#setup cython code
import sys, os
from setuptools import setup, find_packages
from Cython.Build import cythonize
import numpy as np
import scipy as sp
#os.chdir('..') #move up one level
setup(name="pycompass",
install_requires=['Cython', 'scipy', 'mplstereonet', 'xmltodict'],
packages=find_packages(),
ext_modules=cythonize("pycompass/SNE/pdf.pyx"),
include_dirs=[np.get_include(), sp.get_include()])
from distutils.core import setup
from distutils.extension import Extension
from Cython.Distutils import build_ext
import numpy
import scipy
setup(cmdclass={'build_ext': build_ext},
ext_modules=[
Extension(
"py_signet",
sources=["py_signet.pyx"],
include_dirs=[
".",
numpy.get_include(),
scipy.get_include(), "/usr/local/include/"
],
language='c++',
extra_link_args=[
"-L/usr/local/lib/", "-lgsl", "-lgslcblas", "-lm"
],
),
])
from distutils.core import setup
from Cython.Build import cythonize
import scipy as sp
setup(name="Sumrules",
ext_modules=cythonize("lib/analytics.pyx", [sp.get_include()]))
except ImportError:
print('scipy is required for installation')
sys.exit(1)
try:
from Cython.Build import cythonize
except ImportError:
print('Cython is required for installation')
sys.exit(1)
#fast log loss
extensions = [
Extension(DISTNAME + ".loss_functions." + "fast_log_loss",
[DISTNAME + "/loss_functions/fast_log_loss.pyx"],
include_dirs=[numpy.get_include(),
scipy.get_include()],
extra_compile_args=["-ffast-math"]),
Extension(DISTNAME + ".loss_functions." + "lookup_log_loss",
[DISTNAME + "/loss_functions/lookup_log_loss.pyx"],
include_dirs=[numpy.get_include(),
scipy.get_include()],
extra_compile_args=["-ffast-math"])
]
if __name__ == "__main__":
old_path = os.getcwd()
local_path = os.path.dirname(os.path.abspath(sys.argv[0]))
os.chdir(local_path)
sys.path.insert(0, local_path)
from distutils.core import setup
from distutils.extension import Extension
from Cython.Distutils import build_ext
import numpy as np
import scipy
setup(
name='SparseGroupLasso',
ext_modules=[
Extension('group_lasso_fast', ['group_lasso_fast.pyx'],
include_dirs=[np.get_include(), scipy.get_include()])
],
cmdclass={'build_ext': build_ext}
)
#!/usr/bin/env python2 """ setup.py Author: Jonah Miller ([email protected]) Time-stamp: <2014-10-12 23:20:00 (jonah)> This program compiles the *.pyx file into a binary. If there are more files, we can add those too. """ from distutils.core import setup from distutils.extension import Extension from Cython.Distutils import build_ext import numpy,scipy # not necessary here, but included for example purposes import Cython import Cython.Compiler import Cython.Compiler.Options # An example of an option you might set: # Cython.Compiler.Options.buffer_max_dims = 9 setup( cmdclass = {'build_ext' : build_ext}, ext_modules = [Extension("pi_monte_carlo",["pi_monte_carlo.pyx"])], include_dirs=[numpy.get_include(),scipy.get_include()] # you don't need this for our simple example but I include it because you'll probably want it. )
from Cython.Build import cythonize
import numpy
import scipy
if sys.platform == "win32":
openmp = '/Qopenmp'
opti = '/O2'
march = "/march=native"
else:
openmp = "-fopenmp"
opti = "-O2"
march = "-march=native"
ext_modules = [
Extension("src.C_Extensions.sample", ["src/C_Extensions/sample.pyx"],
include_dirs=[".", scipy.get_include()],
extra_compile_args=[opti, march],
extra_link_args=[opti, march]),
Extension("src.C_Extensions.helper", ["src/C_Extensions/helper.pyx"],
include_dirs=[".", numpy.get_include()],
extra_compile_args=[openmp, opti, march],
extra_link_args=[openmp, opti, march]),
