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setup.py
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setup.py
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#! /usr/bin/env python
'''
Brian2 setup script
'''
import sys
import os
import platform
if sys.version_info < (2, 7):
raise RuntimeError('Only Python versions >= 2.7 are supported')
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')
long_description = '''
Brian2 is a simulator for spiking neural networks available on almost all platforms.
The motivation for this project is that a simulator should not only save the time of
processors, but also the time of scientists.
It is the successor of Brian1 and shares its approach of being highly flexible
and easily extensible. It is based on a code generation framework that allows
to execute simulations using other programming languages and/or on different
devices.
Please report issues to the github issue tracker (https://github.com/brian-team/brian2/issues) or to the
brian support mailing list (http://groups.google.com/group/briansupport/)
Documentation for Brian2 can be found at http://brian2.readthedocs.org
'''
setup(name='Brian2',
version='2.2.2.1+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.weave_rt': ['templates/*.cpp',
'templates/*.h'],
'brian2.codegen.runtime.GSLweave_rt': ['templates/*.cpp'],
'brian2.codegen.runtime.GSLcython_rt': ['templates/*.pyx'],
'brian2.devices.cpp_standalone': ['templates/*.cpp',
'templates/*.h',
'templates/makefile',
'templates/win_makefile',
'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 and external code
'brian2.tests': ['rallpack_data/README',
'rallpack_data/ref_*',
'func_def_cpp.cpp',
'func_def_cpp.h',
'func_def_cython.pyx',
'func_def_cython.pxd'],
# 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>=0.7.6,!=1.1.0',
'pyparsing',
'jinja2>=2.7',
'py-cpuinfo;platform_system=="Windows"',
'setuptools>=21',
'future'
],
setup_requires=['numpy>=1.10',
'setuptools>=21'
],
cmdclass={'build_ext': optional_build_ext},
provides=['brian2'],
extras_require={'test': ['nose>=1.0'],
'docs': ['sphinx>=1.5']},
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,
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 :: 2',
'Programming Language :: Python :: 3',
'Topic :: Scientific/Engineering :: Bio-Informatics'
]
)