setup.py

import os
import re
import sys
import platform
import subprocess

from setuptools import setup, Extension
from setuptools.command.build_ext import build_ext
from distutils.version import LooseVersion

# Convert distutils Windows platform specifiers to CMake -A arguments
PLAT_TO_CMAKE = {
    "win32": "Win32",
    "win-amd64": "x64",
    "win-arm32": "ARM",
    "win-arm64": "ARM64",
}

class CMakeExtension(Extension):
    def __init__(self, name, sourcedir=''):
        Extension.__init__(self, name, sources=[])
        self.sourcedir = os.path.abspath(sourcedir)

class CMakeBuild(build_ext):
    def build_extension(self, ext):
        extdir = os.path.abspath(os.path.dirname(self.get_ext_fullpath(ext.name)))

        # Required for auto-detection of auxiliary "native" libs
        if not extdir.endswith(os.path.sep):
            extdir += os.path.sep

        cfg = 'Debug' if self.debug else 'Release'

        # Get generator info (CMake lets you override generator)
        cmake_generator = os.environ.get("CMAKE_GENERATOR", "")

        cmake_args = [
            "-DCMAKE_LIBRARY_OUTPUT_DIRECTORY={}".format(extdir),
            "-DPYTHON_EXECUTABLE={}".format(sys.executable),
            "-DEXAMPLE_VERSION_INFO={}".format(self.distribution.get_version()),
            "-DCMAKE_BUILD_TYPE={}".format(cfg),  # Not used on MSVC
            "-DUSER_INCLUDE_PATH=./src/DSGRN/_dsgrn/include"
        ]

        build_args = ['--config', cfg]

        if self.compiler.compiler_type == "msvc":
            # Single config generators are handled normally
            single_config = any(x in cmake_generator for x in {"NMake", "Ninja"})

            # CMake allows an arch-in-generator style for backward compatibility
            contains_arch = any(x in cmake_generator for x in {"ARM", "Win64"})

            # Specify the arch if using MSVC generator, but only if it doesn't
            # contain a backward-compatibility arch spec in the generator name
            if not single_config and not contains_arch:
                cmake_args += ["-A", PLAT_TO_CMAKE[self.plat_name]]

            # Multi-config generators have a different way to specify configs
            if not single_config:
                cmake_args += [
                    "-DCMAKE_LIBRARY_OUTPUT_DIRECTORY_{}={}".format(cfg.upper(), extdir)
                ]
                build_args += ["--config", cfg]

        if not os.path.exists(self.build_temp):
            os.makedirs(self.build_temp)

        env = os.environ.copy()
        env['CXXFLAGS'] = '{} -DVERSION_INFO=\\"{}\\"'.format(env.get('CXXFLAGS', ''),
                                                              self.distribution.get_version())

        subprocess.check_call(['cmake', ext.sourcedir] + cmake_args, cwd=self.build_temp, env=env)
        subprocess.check_call(['cmake', '--build', '.'] + build_args, cwd=self.build_temp)

# Read the contents of README.md file
this_directory = os.path.abspath(os.path.dirname(__file__))
with open(os.path.join(this_directory, 'README.md'), encoding='utf-8') as f:
    long_description = f.read()

setup(
    name='DSGRN',
    version='1.4.0',
    author='Marcio Gameiro',
    author_email='marciogameiro@gmail.com',
    description='DSGRN (Dynamic Signatures Generated by Regulatory Networks)',
    long_description=long_description,
    long_description_content_type='text/markdown',
    package_dir = {'': 'src'},
    ext_package='DSGRN',
    ext_modules=[CMakeExtension('_dsgrn')],
    packages=['DSGRN'],
    entry_points={'console_scripts': ['Signatures=DSGRN.Signatures:main [MPI]']},
    cmdclass=dict(build_ext=CMakeBuild),
    zip_safe=False,
    url = 'https://github.com/marciogameiro/DSGRN',
    include_package_data = True,
    install_requires=['scipy', 'matplotlib', 'numpy', 'graphviz', 'progressbar2', 'jupyter', 'pychomp2'],
    extras_require={
        'MPI':  ["mpi4py"]
    }
)