='Global and local sequence alignment implemented in C for speed.',
author='Fredrik Appelros, Carl Ekerot',
author_email='[email protected], [email protected]',
url='https://github.com/FredrikAppelros/align',
install_requires=['numpy', 'cython'],
cmdclass = {'build_ext': build_ext},
include_dirs = [np.get_include()],
ext_modules = [Extension('align', ['src/align.pyx', 'src/calign.c'])],
)
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