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# !/usr/bin/env python
# -*- coding: utf-8 -*-
#
# Project: Fast Azimuthal integration
# https://github.com/kif/pyFAI
#
# Copyright (C) European Synchrotron Radiation Facility, Grenoble, France
#
# Principal author: Jérôme Kieffer (Jerome.Kieffer@ESRF.eu)
#
# 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/>.
#
from __future__ import with_statement, print_function
"""
Setup script for python Fast Azimuthal Integration
"""
__author__ = "Jerome Kieffer"
__contact__ = "Jerome.Kieffer@ESRF.eu"
__license__ = "GPLv3+"
__copyright__ = "European Synchrotron Radiation Facility, Grenoble, France"
__date__ = "17/10/2014"
__status__ = "stable"
import os
import sys
import glob
import shutil
import platform
import subprocess
import numpy
from distutils.core import setup, Command
from distutils.command.install_data import install_data
from distutils.command.build_ext import build_ext
from numpy.distutils.core import Extension as _Extension
def copy(infile, outfile, folder=None):
"link or copy file according to the OS in the given folder"
if folder:
infile = os.path.join(folder, infile)
outfile = os.path.join(folder, outfile)
if os.path.exists(infile):
if os.path.exists(outfile):
os.unlink(outfile)
if "link" in dir(os):
os.link(infile, outfile)
else:
shutil.copy(infile, outfile)
else:
print("Skipping copy of %s -> %s which is missing" % (infile, outfile))
cmdclass = {}
# ################ #
# pyFAI extensions #
# ################ #
def check_cython():
"""
Check if cython must be activated fron te command line or the environment.
"""
if "WITH_CYTHON" in os.environ and os.environ["WITH_CYTHON"] == "False":
print("No Cython requested by environment")
return False
if ("--no-cython" in sys.argv):
sys.argv.remove("--no-cython")
os.environ["WITH_CYTHON"] = "False"
print("No Cython requested by command line")
return False
try:
import Cython.Compiler.Version
except ImportError:
return False
else:
if Cython.Compiler.Version.version < "0.17":
return False
return True
def check_openmp():
"""
Do we compile with OpenMP ?
"""
if "WITH_OPENMP" in os.environ and os.environ["WITH_OPENMP"] == "False":
print("No OpenMP requested by environment")
return False
if ("--no-openmp" in sys.argv):
sys.argv.remove("--no-openmp")
os.environ["WITH_OPENMP"] = "False"
print("No OpenMP requested by command line")
return False
return True
CYTHON = check_cython()
openmp = "openmp" if check_openmp() else ""
def Extension(name, source=None, extra_sources=None, **kwargs):
"""
Wrapper for distutils' Extension
"""
if source is None:
source = name
cython_c_ext = ".pyx" if CYTHON else ".c"
sources = [os.path.join("src", source + cython_c_ext)]
if extra_sources:
sources.extend(extra_sources)
if "include_dirs" in kwargs:
include_dirs = set(kwargs.pop("include_dirs"))
include_dirs.add(numpy.get_include())
include_dirs = list(include_dirs)
else:
include_dirs = [numpy.get_include()]
return _Extension(name=name, sources=sources, include_dirs=include_dirs, **kwargs)
ext_modules = [
Extension("_geometry",
extra_compile_args=[openmp],
extra_link_args=[openmp]),
Extension("reconstruct",
extra_compile_args=[openmp],
extra_link_args=[openmp]),
Extension('splitPixel'),
Extension('splitPixelFull'),
Extension('splitPixelFullLUT'),
Extension('splitPixelFullLUT_double'),
Extension('splitBBox'),
Extension('splitBBoxLUT',
extra_compile_args=[openmp],
extra_link_args=[openmp]),
Extension('splitBBoxCSR',
extra_compile_args=[openmp],
extra_link_args=[openmp]),
Extension('splitPixelFullCSR',
extra_compile_args=[openmp],
extra_link_args=[openmp]),
Extension('relabel'),
Extension("bilinear",
extra_compile_args=[openmp],
extra_link_args=[openmp]),
Extension('_distortion',
extra_compile_args=[openmp],
extra_link_args=[openmp]),
Extension('_distortionCSR',
extra_compile_args=[openmp],
extra_link_args=[openmp]),
Extension('_bispev',
extra_compile_args=[openmp],
extra_link_args=[openmp]),
Extension('_convolution',
extra_compile_args=[openmp],
extra_link_args=[openmp]),
Extension('_blob'),
Extension('morphology'),
Extension('marchingsquares')
]
if (os.name == "posix") and ("x86" in platform.machine()):
