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setup.py
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setup.py
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#!/usr/bin/env python
# emacs: -*- mode: python; py-indent-offset: 4; indent-tabs-mode: nil -*-
# vi: set ft=python sts=4 ts=4 sw=4 et:
### ### ### ### ### ### ### ### ### ### ### ### ### ### ### ### ### ### ### ##
#
# See COPYING file distributed along with the PyMVPA package for the
# copyright and license terms.
#
### ### ### ### ### ### ### ### ### ### ### ### ### ### ### ### ### ### ### ##
"""Python distutils setup for PyMVPA"""
from numpy.distutils.core import setup, Extension
import fnmatch
import glob
import os
import sys
if sys.version_info[:2] < (2, 6):
raise RuntimeError("PyMVPA requires Python 2.6 or higher")
# some config settings
bind_libsvm = 'local' # choices: 'local', 'system', None
libsvmc_extra_sources = []
libsvmc_include_dirs = []
libsvmc_libraries = []
extra_link_args = []
libsvmc_library_dirs = []
# platform-specific settings
if sys.platform == "darwin":
extra_link_args.append("-bundle")
if sys.platform.startswith('linux'):
# need to look for numpy (header location changes with v1.3)
from numpy.distutils.misc_util import get_numpy_include_dirs
libsvmc_include_dirs += get_numpy_include_dirs()
# when libsvm is forced -- before it was used only in cases
# when libsvm was available at system level, hence we switch
# from local to system at this point
# TODO: Deprecate --with-libsvm for 0.5
for arg in ('--with-libsvm', '--with-system-libsvm'):
if not sys.argv.count(arg):
continue
# clean argv if necessary (or distutils will complain)
sys.argv.remove(arg)
# assure since default is 'auto' wouldn't fail if it is N/A
bind_libsvm = 'system'
# when no libsvm bindings are requested explicitly
if sys.argv.count('--no-libsvm'):
# clean argv if necessary (or distutils will complain)
sys.argv.remove('--no-libsvm')
bind_libsvm = None
# if requested:
if bind_libsvm == 'local':
# we will provide libsvm sources later on # if libsvm.a is available locally -- use it
#if os.path.exists(os.path.join('build', 'libsvm', 'libsvm.a')):
libsvm_3rd_path = os.path.join('3rd', 'libsvm')
libsvmc_include_dirs += [libsvm_3rd_path]
libsvmc_extra_sources = [os.path.join(libsvm_3rd_path, 'svm.cpp')]
elif bind_libsvm == 'system':
# look for libsvm in some places, when local one is not used
libsvmc_libraries += ['svm']
if not sys.platform.startswith('win'):
libsvmc_include_dirs += [
'/usr/include/libsvm-3.0/libsvm',
'/usr/include/libsvm-2.0/libsvm',
'/usr/include/libsvm',
'/usr/local/include/libsvm',
'/usr/local/include/libsvm-2.0/libsvm',
'/usr/local/include']
else:
# no clue on windows
pass
elif bind_libsvm is None:
pass
else:
raise ValueError("Shouldn't happen that we get bind_libsvm=%r"
% (bind_libsvm,))
# define the extension modules
libsvmc_ext = Extension(
'mvpa2.clfs.libsvmc._svmc',
sources=libsvmc_extra_sources + [os.path.join('mvpa2', 'clfs', 'libsvmc', 'svmc.i')],
include_dirs=libsvmc_include_dirs,
library_dirs=libsvmc_library_dirs,
libraries=libsvmc_libraries,
language='c++',
extra_link_args=extra_link_args,
swig_opts=['-I' + d for d in libsvmc_include_dirs])
smlrc_ext = Extension(
'mvpa2.clfs.libsmlrc.smlrc',
sources=[ os.path.join('mvpa2', 'clfs', 'libsmlrc', 'smlr.c') ],
#library_dirs = library_dirs,
libraries=['m'] if not sys.platform.startswith('win') else [],
# extra_compile_args = ['-O0'],
extra_link_args=extra_link_args,
language='c')
ext_modules = [smlrc_ext]
if bind_libsvm:
ext_modules.append(libsvmc_ext)
# Notes on the setup
# Version scheme is: major.minor.patch<suffix>
def get_full_dir(path):
path_split = path.split(os.path.sep) # so we could run setup.py on any platform
path_proper = os.path.join(*path_split)
return (path_proper,
[f for f in glob.glob(os.path.join(path_proper, '*'))
if os.path.isfile(f)])
