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
127
128
129
130
131
132
133
134
135
|
# -*- coding: utf-8 -*-
# Distance - Utilities for comparing sequences
# Copyright (C) 2013 Michaël Meyer
# This program is free software: you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation, either version 3 of the License, or
# (at your option) any later version.
# This program is distributed in the hope that it will be useful,
# but WITHOUT ANY WARRANTY; without even the implied warranty of
# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
# GNU General Public License for more details.
# You should have received a copy of the GNU General Public License
# along with this program. If not, see <http://www.gnu.org/licenses/>.
import os, sys, ast, _ast, re
from distutils.core import setup, Extension
this_dir = os.path.dirname(os.path.abspath(__file__))
pkg_dir = os.path.join(this_dir, "distance")
cpkg_dir = os.path.join(this_dir, "cdistance")
ctypes = ["unicode", "byte", "array"]
cfunctions = {
"levenshtein": ["levenshtein", "nlevenshtein"],
"hamming": ["hamming"],
"lcsubstrings": ["lcsubstrings"],
"fastcomp": ["fastcomp"],
}
sequence_compare = """\
#define SEQUENCE_COMPARE(s1, i1, s2, i2) \\
(PyObject_RichCompareBool( \\
PySequence_Fast_GET_ITEM((s1), (i1)), \\
PySequence_Fast_GET_ITEM((s2), (i2)), \\
Py_EQ) \\
)
"""
def make_c_doc():
buff = []
py_sources = [f for f in os.listdir(pkg_dir) if f.endswith('.py')]
for file in py_sources:
with open(os.path.join(pkg_dir, file)) as f:
content = f.read()
tree = ast.parse(content)
for doc_string in parse_tree(tree, content):
buff.append(doc_string)
join_str = 2 * '\n'
return join_str.join(buff) + '\n'
def parse_tree(tree, content):
for node in ast.iter_child_nodes(tree):
if not isinstance(node, _ast.FunctionDef):
continue
doc_string = ast.get_docstring(node)
if not doc_string:
continue
func_def = re.findall("def\s%s\s*(.+?)\s*:" % node.name, content)
assert func_def and len(func_def) == 1
func_def = node.name + func_def[0] + 2 * '\\n\\\n'
doc_string = doc_string.replace('\n', '\\n\\\n').replace('"', '\\"')
doc_string = doc_string.replace('\n' + 8 * ' ', '\n' + 4 * ' ')
doc_string = '#define %s_doc \\\n"%s%s"\n' % (node.name, func_def, doc_string)
yield doc_string
def format_header():
yield sequence_compare
for cfile, cfuncs in cfunctions.items():
for ctype in ctypes:
if ctype == "array":
yield("#define SEQUENCE_COMP SEQUENCE_COMPARE")
yield('#define unicode %(type)s' % dict(type=ctype))
for cfunc in cfuncs:
yield("#define %(function)s %(tcode)s%(function)s" % dict(function=cfunc, tcode=ctype[0]))
yield('#include "%(file)s.c"' % dict(file=cfile))
yield("#undef unicode")
for cfunc in cfuncs:
yield("#undef %(function)s" % dict(function=cfunc))
if ctype == "array":
yield("#undef SEQUENCE_COMP")
yield("")
def prepare():
with open(os.path.join(cpkg_dir, "includes.h"), "w") as f:
f.write(make_c_doc())
f.write(4 * '\n')
f.write('\n'.join(format_header()))
args = sys.argv[1:]
if "prepare" in args:
prepare()
sys.exit()
if "--with-c" in args:
args.remove("--with-c")
ext_modules = [Extension('distance.cdistance', sources=["cdistance/distance.c"])]
else:
sys.stderr.write("notice: no C support available\n")
ext_modules = []
with open(os.path.join(this_dir, "README.md")) as f:
long_description = f.read()
setup (
name = 'Distance',
version = '0.1.3',
description = 'Utilities for comparing sequences',
long_description = long_description,
author='Michaël Meyer',
author_email='michaelnm.meyer@gmail.com',
url='https://github.com/doukremt/distance',
ext_modules = ext_modules,
script_args = args,
packages = ['distance'],
classifiers=[
'Intended Audience :: Developers',
'Natural Language :: English',
'License :: OSI Approved :: GNU General Public License (GPL)',
'Operating System :: OS Independent',
'Topic :: Software Development :: Libraries :: Python Modules',
'Programming Language :: C',
'Programming Language :: Python',
'Programming Language :: Python :: 3.3',
]
)
|
