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setup.py
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setup.py
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import os
import subprocess
from setuptools import setup
##########################
VERSION = "0.2"
ISRELEASED = False
__version__ = VERSION
##########################
def read_readme(fname):
return open(os.path.join(os.path.dirname(__file__), fname)).read()
##########################
# Function for determining current git commit
##########################
def git_version():
# Return the git revision as a string
# copied from numpy setup.py
def _minimal_ext_cmd(cmd):
# construct minimal environment
env = {}
for k in ['SYSTEMROOT', 'PATH']:
v = os.environ.get(k)
if v is not None:
env[k] = v
# LANGUAGE is used on win32
env['LANGUAGE'] = 'C'
env['LANG'] = 'C'
env['LC_ALL'] = 'C'
out = subprocess.Popen(
cmd, stdout=subprocess.PIPE, env=env).communicate()[0]
return out
try:
out = _minimal_ext_cmd(['git', 'rev-parse', 'HEAD'])
GIT_REVISION = out.strip().decode('ascii')
except OSError:
GIT_REVISION = 'Unknown'
return GIT_REVISION
##########################
# Function for writing version.py (this will be copied to the install directory)
##########################
targetexplorer_version_filepath = 'targetexplorer/version.py'
def write_version_py(filename=targetexplorer_version_filepath):
cnt = """# THIS FILE IS GENERATED FROM TARGETEXPLORER SETUP.PY
short_version = '%(version)s'
version = '%(version)s'
full_version = '%(full_version)s'
git_revision = '%(git_revision)s'
release = %(isrelease)s
if not release:
version = full_version
"""
# Adding the git rev number needs to be done inside write_version_py(),
# otherwise the import of numpy.version messes up the build under Python 3.
FULLVERSION = VERSION
if os.path.exists('.git'):
GIT_REVISION = git_version()
else:
GIT_REVISION = 'Unknown'
if not ISRELEASED:
FULLVERSION += '.dev-' + GIT_REVISION[:7]
a = open(filename, 'w')
try:
a.write(cnt % {'version': VERSION,
'full_version': FULLVERSION,
'git_revision': GIT_REVISION,
'isrelease': str(ISRELEASED)})
finally:
a.close()
##########################
# Find packages
##########################
def find_packages():
"""Find all of TargetExplorer's python packages.
Adapted from IPython's setupbase.py. Copyright IPython
contributors, licensed under the BSD license.
"""
packages = []
for dir, subdirs, files in os.walk('targetexplorer'):
package = dir.replace(os.path.sep, '.')
if '__init__.py' not in files:
# not a package
continue
packages.append(package)
return packages
##########################
# Setup
##########################
write_version_py()
setup(
name = 'targetexplorer',
version = __version__,
author = 'Daniel L Parton',
author_email = 'daniel.parton@choderalab.org',
description = 'Database framework for storing genomic, structural and functional data for a target protein family, with RESTful API.',
license='GPLv2',
long_description = read_readme('README.md'),
packages = find_packages(),
package_data = {
'targetexplorer': [
'resources/structures/*', 'resources/*.gz', 'resources/*.py', 'resources/*.yaml',
'resources/testdir'
]
},
scripts = ['scripts/DoraInit.py', 'scripts/DoraGatherUniProt.py', 'scripts/DoraGatherPDB.py', 'scripts/DoraGatherNCBIGene.py', 'scripts/DoraGatherBindingDB.py', 'scripts/DoraGathercBioPortal.py', 'scripts/DoraCommit.py'],
entry_points = {'nose.plugins.0.10':
[
'setup_tmp_db_plugin = targetexplorer.tests.noseplugins:SetUpTmpDbPlugin'
]
},
# data_files = [('', ['LICENSE']), ('templates', ['template-wsgi.py'])],
)
# Delete version.py file from this directory
os.remove(targetexplorer_version_filepath)