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setup.py
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setup.py
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#! /usr/bin/env python
import sys
import re
import os
extra = {}
try:
from setuptools import setup
if sys.version_info < (2, 7):
extra['install_requires'] = ['argparse']
if sys.version_info >= (3,):
extra['use_2to3'] = True
except ImportError:
from distutils.core import setup
if sys.version_info < (2, 7):
extra['dependencies'] = ['argparse']
setup(
name="pipelines",
packages=["pipelines"],
version="0.1",
description="Pipelines in Python.",
long_description=open('README.md').read(),
classifiers=[
"Development Status :: 3 - Alpha",
"License :: OSI Approved :: GNU General Public License v2 or later (GPLv2+)",
"Programming Language :: Python :: 2.7",
"Topic :: Scientific/Engineering :: Bio-Informatics"
],
keywords="bioinformatics, sequencing, ngs, ChIP-seq, DNase-seq, ATAC-Seq",
url="https://github.com/afrendeiro/pipelines",
author=u"Andre Rendeiro",
author_email="arendeiro@cemm.oeaw.ac.at",
license="GPL2",
install_requires=["pyyaml", "numpy", "pandas"],
entry_points={
"console_scripts": [
'pipelines = pipelines.pipelines:main',
'chipseq-pipeline = pipelines.chipseq:main',
'atacseq-pipeline = pipelines.atacseq:main',
'quantseq-pipeline = pipelines.quantseq:main'
],
},
scripts=[
"lib/shift_reads.py",
"lib/fix_bedfile_genome_boundaries.py",
"lib/get5primePosition.py",
"lib/spp_peak_calling.R"
],
data_files=[(os.path.expanduser("~"), ['.pipelines_config.yaml'])],
include_package_data=True
)