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import os
import glob
import shutil
import sys
from setuptools import setup, find_packages
required_progs = ['nucmer', 'show-coords', 'show-snps', 'delta-filter']
found_all_progs = True
print('Checking MUMmer programs found in path:')
for program in required_progs:
if shutil.which(program) is None:
found_all_progs = False
found = ' NOT FOUND'
else:
found = ' OK'
print(found, program, sep='\t')
if not found_all_progs:
print('Cannot install because some programs from the MUMer package not found.', file=sys.stderr)
sys.exit(1)
setup(
name='pymummer',
version='0.10.3',
description='Wrapper for MUMmer',
packages = find_packages(),
author='Martin Hunt, Nishadi De Silva',
author_email='path-help@sanger.ac.uk',
url='https://github.com/sanger-pathogens/pymummer',
test_suite='nose.collector',
install_requires=['pyfastaq >= 3.10.0'],
tests_require=['nose >= 1.3'],
license='GPLv3',
classifiers=[
'Development Status :: 4 - Beta',
'Topic :: Scientific/Engineering :: Bio-Informatics',
'Programming Language :: Python :: 3 :: Only',
'License :: OSI Approved :: GNU General Public License v3 (GPLv3)',
],
)
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