ext_modules.append(
Extension('fastcrc', extra_sources=[os.path.join("src", "crc32.c")])
)
if openmp == "openmp":
copy('histogram_omp.pyx', 'histogram.pyx', "src")
copy('histogram_omp.c', 'histogram.c', "src")
ext_modules.append(Extension('histogram',
extra_compile_args=[openmp],
extra_link_args=[openmp]))
else:
copy('histogram_nomp.pyx', 'histogram.pyx', "src")
copy('histogram_nomp.c', 'histogram.c', "src")
ext_modules.append(Extension('histogram'))
if CYTHON:
from Cython.Build import cythonize
ext_modules = cythonize(ext_modules)
class build_ext_pyFAI(build_ext):
"""
We subclass the build_ext class in order to handle compiler flags
for openmp and opencl etc in a cross platform way
"""
translator = {
# Compiler
# name, compileflag, linkflag
'msvc': {
'openmp': ('/openmp', ' '),
'debug': ('/Zi', ' '),
'OpenCL': 'OpenCL',
},
'mingw32': {
'openmp': ('-fopenmp', '-fopenmp'),
'debug': ('-g', '-g'),
'stdc++': 'stdc++',
'OpenCL': 'OpenCL'
},
'default': {
'openmp': ('-fopenmp', '-fopenmp'),
'debug': ('-g', '-g'),
'stdc++': 'stdc++',
'OpenCL': 'OpenCL'
}
}
def build_extensions(self):
print("Compiler: %s" % self.compiler.compiler_type)
if self.compiler.compiler_type in self.translator:
trans = self.translator[self.compiler.compiler_type]
else:
trans = self.translator['default']
for e in self.extensions:
e.extra_compile_args = [trans[arg][0] if arg in trans else arg
for arg in e.extra_compile_args]
e.extra_link_args = [trans[arg][1] if arg in trans else arg
for arg in e.extra_link_args]
e.libraries = filter(None, [trans[arg] if arg in trans else None
for arg in e.libraries])
# If you are confused look here:
# print e, e.libraries
# print e.extra_compile_args
# print e.extra_link_args
build_ext.build_extensions(self)
cmdclass['build_ext'] = build_ext_pyFAI
# ############################# #
# scripts and data installation #
# ############################# #
installDir = "pyFAI"
data_files = [(installDir, glob.glob("openCL/*.cl")),
(os.path.join(installDir, "gui"), glob.glob("gui/*.ui")),
(os.path.join(installDir, "calibration"), glob.glob("calibration/*.D"))]
if sys.platform == "win32":
# This is for mingw32/gomp
if tuple.__itemsize__ == 4:
data_files[0][1].append(os.path.join("dll", "pthreadGC2.dll"))
root = os.path.dirname(os.path.abspath(__file__))
tocopy_files = []
script_files = []
for i in os.listdir(os.path.join(root, "scripts")):
if os.path.isfile(os.path.join(root, "scripts", i)):
if i.endswith(".py"):
script_files.append(os.path.join("scripts", i))
else:
tocopy_files.append(os.path.join("scripts", i))
for i in tocopy_files:
filein = os.path.join(root, i)
if (filein + ".py") not in script_files:
shutil.copyfile(filein, filein + ".py")
script_files.append(filein + ".py")
else:
script_files = glob.glob("scripts/*")
class smart_install_data(install_data):
def run(self):
global installDir
install_cmd = self.get_finalized_command('install')
# self.install_dir = join(getattr(install_cmd,'install_lib'), "data")
self.install_dir = getattr(install_cmd, 'install_lib')
print("DATA to be installed in %s" % self.install_dir)
installDir = os.path.join(self.install_dir, installDir)
return install_data.run(self)
cmdclass['install_data'] = smart_install_data
# #################################### #
# Test part and sdist with test images #
# #################################### #
def rewriteManifest(with_testimages=False):
"""
Rewrite the "Manifest" file ... if needed
@param with_testimages: include
"""
base = os.path.dirname(os.path.abspath(__file__))
manifest_in = os.path.join(base, "MANIFEST.in")
if not os.path.isfile(manifest_in):
print("%s file is missing !!!" % manifest_in)
return
with open(manifest_in) as f:
manifest = [line.strip() for line in f]
# get rid of all test images in the manifest_in
manifest_new = [line for line in manifest
if not line.startswith("include test/testimages")]
# add the testimages if required
if with_testimages:
testimages = ["include test/testimages/" + image for image in
os.listdir(os.path.join(base, "test", "testimages"))]
manifest_new.extend(testimages)
if manifest_new != manifest:
with open(manifest_in, "w") as f:
f.write(os.linesep.join(manifest_new))
