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
|
import os
import sys
import re
from glob import glob
from setuptools import setup, find_packages, Extension
__pkg_name__ = 'scrappy'
__author__ = 'cwright'
__description__ = 'Python bindings to scrappie basecaller'
# Use readme as long description and say its github-flavour markdown
from os import path
this_directory = path.abspath(path.dirname(__file__))
with open(path.join(this_directory, 'README.md'), encoding='utf-8') as f:
__long_description__ = f.read()
__long_description_content_type__ = 'text/markdown'
__path__ = os.path.dirname(__file__)
__pkg_path__ = os.path.join(os.path.join(__path__, __pkg_name__))
# Get the version number from __init__.py
verstrline = open(os.path.join(__pkg_name__, '__init__.py'), 'r').read()
vsre = r"^__version__ = ['\"]([^'\"]*)['\"]"
mo = re.search(vsre, verstrline, re.M)
if mo:
__version__ = mo.group(1)
else:
raise RuntimeError('Unable to find version string in "{}/__init__.py".'.format(__pkg_name__))
# Get requirements from file, we prefer to have
# preinstalled these with pip to make use of wheels.
dir_path = os.path.dirname(__file__)
install_requires = []
with open(os.path.join(dir_path, 'requirements.txt')) as fh:
reqs = (
r.split('#')[0].strip()
for r in fh.read().splitlines() if not r.startswith('#')
)
for req in reqs:
if req == '':
continue
if req.startswith('git+https'):
req = req.split('/')[-1].split('@')[0]
install_requires.append(req)
extra_requires = {}
additional_tests_requires = ['nose>=1.0']
extensions = []
classifiers = [
'Development Status :: 3 - Alpha',
'Environment :: Console',
'Intended Audience :: Developers',
'Intended Audience :: Science/Research',
'License :: OSI Approved :: Mozilla Public License 2.0 (MPL 2.0)',
'Natural Language :: English',
'Operating System :: Unix',
'Programming Language :: Python :: 3 :: Only',
'Topic :: Scientific/Engineering :: Artificial Intelligence',
'Topic :: Scientific/Engineering :: Bio-Informatics',
'Topic :: Scientific/Engineering :: Mathematics'
]
if 'MANYLINUX' in os.environ:
# when building wheel we need to include this
data_files = [('', ['OPENBLAS_LICENSE'])]
else:
data_files = []
setup(
name='scrappie', # scrappy is taken on pypi
version=__version__,
url='https://github.com/nanoporetech/scrappie',
author=__author__,
author_email='{}@nanoporetech.com'.format(__author__),
classifiers=classifiers,
description=__description__,
long_description=__long_description__,
long_description_content_type=__long_description_content_type__,
python_requires='~=3.4',
license='MPL 2.0',
dependency_links=[],
ext_modules=extensions,
install_requires=install_requires,
tests_require=install_requires + additional_tests_requires,
extras_require=extra_requires,
setup_requires=["cffi>=1.0.0"],
cffi_modules=["build.py:ffibuilder"],
# don't include any testing subpackages in dist
packages=find_packages(exclude=['*.test', '*.test.*', 'test.*', 'test']),
package_data={},
zip_safe=False,
data_files=data_files,
entry_points={
'console_scripts': [
'{} = {}:_basecall'.format(__pkg_name__, __pkg_name__)
]
},
scripts=[
],
test_suite='nose.collector',
)
|
