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setup.py
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setup.py
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import os
import re
from setuptools import setup
def check_nonpython_dependencies():
"""
check that the non-python dependencies have been installed.
Raises:
OSError: A dependency is not installed
"""
import shutil
aligner = (
os.environ['MAVIS_ALIGNER']
if 'MAVIS_ALIGNER' in os.environ and os.environ['MAVIS_ALIGNER']
else 'blat'
)
aligner = re.split(r'\s+', aligner)[0]
pth = shutil.which(aligner)
if not pth:
print('WARNING: Aligner is required. Missing executable: {}'.format(aligner))
else:
print('Found: aligner at', pth)
setup()
check_nonpython_dependencies()