# remove MANIFEST: will be re generated !
if os.path.isfile("MANIFEST"):
os.unlink("MANIFEST")
if ("sdist" in sys.argv):
if ("--with-testimages" in sys.argv):
sys.argv.remove("--with-testimages")
test_dir = os.path.join(os.path.dirname(os.path.abspath(__file__)), "test")
sys.path.insert(0, test_dir)
from utilstest import UtilsTest
UtilsTest.download_images()
rewriteManifest(with_testimages=True)
else:
rewriteManifest(with_testimages=False)
class PyTest(Command):
user_options = []
def initialize_options(self):
pass
def finalize_options(self):
pass
def run(self):
os.chdir("test")
errno = subprocess.call([sys.executable, 'test_all.py'])
if errno != 0:
raise SystemExit(errno)
else:
os.chdir("..")
cmdclass['test'] = PyTest
# ################### #
# build_doc commandes #
# ################### #
try:
import sphinx
import sphinx.util.console
sphinx.util.console.color_terminal = lambda: False
from sphinx.setup_command import BuildDoc
except ImportError:
sphinx = None
if sphinx:
class build_doc(BuildDoc):
def run(self):
# make sure the python path is pointing to the newly built
# code so that the documentation is built on this and not a
# previously installed version
build = self.get_finalized_command('build')
sys.path.insert(0, os.path.abspath(build.build_lib))
# Copy gui files to the path:
dst = os.path.join(os.path.abspath(build.build_lib), "pyFAI", "gui")
if not os.path.isdir(dst):
os.makedirs(dst)
for i in os.listdir("gui"):
if i.endswith(".ui"):
src = os.path.join("gui", i)
idst = os.path.join(dst, i)
if not os.path.exists(idst):
shutil.copy(src, idst)
# Build the Users Guide in HTML and TeX format
for builder in ('html', 'latex'):
self.builder = builder
self.builder_target_dir = os.path.join(self.build_dir, builder)
self.mkpath(self.builder_target_dir)
BuildDoc.run(self)
sys.path.pop(0)
cmdclass['build_doc'] = build_doc
# get the version without importing pyFAI
def get_version():
with open(os.path.join(os.path.dirname(os.path.abspath(__file__)),
"pyFAI-src", "__init__.py")) as f:
for line in f:
if line.strip().startswith("version"):
return eval(line.split("=")[1])
classifiers = """\
Development Status :: 5 - Production/Stable
Intended Audience :: Developers
License :: OSI Approved :: GPL
Programming Language :: Python
Topic :: Crystallography
Topic :: Software Development :: Libraries :: Python Modules
Operating System :: Microsoft :: Windows
Operating System :: Unix
Operating System :: MacOS :: MacOS X
Operating System :: POSIX
"""
setup(name='pyFAI',
version=get_version(),
author="Jérôme Kieffer (python), \
Peter Boesecke (geometry), Manuel Sanchez del Rio (algorithm), \
Vicente Armando Sole (algorithm), \
Dimitris Karkoulis (GPU), Jon Wright (adaptations) \
and Frederic-Emmanuel Picca",
author_email="jerome.kieffer@esrf.fr",
description='Python implementation of fast azimuthal integration',
url="https://github.com/kif/pyFAI",
download_url="http://forge.epn-campus.eu/projects/azimuthal/files",
ext_package="pyFAI",
scripts=script_files,
ext_modules=ext_modules,
packages=["pyFAI"],
package_dir={"pyFAI": "pyFAI-src"},
test_suite="test",
cmdclass=cmdclass,
data_files=data_files,
classifiers=filter(None, classifiers.split("\n")),
long_description="""PyFAI is an azimuthal integration library that tries to be fast (as fast as C
and even more using OpenCL and GPU).
It is based on histogramming of the 2theta/Q positions of each (center of)
pixel weighted by the intensity of each pixel, but parallel version use a
SparseMatrix-DenseVector multiplication.
Neighboring output bins get also a contribution of pixels next to the border
thanks to pixel splitting.
Finally pyFAI provides also tools to calibrate the experimental setup using Debye-Scherrer
rings of a reference compound.
""",
license="GPL"
)
# ########################################### #
# Check for Fabio to be present of the system #
# ########################################### #
try:
import fabio
except ImportError:
print("""pyFAI needs fabIO for all image reading and writing.
This python module can be found on:
http://sourceforge.net/projects/fable/files/fabio""")
try:
import pyopencl
except ImportError:
print("""pyFAI can use pyopencl to run on parallel accelerators like GPU; this is an optional dependency.
This python module can be found on:
http://pypi.python.org/pypi/pyopencl
""")
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