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setup.py
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#! /usr/bin/env python
'''
Brian2 setup script
'''
import io
import sys
import os
import platform
from pkg_resources import parse_version
from setuptools import setup, find_packages, Extension
from setuptools.command.build_ext import build_ext
from distutils.errors import CompileError, DistutilsPlatformError
REQUIRED_CYTHON_VERSION = '0.29'
try:
import Cython
if parse_version(Cython.__version__) < parse_version(REQUIRED_CYTHON_VERSION):
raise ImportError('Cython version %s is too old' % Cython.__version__)
from Cython.Build import cythonize
cython_available = True
except ImportError:
cython_available = False
def has_option(name):
try:
sys.argv.remove('--%s' % name)
return True
except ValueError:
pass
# allow passing all cmd line options also as environment variables
env_val = os.getenv(name.upper().replace('-', '_'), 'false').lower()
if env_val == "true":
return True
return False
WITH_CYTHON = has_option('with-cython')
FAIL_ON_ERROR = has_option('fail-on-error')
pyx_fname = os.path.join('brian2', 'synapses', 'cythonspikequeue.pyx')
cpp_fname = os.path.join('brian2', 'synapses', 'cythonspikequeue.cpp')
if WITH_CYTHON or not os.path.exists(cpp_fname):
fname = pyx_fname
if not cython_available:
if FAIL_ON_ERROR and WITH_CYTHON:
raise RuntimeError('Compilation with Cython requested/necesary but '
'Cython >= %s is not available.' % REQUIRED_CYTHON_VERSION)
else:
sys.stderr.write('Compilation with Cython requested/necesary but '
'Cython >= %s is not available.\n' % REQUIRED_CYTHON_VERSION)
fname = None
if not os.path.exists(pyx_fname):
if FAIL_ON_ERROR and WITH_CYTHON:
raise RuntimeError(('Compilation with Cython requested/necessary but '
'Cython source file %s does not exist') % pyx_fname)
else:
sys.stderr.write(('Compilation with Cython requested/necessary but '
'Cython source file %s does not exist\n') % pyx_fname)
fname = None
else:
fname = cpp_fname
if fname is not None:
if (platform.system() == 'Linux' and
platform.architecture()[0] == '32bit' and
platform.machine() == 'x86_64'):
# We are cross-compiling (most likely to build a 32Bit package for conda
# on travis), set paths and flags for 32Bit explicitly
print('Configuring compilation for cross-compilation to 32 Bit')
extensions = [Extension("brian2.synapses.cythonspikequeue",
[fname],
include_dirs=[], # numpy include dir will be added later
library_dirs=['/lib32', '/usr/lib32'],
extra_compile_args=['-m32'],
extra_link_args=['-m32'])]
else:
extensions = [Extension("brian2.synapses.cythonspikequeue",
[fname],
include_dirs=[])] # numpy include dir will be added later
if fname == pyx_fname:
extensions = cythonize(extensions)
else:
extensions = []
class optional_build_ext(build_ext):
'''
This class allows the building of C extensions to fail and still continue
with the building process. This ensures that installation never fails, even
on systems without a C compiler, for example.
If brian is installed in an environment where building C extensions
*should* work, use the "--fail-on-error" option or set the environment
variable FAIL_ON_ERROR to true.
'''
def build_extension(self, ext):
import numpy
numpy_incl = numpy.get_include()
if hasattr(ext, 'include_dirs') and not numpy_incl in ext.include_dirs:
ext.include_dirs.append(numpy_incl)
try:
build_ext.build_extension(self, ext)
except (CompileError, DistutilsPlatformError) as ex:
if FAIL_ON_ERROR:
raise ex
else:
error_msg = ('Building %s failed (see error message(s) '
'above) -- pure Python version will be used '
'instead.') % ext.name
sys.stderr.write('*' * len(error_msg) + '\n' +
error_msg + '\n' +
'*' * len(error_msg) + '\n')
# Use readme file as long description
with io.open(os.path.join(os.path.dirname(__file__), 'README.rst'),
encoding='utf-8') as f:
long_description = f.read()
setup(name='Brian2',
version='2.3+git',
packages=find_packages(),
package_data={# include template files
'brian2.codegen.runtime.numpy_rt': ['templates/*.py_'],
'brian2.codegen.runtime.cython_rt': ['templates/*.pyx'],
'brian2.codegen.runtime.GSLcython_rt': ['templates/*.pyx'],
'brian2.devices.cpp_standalone': ['templates/*.cpp',
'templates/*.h',
'templates/makefile',
'templates/win_makefile',
'templates_GSL/*.cpp',
'brianlib/*.cpp',
'brianlib/*.h'],
# include test template files
'brian2.tests.test_templates.fake_package_1': ['templates/*.txt'],
'brian2.tests.test_templates.fake_package_2': ['templates/*.txt'],
# Include RALLPACK test data, external code, and pytest config
'brian2.tests': ['rallpack_data/README',
'rallpack_data/ref_*',
'func_def_cpp.cpp',
'func_def_cpp.h',
'func_def_cython.pyx',
'func_def_cython.pxd',
'pytest.ini'],
# include C++/Cython version of spike queue
'brian2.synapses': ['cspikequeue.cpp',
'cythonspikequeue.pyx',
'stdint_compat.h'],
# include randomkit
'brian2.random': ['randomkit/randomkit.c',
'randomkit/randomkit.h'],
# include default_preferences file
'brian2': ['default_preferences']
},
install_requires=['numpy>=1.10',
'cython>=0.29',
'sympy>=1.2',
'pyparsing',
'jinja2>=2.7',
'py-cpuinfo;platform_system=="Windows"',
'setuptools>=24.2'
],
setup_requires=['numpy>=1.10',
'setuptools>=24.2'
],
cmdclass={'build_ext': optional_build_ext},
provides=['brian2'],
extras_require={'test': ['pytest',
'pytest-xdist'],
'docs': ['sphinx>=1.8',
'ipython>=5']},
use_2to3=False,
zip_safe=False,
ext_modules=extensions,
url='http://www.briansimulator.org/',
description='A clock-driven simulator for spiking neural networks',
long_description=long_description,
long_description_content_type='text/x-rst',
author='Marcel Stimberg, Dan Goodman, Romain Brette',
author_email='[email protected]',
keywords='computational neuroscience simulation',
classifiers=[
'Development Status :: 5 - Production/Stable',
'Intended Audience :: Science/Research',
'License :: OSI Approved :: CEA CNRS Inria Logiciel Libre License, version 2.1 (CeCILL-2.1)',
'Natural Language :: English',
'Operating System :: OS Independent',
'Programming Language :: Python',
'Programming Language :: Python :: 3',
'Topic :: Scientific/Engineering :: Bio-Informatics'
],
python_requires='>=3.5'
)