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setup.py
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setup.py
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#!/usr/bin/env python
# -*- coding: utf-8 -*-
#/*##########################################################################
#
# The fisx library for X-Ray Fluorescence
#
# Copyright (c) 2014-2023 European Synchrotron Radiation Facility
#
# This file is part of the fisx X-ray developed by V.A. Sole
#
# Permission is hereby granted, free of charge, to any person obtaining a copy
# of this software and associated documentation files (the "Software"), to deal
# in the Software without restriction, including without limitation the rights
# to use, copy, modify, merge, publish, distribute, sublicense, and/or sell
# copies of the Software, and to permit persons to whom the Software is
# furnished to do so, subject to the following conditions:
#
# The above copyright notice and this permission notice shall be included in
# all copies or substantial portions of the Software.
#
# THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR
# IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
# FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE
# AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
# LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM,
# OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN
# THE SOFTWARE.
#
#############################################################################*/
import glob
import os
import sys
from setuptools import setup, Extension
from setuptools.command.build_py import build_py
from setuptools.command.sdist import sdist
# check if cython is not to be used despite being present
def use_cython():
"""
Check if cython is disabled from the command line or the environment.
"""
if "WITH_CYTHON" in os.environ:
if os.environ["WITH_CYTHON"] in ["False", "0", 0]:
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
return True
if use_cython():
try:
from Cython.Distutils import build_ext
from Cython.Compiler.Version import version
if (version < "0.28.3") and (sys.version_info > (3, 7)):
build_ext = None
elif version < "0.17":
build_ext = None
except ImportError:
build_ext = None
else:
build_ext = None
import numpy
# deal with required data
#for the time being there is no doc directory
FISX_DATA_DIR = os.getenv("FISX_DATA_DIR")
FISX_DOC_DIR = os.getenv("FISX_DOC_DIR")
DISTUTILS = False
if FISX_DATA_DIR is None:
FISX_DATA_DIR = os.path.join('fisx', 'fisx_data')
else:
DISTUTILS = True
if FISX_DOC_DIR is None:
FISX_DOC_DIR = os.path.join('fisx', 'fisx_data')
else:
DISTUTILS = True
if DISTUTILS:
from distutils.command.install_data import install_data
def get_version():
"""Returns current version number from version.py file"""
dirname = os.path.dirname(os.path.abspath(__file__))
sys.path.insert(0, dirname)
import version
sys.path = sys.path[1:]
return version.strictversion
__version__ = get_version()
print("fisx X-Ray Fluorescence Toolkit %s\n" % __version__)
class smart_build_py(build_py):
def run (self):
toReturn = build_py.run(self)
global FISX_DATA_DIR
global FISX_DOC_DIR
global INSTALL_DIR
defaultDataPath = os.path.join('fisx', 'fisx_data')
defaultDocPath = os.path.join('fisx', 'fisx_data')
if (FISX_DATA_DIR == defaultDataPath) or\
(FISX_DOC_DIR == defaultDocPath):
#default, just make sure the complete path is there
install_cmd = self.get_finalized_command('install')
INSTALL_DIR = getattr(install_cmd, 'install_lib')
#packager should have given the complete path
#in other cases
if FISX_DATA_DIR == defaultDataPath:
FISX_DATA_DIR = os.path.join(INSTALL_DIR, FISX_DATA_DIR)
if FISX_DOC_DIR == defaultDocPath:
#default, just make sure the complete path is there
FISX_DOC_DIR = os.path.join(INSTALL_DIR, FISX_DOC_DIR)
target = os.path.join(self.build_lib, "fisx", "DataDir.py")
fid = open(target,'r')
content = fid.readlines()
fid.close()
fid = open(target,'w')
for line in content:
lineToBeWritten = line
if lineToBeWritten.startswith("FISX_DATA_DIR"):
lineToBeWritten = "FISX_DATA_DIR = r'%s'\n" % FISX_DATA_DIR
if line.startswith("FISX_DOC_DIR"):
lineToBeWritten = "FISX_DOC_DIR = r'%s'\n" % FISX_DOC_DIR
fid.write(lineToBeWritten)
fid.close()
if not DISTUTILS:
# package_data cannot deal with data files outside the package
fileList = glob.glob(os.path.join(topLevel, "fisx_data", "*.dat"))
fileList.append(os.path.join(topLevel, "changelog.txt"))
fileList.append(os.path.join(topLevel, "LICENSE"))
fileList.append(os.path.join(topLevel, "README.rst"))
fileList.append(os.path.join(topLevel, "TODO"))
target = os.path.join(self.build_lib, "fisx", "fisx_data")
if not os.path.exists(target):
os.mkdir(target)
dirname = os.path.dirname(os.path.relpath(__file__))
if not len(dirname):
dirname = "."
