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
|
#!/usr/bin/env python
from setuptools import setup, Extension
from distutils import sysconfig
from pathlib import Path
import subprocess
import glob
import sys
srcs = ["pyBigWig.c"]
libs=["BigWig", "m", "z"]
# do not link to python on mac, see https://github.com/deeptools/pyBigWig/issues/58
if 'dynamic_lookup' not in (sysconfig.get_config_var('LDSHARED') or ''):
if sysconfig.get_config_vars('BLDLIBRARY') is not None:
#Note the "-l" prefix!
for e in sysconfig.get_config_vars('BLDLIBRARY')[0].split():
if e[0:2] == "-l":
libs.append(e[2:])
elif sys.version_info[0] >= 3 and sys.version_info[1] >= 3:
libs.append("python%i.%im" % (sys.version_info[0], sys.version_info[1]))
else:
libs.append("python%i.%i" % (sys.version_info[0], sys.version_info[1]))
additional_libs = [sysconfig.get_config_var("LIBDIR"), sysconfig.get_config_var("LIBPL")]
defines = []
try:
foo, _ = subprocess.Popen(['curl-config', '--libs'], stdout=subprocess.PIPE).communicate()
libs.append("curl")
foo = foo.decode().strip().split()
except:
foo = []
defines.append(('NOCURL', None))
sys.stderr.write("Either libcurl isn't installed, it didn't come with curl-config, or curl-config isn't in your $PATH. pyBigWig will be installed without support for remote files.\n")
for v in foo:
if v[0:2] == '-L':
additional_libs.append(v[2:])
include_dirs = ['libBigWig', sysconfig.get_config_var("INCLUDEPY")]
# Add numpy build information if numpy is installed as a package
try:
import numpy
defines.extend([('WITHNUMPY', None), ('NPY_NO_DEPRECATED_API', 'NPY_1_7_API_VERSION')])
# Ref: https://numpy.org/doc/stable/reference/c-api/coremath.html#linking-against-the-core-math-library-in-an-extension
numpy_include_dir = numpy.get_include()
numpy_library_dir = str(Path(numpy_include_dir) / '..' / 'lib')
include_dirs.append(numpy_include_dir)
additional_libs.append(numpy_library_dir)
libs.append('npymath')
# Silently ignore a failed import of numpy
except ImportError:
pass
module1 = Extension('pyBigWig',
sources = srcs,
libraries = libs,
library_dirs = additional_libs,
define_macros = defines,
include_dirs = include_dirs)
setup(
ext_modules=[module1]
)
|
