setup.py

import os
import re

from setuptools import find_packages, setup

# Read the contents of your README file
with open('README.md', encoding='utf-8') as f:
    long_description = f.read()


# Read the version from the __init__.py file
def read_version():
    with open(os.path.join('qim3d', '__init__.py'), encoding='utf-8') as f:
        version_file = f.read()
    version_match = re.search(r'^__version__ = ["\']([^"\']*)["\']', version_file, re.M)
    if version_match:
        return version_match.group(1)
    raise RuntimeError('Unable to find version string.')


setup(
    name='qim3d',
    version=read_version(),
    author='Felipe Delestro',
    author_email='fima@dtu.dk',
    description='QIM tools and user interfaces for volumetric imaging',
    long_description=long_description,
    long_description_content_type='text/markdown',
    url='https://platform.qim.dk/qim3d',
    packages=find_packages(),
    include_package_data=True,
    entry_points={'console_scripts': ['qim3d=qim3d.cli:main']},
    classifiers=[
        'License :: OSI Approved :: MIT License',
        'Programming Language :: Python :: 3',
        'Development Status :: 5 - Production/Stable',
        'Intended Audience :: Education',
        'Intended Audience :: Science/Research',
        'Natural Language :: English',
        'Operating System :: OS Independent',
        'Topic :: Scientific/Engineering :: Image Processing',
        'Topic :: Scientific/Engineering :: Visualization',
        'Topic :: Software Development :: User Interfaces',
    ],
    python_requires='>=3.10',
    install_requires=[
        'gradio==4.44',
        'h5py>=3.9.0',
        'localthickness>=0.1.2',
        'matplotlib>=3.8.0',
        'pydicom==2.4.4',
        'numpy>=1.26.0',
        'outputformat>=0.1.3',
        'Pillow>=10.0.1',
        'plotly>=5.14.1',
        'scipy>=1.11.2',
        'seaborn>=0.12.2',
        'setuptools>=68.0.0',
        'tifffile==2023.8.12',
        'imagecodecs==2023.7.10',
        'tqdm>=4.65.0',
        'nibabel>=5.2.0',
        'ipywidgets>=8.1.2',
        'dask>=2023.6.0',
        'k3d>=2.16.1',
        'olefile>=0.46',
        'psutil>=5.9.0',
        'structure-tensor>=0.2.1',
        'noise>=1.2.2',
        'zarr>=2.18.2',
        'ome_zarr>=0.9.0',
        'dask-image>=2024.5.3',
        'scikit-image>=0.24.0',
        'trimesh>=4.4.9',
    ],
    extras_require={
        'deep-learning': [
            'albumentations>=1.3.1',
            'torch>=2.0.1',
            'torchvision>=0.15.2',
            'torchinfo>=1.8.0',
            'monai>=1.2.0',
        ]
    },
)