https://github.com/fenderglass/Ragout
Revision 15e9dbf968cefe0b4945eab1a3014836b5a726aa authored by fenderglass on 15 April 2014, 14:18:41 UTC, committed by fenderglass on 15 April 2014, 14:18:41 UTC
1 parent 0672c97
Tip revision: 15e9dbf968cefe0b4945eab1a3014836b5a726aa authored by fenderglass on 15 April 2014, 14:18:41 UTC
removed deprecated code
removed deprecated code
Tip revision: 15e9dbf
setup.py
import sys, os, stat
from setuptools import setup, find_packages, Extension
from glob import glob
from platform import uname
compile_args = ["-std=c++11"]
if uname()[0] == "Darwin": #a fix for buggy macos
compile_args.extend(["-stdlib=libc++", "-Qunused-arguments"])
coverlap = Extension("ragout.coverlap",
define_macros = [("PYTHON_LIB", 1)],
sources = glob("ragout/overlap/cpp_impl/*.cpp"),
extra_compile_args = compile_args)
cmaf2synteny = Extension("ragout.cmaf2synteny",
define_macros = [("PYTHON_LIB", 1)],
sources = glob("ragout/maf2synteny/cpp_impl/*.cpp"),
extra_compile_args = compile_args)
#local installation feature
script_args = sys.argv[1:]
INPLACE_EXEC = "ragout_local"
if "inplace" in script_args:
script_args = ["build_ext", "--inplace"]
with open(INPLACE_EXEC, "w") as f:
f.write("#!{0}\nimport ragout.main\nragout.main.main()"
.format(sys.executable))
st = os.stat(INPLACE_EXEC)
os.chmod(INPLACE_EXEC, st.st_mode | stat.S_IEXEC)
setup(
script_args = script_args,
name = "ragout",
version = "0.2b",
author = "Mikhail Kolmogorov",
author_email = "fenderglass@gmail.com",
description = "A tool for reference-assisted assembly",
license = "GPLv2",
keywords = "bioinformatics",
url = "http://github.com/fenderglass/Ragout",
packages = find_packages(),
long_description = open("README.md", "r").read(),
entry_points = {
"console_scripts" : [
"ragout = ragout.main:main",
"maf2synteny = ragout.maf2synteny.maf2synteny:main"
]
},
install_requires = ["biopython", "networkx"],
ext_modules = [coverlap, cmaf2synteny],
#package_data = {"" : glob("doc/*")},
#scripts = glob("scripts/*.py"),
#include_package_data=True
#classifiers=[
# "Development Status :: 3 - Alpha",
# "Topic :: Utilities",
# "License :: OSI Approved :: BSD License",
#],
)
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