for src in fileList:
dest = os.path.join(target, os.path.basename(src))
print("copying %s to %s" % (src, dest))
self.copy_file(src, dest)
return toReturn
if DISTUTILS:
class smart_install_data(install_data):
def run(self):
global INSTALL_DIR
global FISX_DATA_DIR
global FISX_DOC_DIR
#need to change self.install_dir to the library dir
install_cmd = self.get_finalized_command('install')
self.install_dir = getattr(install_cmd, 'install_lib')
INSTALL_DIR = self.install_dir
print("fisx to be installed in %s" % self.install_dir)
return install_data.run(self)
topLevel = os.path.dirname(os.path.relpath(__file__))
if not len(topLevel):
topLevel = "."
if DISTUTILS:
fileList = glob.glob(os.path.join(topLevel, "fisx_data", "*.dat"))
fileList.append(os.path.join(topLevel, "changelog.txt"))
fileList.append(os.path.join(topLevel, "LICENSE"))
fileList.append(os.path.join(topLevel, "README.rst"))
fileList.append(os.path.join(topLevel, "TODO"))
data_files = [(FISX_DATA_DIR, fileList)]
else:
data_files = None
# actual build stuff
FORCE = False
cython_dir = os.path.join(topLevel, "python", "cython")
if build_ext:
#make sure everything is totally clean?
fileList = glob.glob(os.path.join(cython_dir, "*.cpp"))
fileList += glob.glob(os.path.join(cython_dir, "*.h"))
if FORCE:
for fname in fileList:
if os.path.exists(fname):
os.remove(fname)
#this does not work:
#src = glob.glob(os.path.join(cython_dir, "*pyx"))
multiple_pyx = os.path.join(cython_dir, "_fisx.pyx")
if os.path.exists(multiple_pyx):
try:
os.remove(multiple_pyx)
except Exception:
print("WARNING: Could not delete file. Assuming up-to-date.")
