setup.py

import os
from setuptools import setup, find_packages
import sys


DEBUG_BUILD = os.environ.get("SOURMASH_DEBUG") == "1"


def build_native(spec):
    cmd = ["cargo", "build", "--manifest-path", "src/core/Cargo.toml", "--lib"]

    target = "debug"
    if not DEBUG_BUILD:
        cmd.append("--release")
        target = "release"

    build = spec.add_external_build(cmd=cmd, path=".")

    rtld_flags = ["NOW"]
    if sys.platform == "darwin":
        rtld_flags.append("NODELETE")
    spec.add_cffi_module(
        module_path="sourmash._lowlevel",
        dylib=lambda: build.find_dylib("sourmash", in_path="target/%s" % target),
        header_filename=lambda: build.find_header("sourmash.h", in_path="include"),
        rtld_flags=rtld_flags,
    )


CLASSIFIERS = [
    "Environment :: Console",
    "Environment :: MacOS X",
    "Intended Audience :: Science/Research",
    "License :: OSI Approved :: BSD License",
    "Natural Language :: English",
    "Operating System :: POSIX :: Linux",
    "Operating System :: MacOS :: MacOS X",
    "Programming Language :: Rust",
    "Programming Language :: Python :: 3.7",
    "Programming Language :: Python :: 3.8",
    "Topic :: Scientific/Engineering :: Bio-Informatics",
]

CLASSIFIERS.append("Development Status :: 5 - Production/Stable")

with open("README.md", "r") as readme:
    LONG_DESCRIPTION = readme.read()

SETUP_METADATA = {
    "name": "sourmash",
    "description": "tools for comparing DNA sequences with MinHash sketches",
    "long_description": LONG_DESCRIPTION,
    "long_description_content_type": "text/markdown",
    "url": "https://github.com/dib-lab/sourmash",
    "author": "C. Titus Brown",
    "author_email": "titus@idyll.org",
    "license": "BSD 3-clause",
    "packages": find_packages(exclude=["tests", "benchmarks"]),
    "entry_points": {'console_scripts': [
        'sourmash = sourmash.__main__:main'
        ]
    },
    "install_requires": ['screed>=0.9', 'cffi>=1.14.0', 'numpy',
                         'matplotlib', 'scipy', 'deprecation>=2.0.6',
                         'cachetools >=4,<5'],
    "setup_requires": [
        "setuptools>=38.6.0",
        "milksnake",
        "setuptools_scm>=3.2.0",
        "setuptools_scm_git_archive",
    ],
    "use_scm_version": {
        "write_to": "sourmash/version.py",
        "git_describe_command": "git describe --dirty --tags --long --match v* --first-parent"
    },
    "zip_safe": False,
    "platforms": "any",
    "extras_require": {
        'test' : ['pytest', 'pytest-cov', 'recommonmark', 'hypothesis'],
        'demo' : ['jupyter', 'jupyter_client', 'ipython'],
        'doc' : ['sphinx', 'myst-parser[sphinx]>=0.12.2', 'alabaster',
                 "sphinxcontrib-napoleon", "nbsphinx",
                 "ipython"],
        '10x': ['bam2fasta==1.0.4'],
        'storage': ["ipfshttpclient>=0.4.13", "redis"]
    },
    "include_package_data": True,
    "classifiers": CLASSIFIERS,
    "milksnake_tasks": [build_native],
}

setup(**SETUP_METADATA)