1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
100
101
102
103
104
105
106
107
108
109
110
111
112
113
114
115
116
117
118
119
120
121
122
123
124
125
126
|
""" setup.py
to compile cython files:
python setup.py build_ext --inplace
Copyright 2014-2017, Mario Mulansky <mario.mulansky@gmx.net>
Distributed under the BSD License
"""
from setuptools import setup, find_packages
from distutils.extension import Extension
import os.path
try:
from Cython.Distutils import build_ext
except ImportError:
use_cython = False
else:
use_cython = True
class numpy_include(os.PathLike):
"""Defers import of numpy until install_requires is through"""
def __str__(self):
import numpy
return numpy.get_include()
def __fspath__(self):
return str(self)
if os.path.isfile("pyspike/cython/cython_add.c") and \
os.path.isfile("pyspike/cython/cython_get_tau.c") and \
os.path.isfile("pyspike/cython/cython_profiles.c") and \
os.path.isfile("pyspike/cython/cython_distances.c") and \
os.path.isfile("pyspike/cython/cython_directionality.c") and \
os.path.isfile("pyspike/cython/cython_simulated_annealing.c"):
use_c = True
else:
use_c = False
if not use_cython and not use_c:
print('Cython not installed. Programs will be slow.')
# Ans = input('Abort? (Y/N)\n')
# if len(Ans)>0 and (Ans[0]=='Y' or Ans[0]=='y'):
# print("\nAborting\n")
# raise RuntimeError('User termination')
cmdclass = {}
ext_modules = []
if use_cython: # Cython is available, compile .pyx -> .c
ext_modules += [
Extension("pyspike.cython.cython_add",
["pyspike/cython/cython_add.pyx"]),
Extension("pyspike.cython.cython_get_tau",
["pyspike/cython/cython_get_tau.pyx"]),
Extension("pyspike.cython.cython_profiles",
["pyspike/cython/cython_profiles.pyx"]),
Extension("pyspike.cython.cython_distances",
["pyspike/cython/cython_distances.pyx"]),
Extension("pyspike.cython.cython_directionality",
["pyspike/cython/cython_directionality.pyx"]),
Extension("pyspike.cython.cython_simulated_annealing",
["pyspike/cython/cython_simulated_annealing.pyx"])
]
cmdclass.update({'build_ext': build_ext})
elif use_c: # c files are there, compile to binaries
ext_modules += [
Extension("pyspike.cython.cython_add",
["pyspike/cython/cython_add.c"]),
Extension("pyspike.cython.cython_get_tau",
["pyspike/cython/cython_get_tau.c"]),
Extension("pyspike.cython.cython_profiles",
["pyspike/cython/cython_profiles.c"]),
Extension("pyspike.cython.cython_distances",
["pyspike/cython/cython_distances.c"]),
Extension("pyspike.cython.cython_directionality",
["pyspike/cython/cython_directionality.c"]),
Extension("pyspike.cython.cython_simulated_annealing",
["pyspike/cython/cython_simulated_annealing.c"])
]
# neither cython nor c files available -> automatic fall-back to python backend
setup(
name='pyspike',
packages=find_packages(exclude=['doc']),
version='0.8.0',
cmdclass=cmdclass,
ext_modules=ext_modules,
include_dirs=[numpy_include()],
description='A Python library for the numerical analysis of spike\
train similarity',
author='Mario Mulansky',
author_email='mario.mulansky@gmx.net',
license='BSD',
url='https://github.com/mariomulansky/PySpike',
install_requires=['numpy'],
keywords=['data analysis', 'spike', 'neuroscience'], # arbitrary keywords
classifiers=[
# How mature is this project? Common values are
# 3 - Alpha
# 4 - Beta
# 5 - Production/Stable
'Development Status :: 4 - Beta',
# Indicate who your project is intended for
'Intended Audience :: Science/Research',
'Topic :: Scientific/Engineering',
'Topic :: Scientific/Engineering :: Information Analysis',
'License :: OSI Approved :: BSD License',
'Programming Language :: Python :: 3',
'Programming Language :: Python :: 3.7',
'Programming Language :: Python :: 3.8',
'Programming Language :: Python :: 3.9',
'Programming Language :: Python :: 3.10',
],
package_data={
'pyspike': [],
'test': ['Spike_testdata.txt']
}
)
|
