setup.py

#!/usr/bin/env python
# Copyright 2019 The Johns Hopkins University Applied Physics Laboratory
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
#    http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.

# python setup.py sdist
# python setup.py bdist_wheel
# twine upload --skip-existing dist/*

__version__ = '1.1.0'

import os
import glob
import shutil

from setuptools import setup, find_packages, Extension

here = os.path.abspath(os.path.dirname(__file__))
def read(filename):
    with open(os.path.join(here, filename), 'r') as fh:
        return fh.read()

def read_list(filename):
    return [l for l in read(filename).split('\n')
              if l.strip() != '' and not l.startswith('#')]

# DP NOTE: Cannot use glob as there are multiple C files that are not used and
#          have compiler errors
#ndlib_files = glob.glob('spdb/c_lib/c_version/*.c')
ndlib_files = [
    'spdb/c_lib/c_version/filterCutout.c',
    'spdb/c_lib/c_version/filterCutoutOMP.c',
    'spdb/c_lib/c_version/locateCube.c',
    'spdb/c_lib/c_version/annotateCube.c',
    'spdb/c_lib/c_version/shaveCube.c',
    'spdb/c_lib/c_version/mergeCube.c',
    'spdb/c_lib/c_version/annotateEntityDense.c',
    'spdb/c_lib/c_version/shaveDense.c',
    'spdb/c_lib/c_version/exceptionDense.c',
    'spdb/c_lib/c_version/overwriteDense.c',
    'spdb/c_lib/c_version/zindex.c',
    'spdb/c_lib/c_version/recolorCube.c',
    'spdb/c_lib/c_version/zoomData.c',
    'spdb/c_lib/c_version/quicksort.c',
    'spdb/c_lib/c_version/isotropicBuild.c',
    'spdb/c_lib/c_version/addData.c',
    'spdb/c_lib/c_version/unique.c',
]
ndlib = Extension('spdb.c_lib.c_version.ndlib',
                  extra_link_args=['-fopenmp'],
                  extra_compile_args=['-fopenmp'],
                  include_dirs=['spdb/c_lib/c_version'],
                  sources=ndlib_files)

setup(
    name='spdb',
    version=__version__,
    packages=find_packages(),
    package_data={'spdb': ['spatialdb/dynamo/*.json']},
    url='https://github.com/jhuapl-boss/spdb',
    license="Apache Software License 2.0",
    long_description=read('README.md'),
    long_description_content_type='text/markdown',
    setup_requires=['wheel'],
    tests_require=read_list('requirements-test.txt'),
    install_requires=read_list('requirements.txt'),
    # DP NOTE: Not using libraries=[], for building a clib as it doesn't seem
    #          to support passing compile/link time libraries
    ext_modules = [ndlib],
    classifiers=[
        'Development Status :: 5 - Production/Stable',
        'License :: OSI Approved :: Apache Software License',
        'Programming Language :: Python :: 3.5',
    ],
    keywords=[
        'boss',
        'microns',
    ],
)