Extension("src.C_Extensions.Trans_cy", ["src/C_Extensions/Trans_cy.pyx"],
include_dirs=["src/C_Extensions",
numpy.get_include()]),
Extension("src.C_Extensions.Trans_cy_TKF91",
["src/C_Extensions/Trans_cy_TKF91.pyx"],
include_dirs=["src/C_Extensions", ".",
numpy.get_include()]),
Extension("src.C_Extensions.algorithms_cython",
sources=[
for clean_path in self._clean_tree:
try:
shutil.rmtree(clean_path)
except Exception:
pass
try:
import numpy
import scipy
from numpy.distutils.core import setup, Extension
ext_modules = [
Extension(name="kinetic_matrix_no_irf",
sources=["glotaran/models/spectral_temporal/kinetic_matrix_no_irf.pyx"],
include_dirs=[numpy.get_include(), scipy.get_include(),
"glotaran/models/spectral_temporal"]),
Extension("kinetic_matrix_gaussian_irf",
["glotaran/models/spectral_temporal/erfce.c",
"glotaran/models/spectral_temporal/kinetic_matrix_gaussian_irf.pyx"],
include_dirs=[numpy.get_include(), scipy.get_include(),
"glotaran/models/spectral_temporal"]),
Extension(name="doas_matrix_faddeva",
sources=["glotaran/models/doas/doas_matrix_faddeva.pyx"],
include_dirs=[numpy.get_include(), scipy.get_include(),
"glotaran/models/doas"]),
Extension(name="scalTOMS680",
sources=["glotaran/models/doas/scalTOMS680.pyf",
"glotaran/models/doas/scalTOMS680.f"],
include_dirs=[numpy.get_include(), scipy.get_include(),
"glotaran/models/doas"]),
python2 build_cython_loss_functions.py build_ext --inplace
python3 build_cython_loss_functions.py build_ext --inplace
"""
import numpy
import scipy
from distutils.core import setup
from distutils.extension import Extension
from Cython.Distutils import build_ext
#fast log loss
ext_modules = [Extension(name = "fast_log_loss",
sources=["fast_log_loss.pyx"],
include_dirs=[numpy.get_include(), scipy.get_include()],
libraries=["m"],
extra_compile_args = ["-ffast-math"])]
setup(
cmdclass = {'build_ext': build_ext},
include_dirs = [numpy.get_include(), scipy.get_include()],
ext_modules = ext_modules,
)
#lookup log loss
ext_modules = [Extension(name = "lookup_log_loss",
sources=["lookup_log_loss.pyx"],
include_dirs=[numpy.get_include(), scipy.get_include()],
libraries=["m"],
extra_compile_args = ["-ffast-math"])]
try:
shutil.rmtree(clean_path)
except Exception:
pass
try:
import numpy
import scipy
ext_modules = [
Extension(
"kinetic_matrix_no_irf",
["glotaran/models/spectral_temporal/kinetic_matrix_no_irf.pyx"],
include_dirs=[
numpy.get_include(),
scipy.get_include(), "glotaran/models/spectral_temporal"
]),
Extension("kinetic_matrix_gaussian_irf", [
"glotaran/models/spectral_temporal/erfce.c",
"glotaran/models/spectral_temporal/kinetic_matrix_gaussian_irf.pyx"
],
include_dirs=[
numpy.get_include(),
scipy.get_include(), "glotaran/models/spectral_temporal"
]),
]
except ImportError:
raise ImportError(
f"To install glotaran you need to have following packages installed:\n"
f"{setup_requires[0]}\n"
import os
from distutils.core import setup
from distutils.extension import Extension
from Cython.Distutils import build_ext
import numpy as np # <---- New line
import scipy as la # <---- New line
import copy
#os.environ["CC"] = "clang"
#os.environ["CXX"] = "clang++"
os.environ["CC"] = "gcc-5"
os.environ["CXX"] = "g++-5"
#os.environ["CC"] = "icc"
#os.environ["CXX"] = "icpc"
# for GNU
os.environ["ARCHFLAGS"] = "-arch x86_64"
ext_modules = [Extension("ao2mo", ["ao2mo.pyx"], extra_compile_args=['-fopenmp', '-O3'], extra_link_args=['-fopenmp'])]
setup(
name = 'ao2mo.pyx',
cmdclass = {'build_ext': build_ext},
include_dirs = [np.get_include(), la.get_include()], # <---- New line
ext_modules = ext_modules
)