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GPy/setup.py
Martin Bubel 414b56251d set upper bound on numpy dependency
2024-07-21 16:45:10 +02:00

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#!/usr/bin/env python
# -*- coding: utf-8 -*-
# ===============================================================================
# Copyright (c) 2012 - 2014, GPy authors (see AUTHORS.txt).
# Copyright (c) 2014, James Hensman, Max Zwiessele
# Copyright (c) 2015, Max Zwiessele
#
# All rights reserved.
#
# Redistribution and use in source and binary forms, with or without
# modification, are permitted provided that the following conditions are met:
#
# * Redistributions of source code must retain the above copyright notice, this
# list of conditions and the following disclaimer.
#
# * Redistributions in binary form must reproduce the above copyright notice,
# this list of conditions and the following disclaimer in the documentation
# and/or other materials provided with the distribution.
#
# * Neither the name of GPy nor the names of its
# contributors may be used to endorse or promote products derived from
# this software without specific prior written permission.
#
# THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS"
# AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE
# IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE
# DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT HOLDER OR CONTRIBUTORS BE LIABLE
# FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL
# DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR
# SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER
# CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY,
# OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE
# OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
# ===============================================================================
from __future__ import print_function
import os
import sys
from setuptools import setup, Extension
import codecs
try:
ModuleNotFoundError
except NameError:
ModuleNotFoundError = ImportError
def read(fname):
with codecs.open(fname, "r", "latin") as f:
return f.read()
def read_to_rst(fname):
try:
import pypandoc
rstname = "{}.{}".format(os.path.splitext(fname)[0], "rst")
pypandoc.convert(read(fname), "rst", format="md", outputfile=rstname)
with open(rstname, "r") as f:
rststr = f.read()
return rststr
# return read(rstname)
except ImportError:
return read(fname)
desc = """
Please refer to the github homepage for detailed instructions on installation and usage.
"""
version_dummy = {}
exec(read("GPy/__version__.py"), version_dummy)
__version__ = version_dummy["__version__"]
del version_dummy
# Mac OS X Clang doesn't support OpenMP at the current time.
# This detects if we are building on a Mac
def ismac():
return sys.platform[:6] == "darwin"
if ismac():
compile_flags = [
"-O3",
]
link_args = []
else:
compile_flags = ["-fopenmp", "-O3"]
link_args = ["-lgomp"]
try:
# So that we don't need numpy installed to determine it's a dependency.
import numpy as np
ext_mods = [
Extension(
name="GPy.kern.src.stationary_cython",
sources=[
"GPy/kern/src/stationary_cython.pyx",
"GPy/kern/src/stationary_utils.c",
],
include_dirs=[np.get_include(), "."],
extra_compile_args=compile_flags,
extra_link_args=link_args,
),
Extension(
name="GPy.util.choleskies_cython",
sources=["GPy/util/choleskies_cython.pyx"],
include_dirs=[np.get_include(), "."],
extra_link_args=link_args,
extra_compile_args=compile_flags,
),
Extension(
name="GPy.util.linalg_cython",
sources=["GPy/util/linalg_cython.pyx"],
include_dirs=[np.get_include(), "."],
extra_compile_args=compile_flags,
extra_link_args=link_args,
),
Extension(
name="GPy.kern.src.coregionalize_cython",
sources=["GPy/kern/src/coregionalize_cython.pyx"],
include_dirs=[np.get_include(), "."],
extra_compile_args=compile_flags,
extra_link_args=link_args,
),
Extension(
name="GPy.models.state_space_cython",
sources=["GPy/models/state_space_cython.pyx"],
include_dirs=[np.get_include(), "."],
