setup.py

import codecs
import os.path

from setuptools import find_packages
from setuptools import setup

with open("README.md", encoding="UTF-8") as fh:
    long_description = fh.read()


def read(rel_path):
    here = os.path.abspath(os.path.dirname(__file__))
    with codecs.open(os.path.join(here, rel_path), "r") as fp:
        return fp.read()


def get_version(rel_path):
    for line in read(rel_path).splitlines():
        if line.startswith("__version__"):
            delim = '"' if '"' in line else "'"
            return line.split(delim)[1]
    raise RuntimeError("Unable to find version string.")


setup(
    name="sdrf-pipelines",
    version=get_version("sdrf_pipelines/__init__.py"),
    author="BigBio Team",
    author_email="ypriverol@gmail.com",
    description="Translate, convert SDRF to configuration pipelines",
    long_description_content_type="text/markdown",
    long_description=long_description,
    license="'Apache 2.0",
    data_files=[("", ["LICENSE", "sdrf_pipelines/openms/unimod.xml", "sdrf_pipelines/sdrf_merge/param2sdrf.yml"])],
    package_data={
        "sdrf-pipelines": ["*.xml", "*.parquet", "*.yml"],
        "sdrf_pipelines": ["*.xml", "*.parquet", "*.yml"],
    },
    url="https://github.com/bigbio/sdrf-pipelines",
    packages=find_packages(),
    install_requires=[
        "click",
        "pandas",
        "pandas_schema",
        "requests",
        "pytest",
        "pyyaml",
        "defusedxml",
        "pyarrow",
        "duckdb",
        "rdflib",
        "setuptools",
    ],
    entry_points={"console_scripts": ["parse_sdrf = sdrf_pipelines.parse_sdrf:main"]},
    platforms=["any"],
    classifiers=[
        "Programming Language :: Python :: 3",
        "License :: OSI Approved :: Apache Software License",
        "Operating System :: OS Independent",
        "Topic :: Scientific/Engineering :: Bio-Informatics",
    ],
    keywords="sdrf python multiomics proteomics",
    include_package_data=True,
    python_requires=">=3.8",
)