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
|
#!/usr/bin/env python3
"""
Run 'pip install .' to install Readucks.
"""
# Make sure this is being run with Python 3.4 or later.
import sys
if sys.version_info.major != 3 or sys.version_info.minor < 4:
print('Error: you must execute setup.py using Python 3.4 or later')
sys.exit(1)
import os
import shutil
import subprocess
import multiprocessing
import fnmatch
import importlib.util
# Install setuptools if not already present.
if not importlib.util.find_spec("setuptools"):
import ez_setup
ez_setup.use_setuptools()
from setuptools import setup
from setuptools.command.install import install
from distutils.command.build import build
from distutils.core import Command
# Get the program version from another file.
exec(open('readucks/version.py').read())
with open('README.md', 'rb') as readme:
LONG_DESCRIPTION = readme.read().decode()
class Build(build):
"""
The build process.
"""
def run(self):
build.run(self) # Run original build code
class Install(install):
"""
The install process.
"""
def run(self):
install.run(self) # Run original install code
class Clean(Command):
"""
Custom clean command that really cleans up everything, except for:
- the compiled *.so file needed when running the programs
- setuptools-*.egg file needed when running this script
"""
user_options = [('all', None, '(Compatibility with original clean command)')]
def initialize_options(self):
self.all = False
self.cwd = None
def finalize_options(self):
self.cwd = os.getcwd()
def run(self):
assert os.getcwd() == self.cwd, 'Must be in package root: %s' % self.cwd
delete_directories = []
for root, dir_names, filenames in os.walk(self.cwd):
for dir_name in fnmatch.filter(dir_names, '*.egg-info'):
delete_directories.append(os.path.join(root, dir_name))
for dir_name in fnmatch.filter(dir_names, 'build'):
delete_directories.append(os.path.join(root, dir_name))
for dir_name in fnmatch.filter(dir_names, '__pycache__'):
delete_directories.append(os.path.join(root, dir_name))
for delete_directory in delete_directories:
print('Deleting directory:', delete_directory)
shutil.rmtree(delete_directory)
delete_files = []
for root, dir_names, filenames in os.walk(self.cwd):
for filename in fnmatch.filter(filenames, 'setuptools*.zip'):
delete_files.append(os.path.join(root, filename))
for filename in fnmatch.filter(filenames, '*.o'):
delete_files.append(os.path.join(root, filename))
for filename in fnmatch.filter(filenames, '*.pyc'):
delete_files.append(os.path.join(root, filename))
for delete_file in delete_files:
print('Deleting file:', delete_file)
os.remove(delete_file)
setup(name='readucks',
version=__version__,
description='Readucks: a simple demultiplexer for nanopore reads',
long_description=LONG_DESCRIPTION,
long_description_content_type="text/markdown",
url='http://github.com/rambaut/readucks',
author='Andrew Rambaut',
author_email='a.rambaut@ed.ac.uk',
license='GPL',
packages=['readucks'],
entry_points={"console_scripts": ['readucks = readucks.readucks:main']},
zip_safe=False,
cmdclass={'build': Build,
'install': Install,
'clean': Clean}
)
|