extra_compile_args=compile_flags,
extra_link_args=link_args,
),
]
except ModuleNotFoundError:
ext_mods = []
install_requirements = [
"numpy>=1.7,<2.0.0",
"six",
"paramz>=0.9.6",
"cython>=0.29",
]
# 'some-pkg @ git+ssh://git@github.com/someorgname/pkg-repo-name@v1.1#egg=some-pkg',
matplotlib_version = "matplotlib==3.3.4"
install_requirements += ["scipy>=1.3.0,<=1.12.0"]
setup(
name="GPy",
version=__version__,
author=read_to_rst("AUTHORS.txt"),
author_email="gpy.authors@gmail.com",
description=("The Gaussian Process Toolbox"),
long_description=desc,
license="BSD 3-clause",
python_requires=">=3.9",
keywords="machine-learning gaussian-processes kernels",
url="https://sheffieldml.github.io/GPy/",
download_url="https://github.com/SheffieldML/GPy/archive/refs/heads/devel.zip",
ext_modules=ext_mods,
packages=[
"GPy",
"GPy.core",
"GPy.core.parameterization",
"GPy.kern",
"GPy.kern.src",
"GPy.kern.src.psi_comp",
"GPy.models",
"GPy.inference",
"GPy.inference.optimization",
"GPy.inference.mcmc",
"GPy.inference.latent_function_inference",
"GPy.likelihoods",
"GPy.mappings",
"GPy.examples",
"GPy.testing",
"GPy.util",
"GPy.plotting",
"GPy.plotting.gpy_plot",
"GPy.plotting.matplot_dep",
"GPy.plotting.matplot_dep.controllers",
"GPy.plotting.plotly_dep",
],
package_dir={"GPy": "GPy"},
# package_data = {'GPy': ['defaults.cfg', 'installation.cfg',
# 'util/data_resources.json',
# 'util/football_teams.json',
# 'testing/plotting_tests/baseline/*.png'
# ]},
# data_files=[('GPy/testing/plotting_tests/baseline', 'testing/plotting_tests/baseline/*.png'),
# ('GPy/testing/', 'GPy/testing/pickle_test.pickle'),
# ],
include_package_data=True,
py_modules=["GPy.__init__"],
test_suite="GPy.testing",
setup_requires=["numpy>=1.7,<2.0.0"],
install_requires=install_requirements,
extras_require={
"docs": ["sphinx"],
"optional": [
"mpi4py",
"ipython>=4.0.0",
],
# matplotlib Version see github issue #955
"plotting": [matplotlib_version, "plotly >= 1.8.6"],
"notebook": [
"jupyter_client >= 4.0.6",
"ipywidgets >= 4.0.3",
"ipykernel >= 4.1.0",
"notebook >= 4.0.5",
],
"dev": ["pytest", "matplotlib", "pods"],
},
classifiers=[
"License :: OSI Approved :: BSD License",
"Natural Language :: English",
"Operating System :: MacOS :: MacOS X",
"Operating System :: Microsoft :: Windows",
"Operating System :: POSIX :: Linux",
"Programming Language :: Python :: 3.5",
"Programming Language :: Python :: 3.6",
"Programming Language :: Python :: 3.7",
"Programming Language :: Python :: 3.8",
"Programming Language :: Python :: 3.9",
"Framework :: IPython",
"Intended Audience :: Science/Research",
"Intended Audience :: Developers",
"Topic :: Software Development",
"Topic :: Software Development :: Libraries :: Python Modules",
],
project_urls={
"Source Code": "https://github.com/SheffieldML/GPy",
"Bug Tracker": "https://github.com/SheffieldML/GPy/issues",
},
)
# Check config files and settings:
local_file = os.path.abspath(
os.path.join(os.path.dirname(__file__), "GPy", "installation.cfg")
)
home = os.getenv("HOME") or os.getenv("USERPROFILE")
user_file = os.path.join(home, ".config", "GPy", "user.cfg")
print("")
try:
if not os.path.exists(user_file):
# Does an old config exist?
old_user_file = os.path.join(home, ".gpy_user.cfg")
if os.path.exists(old_user_file):
# Move it to new location:
print(
"GPy: Found old config file, moving to new location {}".format(
user_file
)
)
if not os.path.exists(os.path.dirname(user_file)):
os.makedirs(os.path.dirname(user_file))
os.rename(old_user_file, user_file)
else:
# No config file exists, save informative stub to user config folder:
print("GPy: Saving user configuration file to {}".format(user_file))
if not os.path.exists(os.path.dirname(user_file)):
os.makedirs(os.path.dirname(user_file))
with open(user_file, "w") as f:
with open(local_file, "r") as l:
tmp = l.read()
f.write(tmp)
else:
print("GPy: User configuration file at location {}".format(user_file))
except:
print("GPy: Could not write user configuration file {}".format(user_file))
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