from setuptools import setup, find_packages, Extension
from setup_helper import SetupHelper
from Cython.Distutils import build_ext
name = "jcvi"
classifiers = [
'Development Status :: 4 - Beta',
'Intended Audience :: Science/Research',
'License :: OSI Approved :: BSD License',
'Programming Language :: Python',
'Programming Language :: Python :: 2',
'Topic :: Scientific/Engineering :: Bio-Informatics',
]
# Use the helper
h = SetupHelper(initfile="jcvi/__init__.py", readmefile="README.md")
h.check_version(name, majorv=2, minorv=7)
setup_dir = op.abspath(op.dirname(__file__))
requirements = [
x.strip() for x in open(op.join(setup_dir, 'requirements.txt'))
]
h.install_requirements(requires=["cython", "numpy"])
# Now these are available
# Start the show
ext_modules = [
Extension("jcvi.assembly.chic", ["jcvi/assembly/chic.pyx"],
include_dirs=[np.get_include()],
extra_compile_args=["-O3"]),
Extension("jcvi.formats.cblast", ["jcvi/formats/cblast.pyx"],
import versioneer
NAME = "goatools"
CLASSIFIERS = [
"Development Status :: 4 - Beta",
"Intended Audience :: Science/Research",
"License :: OSI Approved :: BSD License",
"Programming Language :: Python",
"Programming Language :: Python :: 2",
"Programming Language :: Python :: 3",
"Topic :: Scientific/Engineering :: Bio-Informatics",
]
# Use the helper
HLPR = SetupHelper(initfile="goatools/__init__.py", readmefile="README.md")
SETUP_DIR = op.abspath(op.dirname(__file__))
REQUIREMENTS = [
x.strip()
for x in open(op.join(SETUP_DIR, "requirements.txt")).readlines()
]
setup(
name=NAME,
version=versioneer.get_version(),
author=HLPR.author,
author_email=HLPR.email,
license=HLPR.license,
long_description=HLPR.long_description,
long_description_content_type="text/markdown",
name = 'treecut'
classifiers = [
'Development Status :: 4 - Beta',
'Intended Audience :: Science/Research',
'License :: OSI Approved :: BSD License',
'Programming Language :: Python',
'Programming Language :: Python :: 2',
'Topic :: Scientific/Engineering :: Bio-Informatics',
]
with open('requirements.txt') as f:
required = f.read().splitlines()
# Use the helper
h = SetupHelper(initfile="treecut/__init__.py", readmefile="README.md")
h.check_version(name, majorv=2, minorv=7)
setup(
name=name,
version=h.version,
author=h.author,
author_email=h.email,
license=h.license,
long_description=h.long_description,
packages=[name],
scripts=glob('scripts/*.py') + ["treecut.py"],
classifiers=classifiers,
url='http://github.com/tanghaibao/treecut',
description="Find nodes in hierarchical clustering that are statistically significant",
install_requires=required + ["ete2"],
from setuptools import setup, find_packages, Extension
from setup_helper import SetupHelper
name = "jcvi"
classifiers = [
'Development Status :: 4 - Beta',
'Intended Audience :: Science/Research',
'License :: OSI Approved :: BSD License',
'Programming Language :: Python',
'Programming Language :: Python :: 2',
'Topic :: Scientific/Engineering :: Bio-Informatics',
]
# Use the helper
h = SetupHelper(initfile="__init__.py", readmefile="README.md")
h.check_version(name, majorv=2, minorv=7)
h.install_requirements(requires=["cython", "numpy"])
# Now these are available
import numpy as np
from Cython.Distutils import build_ext
# Start the show
ext_modules = [
Extension("jcvi.assembly.chic", ["assembly/chic.pyx"],
include_dirs=[np.get_include()],
extra_compile_args=["-O3"]),
Extension("jcvi.formats.cblast", ["formats/cblast.pyx"],
extra_compile_args=["-O3"])
]
from setuptools import setup
from setup_helper import SetupHelper
name = "travis_example"
classifiers = [
'Development Status :: 1 - Planning',
'Intended Audience :: Other Audience',
'License :: OSI Approved :: BSD License',
'Programming Language :: Python',
'Programming Language :: Python :: 2',
'Programming Language :: Python :: 3',
'Topic :: Documentation',
]
# Use the helper
h = SetupHelper(initfile="src/travis_example/__init__.py",
readmefile="README.md")
setup_dir = op.abspath(op.dirname(__file__))
requirements = ['wget'] + [
x.strip()
for x in open(op.join(setup_dir, 'requirements.txt')).readlines()
]
setup(
name=name,
version=h.version,
author=h.author,
author_email=h.email,
license=h.license,
long_description=h.long_description,
packages=[
classifiers = [
'Development Status :: 4 - Beta',
'Intended Audience :: Science/Research',
'License :: OSI Approved :: BSD License',
'Programming Language :: Python',
'Programming Language :: Python :: 2',
'Topic :: Scientific/Engineering :: Bio-Informatics',
]
with open('requirements.txt') as f:
required = f.read().splitlines()
# Install Splithunter binary
subprocess.call("cd src && make -j 8 && cd ..", shell=True)
# Use the helper
h = SetupHelper(initfile=op.join(name, "__init__.py"), readmefile="README.md")
h.check_version(name, majorv=2, minorv=7)
setup(
name=name,
version=h.version,
author=h.author,
author_email=h.email,
license=h.license,
long_description=h.long_description,
packages=[name],
package_dir={name : name},
include_package_data=True,
package_data={name: ["data/*.*"]},
scripts=["splithunter_run.py", "splithunter_report.py"],
classifiers=classifiers,
name = "tredparse"
classifiers = [
'Development Status :: 4 - Beta',
'Intended Audience :: Science/Research',
'License :: OSI Approved :: BSD License',
'Programming Language :: Python',
'Programming Language :: Python :: 2',
'Topic :: Scientific/Engineering :: Bio-Informatics',
]
with open('requirements.txt') as f:
required = f.read().splitlines()
# Use the helper
h = SetupHelper(initfile="tredparse/__init__.py", readmefile="README.md")
h.check_version(name, majorv=2, minorv=7)
libssw_ext = {"sources": ["src/ssw.c"], "include_dirs": ["src"]}
setup(
name=name,
version=h.version,
author=h.author,
author_email=h.email,
license=h.license,
long_description=h.long_description,
packages=[name, "ssw"],
package_dir={'ssw': 'src', 'tredparse': 'tredparse'},
include_package_data=True,
package_data={name: ["data/*.*"]},