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setup.py
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#!/usr/bin/env python3
# -*- coding: utf-8 -*-
# (c) The James Hutton Institute 2017-2019
# (c) University of Strathclyde 2019-2022
# Author: Leighton Pritchard
#
# Contact:
#
# Leighton Pritchard,
# Strathclyde Institute for Pharmacy and Biomedical Sciences,
# Cathedral Street,
# Glasgow,
# G1 1XQ
# Scotland,
# UK
#
# The MIT License
#
# Copyright (c) 2017-2019 The James Hutton Institute
# Copyright (c) 2019-2022 University of Strathclyde
#
# Permission is hereby granted, free of charge, to any person obtaining a copy
# of this software and associated documentation files (the "Software"), to deal
# in the Software without restriction, including without limitation the rights
# to use, copy, modify, merge, publish, distribute, sublicense, and/or sell
# copies of the Software, and to permit persons to whom the Software is
# furnished to do so, subject to the following conditions:
#
# The above copyright notice and this permission notice shall be included in
# all copies or substantial portions of the Software.
#
# THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR
# IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
# FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE
# AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
# LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM,
# OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN
# THE SOFTWARE.
"""Distribution setup."""
import sys
import re
import setuptools
from pathlib import Path
# try using distribute or setuptools or distutils.
try:
import distribute_setup
distribute_setup.use_setuptools()
except ImportError:
pass
# Get long description from README.md
with Path("README.md").open("r") as dfh:
long_description = dfh.read() # pyline: disable=C0103
# parse version from package/module without importing or evaluating the code
with Path("ncbi_cds_from_protein/__init__.py").open("r") as ifh:
for line in ifh:
print(line)
match = re.search(r'^__version__ = "(?P<version>[^"]+)"$', line)
if match:
version = match.group("version")
break
if sys.version_info <= (3, 6):
sys.stderr.write("ERROR: ncfp requires Python 3.7 or above (exiting).\n")
sys.exit(1)
setuptools.setup(
name="ncfp",
version=version,
author="Leighton Pritchard",
author_email="[email protected]",
description=" ".join(
[
"ncfp is a script and module that facilitates",
"recovery of nucleotide sequences from NCBI",
"encoding a specified set of input protein sequences",
]
),
long_description=long_description,
long_description_content_type="text/markdown",
license="MIT",
keywords="genome bioinformatics sequence",
platforms="Posix; MacOS X",
url="http://widdowquinn.github.io/ncfp/", # project home page
download_url="https://github.com/widdowquinn/ncfp/releases",
packages=["ncbi_cds_from_protein", "ncbi_cds_from_protein.scripts"],
package_data={},
include_package_date=True,
install_requires=["biopython", "bioservices", "tqdm"],
python_requires="~=3.5",
entry_points={
"console_scripts": ["ncfp = ncbi_cds_from_protein.scripts.ncfp:run_main"]
},
classifiers=[
"Development Status :: 4 - Beta",
"Environment :: Console",
"Intended Audience :: Science/Research",
"License :: OSI Approved :: MIT License",
"Natural Language :: English",
"Operating System :: MacOS :: MacOS X",
"Operating System :: POSIX :: Linux",
"Programming Language :: Python",
"Programming Language :: Python :: 3",
"Programming Language :: Python :: 3.6",
"Programming Language :: Python :: 3.7",
"Programming Language :: Python :: 3.8",
"Programming Language :: Python :: 3.9",
"Programming Language :: Python :: 3.10",
"Topic :: Scientific/Engineering :: Bio-Informatics",
],
)