<commit_before>#!/usr/bin/env python
# Written by <NAME> with help from Soo Lee
# This code was originally based off of the straw project by <NAME> and
# <NAME> (https://github.com/theaidenlab/straw). The cooler file writing was
# based off of much of the CLI code contained in this
# repo: https://github.com/mirnylab/cooler.

from setuptools import setup

requires = [
    'h5py',
    'numpy'
]

tests_require = [
    'cooler'
]

this_version = open("hic2cool/_version.py").readlines()[-1].split()[-1].strip("\"'")

setup(
    name = "hic2cool",
    version = this_version,
    description = """
        CLI for a converter between .hic files (from juicer) and .cool files (for cooler). Both hic and cool files describe Hi-C contact matrices. Intended to be lightweight, this is a stand-alone Python file written by <NAME> and directed by Soo Lee of the HMS DBMI Park lab.
        """,
    url = "https://github.com/4dn-dcic/hic2cool",
    download_url = "https://github.com/4dn-dcic/hic2cool/tarball/" + this_version,
    author = "<NAME>",
    author_email = "<EMAIL>",
    license = "MIT",
    keywords = ["bioinformatics", "genomics", "hi-c", "juicer", "cooler", "contact-matrix", "file-format"],
    packages = ['hic2cool'],
    install_requires = requires,
    test_require = ['cooler'],<commit_msg>Setup description change<commit_after>#!/usr/bin/env python
# Written by <NAME> with help from Soo Lee
# This code was originally based off of the straw project by <NAME> and
# <NAME> (https://github.com/theaidenlab/straw). The cooler file writing was
# based off of much of the CLI code contained in this
# repo: https://github.com/mirnylab/cooler.

from setuptools import setup

requires = [
    'h5py',
    'numpy'
]

tests_require = [
    'cooler'
]

this_version = open("hic2cool/_version.py").readlines()[-1].split()[-1].strip("\"'")

setup(
    name = "hic2cool",
    version = this_version,
    description = """
        CLI for a converter between .hic files (from juicer) and .cool files (for cooler).  Both hic and cool files describe Hi-C contact matrices. Intended to be lightweight, this can be used as a simple imported package or a stand-alone Python file. Written by <NAME> and directed by <NAME> of the HMS DBMI Park lab.
        """,
    url = "https://github.com/4dn-dcic/hic2cool",
    download_url = "https://github.com/4dn-dcic/hic2cool/tarball/" + this_version,
    author = "<NAME>",
    author_email = "<EMAIL>",
    license = "MIT",
    keywords = ["bioinformatics", "genomics", "hi-c", "juicer", "cooler", "contact-matrix", "file-format"],
    packages = ['hic2cool'],
    install_requires = requires,
    test_require = ['cooler'],
{'fraction_non_alphanumeric': 0.1413573303337083, 'fraction_numerical': 0.0074990626171728535, 'mean_word_length': 3.5684931506849313, 'pattern_counts': {'":': 0, '<': 16, '<?xml version=': 0, '>': 16, 'https://': 8, 'lorem ipsum': 0, 'www.': 0, 'xml': 0}, 'pii_count': 0, 'substrings_counts': 0, 'word_list_counts': {'cursed_substrings.json': 2, 'profanity_word_list.json': 0, 'sexual_word_list.json': 0, 'zh_pornsignals.json': 0}}
{'dir': 'git-commits-cleaned', 'id': '4504050', 'n_tokens_mistral': 900, 'n_tokens_neox': 856, 'n_words': 272}