setup.py

#!/usr/bin/env python
# -*- coding: utf-8 -*-

"""The setup script."""

from setuptools import find_packages, setup

with open("README.md") as readme_file:
    readme = readme_file.read()

test_requirements = [
    "codecov",
    "flake8",
    "black",
    "pytest",
    "pytest-cov",
    "pytest-raises",
]

setup_requirements = [
    "pytest-runner",
]

dev_requirements = [
    "black==19.10b0",
    "bumpversion>=0.5.3",
    "coverage>=5.0a4",
    "flake8>=3.7.7",
    "ipython>=7.5.0",
    "m2r>=0.2.1",
    "pytest>=4.3.0",
    "pytest-cov==2.6.1",
    "pytest-raises>=0.10",
    "pytest-runner>=4.4",
    "Sphinx>=2.0.0b1,<3",
    "sphinx_rtd_theme>=0.4.3",
    "tox>=3.5.2",
    "twine>=1.13.0",
    "wheel>=0.33.1",
]

interactive_requirements = [
    "altair",
    "jupyterlab",
    "matplotlib",
]

requirements = [
    "aicsimageio[all]>=4.1.0",
    "matplotlib>=3.1.1",
    "numpy>=1.16.4",
    "Pillow>=5.2.0",
    "PyMCubes",
    "scikit-image>=0.15.0",
    "scikit-learn",
    "scikit-fmm>=2021.7.8",
    "scipy>=1.3.0",
    "vtk",
    "aics_dask_utils",
    "ome-zarr",
    "universal_pathlib==0.0.19",
    
]

extra_requirements = {
    "test": test_requirements,
    "setup": setup_requirements,
    "dev": dev_requirements,
    "interactive": interactive_requirements,
    "all": [
        *requirements,
        *test_requirements,
        *setup_requirements,
        *dev_requirements,
        *interactive_requirements
    ]
}

setup(
    author="AICS",
    author_email="!AICS_SW@alleninstitute.org",
    classifiers=[
        "Development Status :: 4 - Beta",
        "License :: Free for non-commercial use",
        "Natural Language :: English",
        "Programming Language :: Python :: 3.7",
        "Programming Language :: Python :: 3.8",
        "Programming Language :: Python :: 3.9",
        "Operating System :: POSIX :: Linux",
        "Operating System :: MacOS",
        "Topic :: Scientific/Engineering :: Bio-Informatics"
    ],
    description=(
        "A generalized scientific image processing module from the Allen Institute for "
        "Cell Science."
    ),
    entry_points={
        "console_scripts": [
            "make_thumbnail=aicsimageprocessing.bin.make_thumbnail:main",
            "make_atlas=aicsimageprocessing.bin.make_atlas:main",
        ],
    },
    install_requires=requirements,
    license="Allen Institute Software License",
    long_description=readme,
    long_description_content_type="text/markdown",
    include_package_data=True,
    keywords="aicsimageprocessing",
    name="aicsimageprocessing",
    packages=find_packages(exclude=["tests", "*.tests", "*.tests.*"]),
    python_requires=">=3.7",
    setup_requires=setup_requirements,
    test_suite="aicsimageprocessing/tests",
    tests_require=test_requirements,
    extras_require=extra_requirements,
    url="https://github.com/AllenCellModeling/aicsimageprocessing",
    # Do not edit this string manually, always use bumpversion
    # Details in CONTRIBUTING.rst
    version="0.8.3",
    zip_safe=False,
)