setup.py

#!/usr/bin/env python3
import sys

from setuptools import setup
from setuptools.command.test import test as TestCommand


# Load version
exec(open("transcriptic/version.py").read())


# Test Runner (reference: https://docs.pytest.org/en/latest/goodpractices.html)
class PyTest(TestCommand):
    user_options = [("pytest-args=", "a", "Arguments to pass to pytest")]

    def initialize_options(self):
        TestCommand.initialize_options(self)
        self.pytest_args = "--cov=transcriptic --cov-report=term"

    def run_tests(self):
        import shlex

        # import here, cause outside the eggs aren't loaded
        import pytest

        errno = pytest.main(shlex.split(self.pytest_args))
        sys.exit(errno)


# Test and Documentation dependencies
test_deps = [
    "coverage>=4.5, <5",
    "jsonschema>=2.6, <3",
    "mock>=3, <4",
    "pre-commit>=2.4, <3",
    "pylint==2.5.2",  # should be consistent with .pre-commit-config.yaml
    "pytest>=5.4, <6",
    "pytest-cov>=2, <3",
    "tox>=3.15, <4",
    "responses>=0.13.4",
]

doc_deps = [
    "Sphinx>=2.4, <3",
    "mock>=3, <4",
    "releases>=1.6.3, <2",
    "sphinx_rtd_theme>=0.4.3, <1",
]

# Extra module dependencies
jupyter_deps = ["pandas>=1, <2", "responses>=0.12.0,<1", "jupyter>=1.0.0, <2"]

analysis_deps = [
    "autoprotocol>=7.6.1,<8",
    "matplotlib>=3,<4",
    # Version 1.21 upwards only support Python >= 3.7
    "numpy>=1.14,<=1.20.3",
    "pandas>=1,<2",
    "pillow>=8,<9",
    "plotly>=1.13,<2",
]


setup(
    name="transcriptic",
    description="Transcriptic CLI & Python Client Library",
    url="https://github.com/transcriptic/transcriptic",
    version=__version__,  # pylint: disable=undefined-variable
    packages=["transcriptic", "transcriptic.jupyter", "transcriptic.analysis"],
    include_package_data=True,
    tests_require=test_deps,
    python_requires=">=3.6",
    install_requires=[
        "Click>=7.0,<8",
        "httpsig==1.3.0",
        "requests>2.21.0,<3",
        "pycryptodome==3.9.6",
        "python-magic>=0.4,<1",
        "Jinja2>=3.0,<4",
        "responses>=0.13.4",
    ],
    extras_require={
        "jupyter": jupyter_deps,
        "analysis": analysis_deps,
        "docs": doc_deps,
        "test": test_deps,
    },
    cmdclass={"pytest": PyTest},
    entry_points="""
        [console_scripts]
        transcriptic=transcriptic.cli:cli
    """,
    license="BSD",
    classifiers=[
        "Development Status :: 5 - Production/Stable",
        "Intended Audience :: Developers",
        "Intended Audience :: Science/Research",
        "Operating System :: MacOS :: MacOS X",
        "Operating System :: Microsoft :: Windows",
        "Operating System :: Unix",
        "Programming Language :: Python",
        "Topic :: Scientific/Engineering",
        "Topic :: Software Development",
        "Programming Language :: Python :: 3.6",
        "Programming Language :: Python :: 3.7",
        "Programming Language :: Python :: 3.8",
        "Programming Language :: Python :: 3.9",
    ],
)