if not os.path.exists(multiple_pyx):
pyx = glob.glob(os.path.join(cython_dir, "*pyx"))
pyx = sorted(pyx, key=str.lower)
f = open(multiple_pyx, 'wb')
for fname in pyx:
inFile = open(fname, 'rb')
lines = inFile.readlines()
inFile.close()
for line in lines:
f.write(line)
f.close()
src = [multiple_pyx]
else:
inSrc = os.path.join(cython_dir, 'default', '_fisx.cpp')
inFile = open(inSrc, 'rb')
inLines = inFile.readlines()
inFile.close()
outSrc = os.path.join(cython_dir, '_fisx.cpp')
if os.path.exists(outSrc):
outFile = open(outSrc, 'rb')
outLines = outFile.readlines()
outFile.close()
if outLines != inLines:
os.remove(outSrc)
if not os.path.exists(outSrc):
outFile = open(outSrc, 'wb')
outFile.writelines(inLines)
outFile.close()
src = [outSrc]
src += glob.glob(os.path.join(topLevel,
'src', 'fisx_*.cpp'))
include_dirs = [numpy.get_include(),
os.path.join(topLevel, "src")]
if sys.platform == 'win32':
extra_compile_args = ['/EHsc']
extra_link_args = []
else:
extra_compile_args = []
extra_link_args = []
def buildExtension():
module = Extension(name="fisx._fisx",
sources=src,
include_dirs=include_dirs,
extra_compile_args=extra_compile_args,
extra_link_args=extra_link_args,
language="c++",
)
return module
ext_modules = [buildExtension()]
class sdist_debian(sdist):
"""
Tailor made sdist for debian
* remove auto-generated doc
* remove cython generated .c files
* remove cython generated .c files
* remove .bat files
* include .l man files
"""
@staticmethod
def get_debian_name():
name = "python-fisx_%s" % (__version__)
return name
def prune_file_list(self):
sdist.prune_file_list(self)
# this is for Cython files specifically: remove C & html files
search_root = topLevel
for root, _, files in os.walk(search_root):
for afile in files:
if os.path.splitext(afile)[1].lower() == ".pyx":
base_file = os.path.join(root, afile)[len(search_root) + 1:-4]
self.filelist.exclude_pattern(pattern=base_file + ".c")
self.filelist.exclude_pattern(pattern=base_file + ".cpp")
self.filelist.exclude_pattern(pattern=base_file + ".html")
def make_distribution(self):
self.prune_file_list()
sdist.make_distribution(self)
dest = self.archive_files[0]
dirname, basename = os.path.split(dest)
base, ext = os.path.splitext(basename)
while ext in [".zip", ".tar", ".bz2", ".gz", ".Z", ".lz", ".orig"]:
base, ext = os.path.splitext(base)
if ext:
dest = "".join((base, ext))
else:
dest = base
# sp = dest.split("-")
# base = sp[:-1]
# nr = sp[-1]
debian_arch = os.path.join(dirname, self.get_debian_name() + ".orig.tar.gz")
os.rename(self.archive_files[0], debian_arch)
self.archive_files = [debian_arch]
print("Building debian .orig.tar.gz in %s" % self.archive_files[0])
cmdclass = {'build_py': smart_build_py,
'debian_src': sdist_debian}
if DISTUTILS:
cmdclass['install_data'] = smart_install_data
if build_ext:
cmdclass['build_ext'] = build_ext
description = "Quantitative X-Ray Fluorescence Analysis Support Library"
with open("README.rst") as f:
long_description = f.read()
# tell distutils where to find the packages
package_dir = {"": "python"}
packages = ['fisx', 'fisx.tests']
classifiers = ["Development Status :: 5 - Production/Stable",
"Programming Language :: C++",
"Programming Language :: Python :: 2",
"Programming Language :: Python :: 3",
"Programming Language :: Cython",
"Environment :: Console",
"Intended Audience :: Developers",
"Intended Audience :: End Users/Desktop",
"Intended Audience :: Science/Research",
"License :: OSI Approved :: MIT License",
"Topic :: Software Development :: Libraries :: Python Modules",
"Operating System :: Microsoft :: Windows",
"Operating System :: Unix",
"Operating System :: MacOS :: MacOS X",
"Operating System :: POSIX",
"Topic :: Scientific/Engineering :: Chemistry",
"Topic :: Scientific/Engineering :: Physics"
]
install_requires = ["numpy"]
# cython is not mandatory to build because generated code is supplied
setup_requires = ["numpy"]
if __name__ == "__main__":
setup(
name='fisx',
version=__version__,
author="V. Armando Solé",
author_email="[email protected]",
description=description,
long_description=long_description,
license="MIT",
url="https://github.com/vasole/fisx",
download_url="https://github.com/vasole/fisx/archive/v%s.tar.gz" % __version__,
package_dir=package_dir,
packages=packages,
ext_modules=ext_modules,
data_files=data_files,
cmdclass=cmdclass,
classifiers=classifiers,
install_requires=install_requires,
setup_requires=setup_requires,
)