# borrowed from https://wiki.python.org/moin/Distutils/Tutorial
## Code borrowed from wxPython's setup and config files
## Thanks to Robin Dunn for the suggestion.
## I am not 100% sure what's going on, but it works!
def opj(*args):
path = os.path.join(*args)
return os.path.normpath(path)
def find_data_files(srcdir, *wildcards, **kw):
# get a list of all files under the srcdir matching wildcards,
# returned in a format to be used for install_data
file_list = []
recursive = kw.get('recursive', True)
for d, dirs, files in os.walk(srcdir, topdown=True):
for wc in wildcards:
files_ = [opj(d, x) for x in fnmatch.filter(files, wc)]
if files_:
file_list.append((d, files_))
if not recursive:
break # one would be enough ;)
return file_list
# define the setup
def setup_package():
# Perform 2to3 if needed
local_path = os.path.dirname(os.path.abspath(sys.argv[0]))
src_path = local_path
if sys.version_info[0] == 3:
src_path = os.path.join(local_path, 'build', 'py3k')
import py3tool
print("Converting to Python3 via 2to3...")
py3tool.sync_2to3('mvpa2', os.path.join(src_path, 'mvpa2'))
py3tool.sync_2to3('3rd', os.path.join(src_path, '3rd'))
# Run build
os.chdir(src_path)
sys.path.insert(0, src_path)
setup(name='pymvpa2',
version='2.3.1',
author='Michael Hanke, Yaroslav Halchenko, Per B. Sederberg',
author_email='pkg-exppsy-pymvpa@lists.alioth.debian.org',
license='MIT License',
url='http://www.pymvpa.org',
description='Multivariate pattern analysis',
long_description=
"PyMVPA is a Python module intended to ease pattern classification "
"analyses of large datasets. It provides high-level abstraction of "
"typical processing steps and a number of implementations of some "
"popular algorithms. While it is not limited to neuroimaging data "
"it is eminently suited for such datasets.\n"
"PyMVPA is truly free software (in every respect) and "
"additionally requires nothing but free-software to run.",
# please maintain alphanumeric order
packages=[ 'mvpa2',
'mvpa2.algorithms',
'mvpa2.atlases',
'mvpa2.base',
'mvpa2.clfs',
'mvpa2.clfs.libsmlrc',
'mvpa2.clfs.libsvmc',
'mvpa2.clfs.skl',
'mvpa2.clfs.sg',
'mvpa2.cmdline',
'mvpa2.datasets',
'mvpa2.datasets.sources',
'mvpa2.featsel',
'mvpa2.kernels',
'mvpa2.mappers',
'mvpa2.mappers.glm',
'mvpa2.generators',
'mvpa2.measures',
'mvpa2.misc',
'mvpa2.misc.bv',
'mvpa2.misc.fsl',
'mvpa2.misc.io',
'mvpa2.misc.plot',
'mvpa2.misc.surfing',
'mvpa2.sandbox',
'mvpa2.support',
'mvpa2.support.afni',
'mvpa2.support.bayes',
'mvpa2.support.nipy',
'mvpa2.support.ipython',
'mvpa2.support.nibabel',
'mvpa2.support.scipy',
'mvpa2.testing',
'mvpa2.tests',
'mvpa2.tests.badexternals',
'mvpa2.viz',
],
data_files=[('mvpa2', [os.path.join('mvpa2', 'COMMIT_HASH')])]
+ find_data_files(os.path.join('mvpa2', 'data'),
'*.txt', '*.nii.gz', '*.rtc', 'README', '*.bin',
'*.dat', '*.dat.gz', '*.mat', '*.fsf', '*.par'),
scripts=glob.glob(os.path.join('bin', '*')),
ext_modules=ext_modules
)
if __name__ == '__main__':
setup_package()