mirror of
https://github.com/SheffieldML/GPy.git
synced 2026-06-14 15:25:15 +02:00
add dev dependencies to setup.py
This commit is contained in:
Martin Bubel
parent
4834339550
commit
70ac8575c7
1 changed files with 166 additions and 132 deletions
298
setup.py
298
setup.py
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@ -1,7 +1,7 @@
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#!/usr/bin/env python
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# -*- coding: utf-8 -*-
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#===============================================================================
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# ===============================================================================
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# Copyright (c) 2012 - 2014, GPy authors (see AUTHORS.txt).
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# Copyright (c) 2014, James Hensman, Max Zwiessele
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# Copyright (c) 2015, Max Zwiessele
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@ -32,7 +32,7 @@
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# CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY,
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# OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE
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# OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
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#===============================================================================
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# ===============================================================================
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from __future__ import print_function
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import os
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@ -45,22 +45,26 @@ try:
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except NameError:
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ModuleNotFoundError = ImportError
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def read(fname):
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with codecs.open(fname, 'r', 'latin') as f:
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with codecs.open(fname, "r", "latin") as f:
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return f.read()
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def read_to_rst(fname):
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try:
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import pypandoc
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rstname = "{}.{}".format(os.path.splitext(fname)[0], 'rst')
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pypandoc.convert(read(fname), 'rst', format='md', outputfile=rstname)
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with open(rstname, 'r') as f:
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rstname = "{}.{}".format(os.path.splitext(fname)[0], "rst")
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pypandoc.convert(read(fname), "rst", format="md", outputfile=rstname)
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with open(rstname, "r") as f:
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rststr = f.read()
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return rststr
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#return read(rstname)
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# return read(rstname)
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except ImportError:
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return read(fname)
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desc = """
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Please refer to the github homepage for detailed instructions on installation and usage.
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@ -68,155 +72,185 @@ Please refer to the github homepage for detailed instructions on installation an
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"""
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version_dummy = {}
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exec(read('GPy/__version__.py'), version_dummy)
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__version__ = version_dummy['__version__']
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exec(read("GPy/__version__.py"), version_dummy)
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__version__ = version_dummy["__version__"]
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del version_dummy
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#Mac OS X Clang doesn't support OpenMP at the current time.
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#This detects if we are building on a Mac
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# Mac OS X Clang doesn't support OpenMP at the current time.
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# This detects if we are building on a Mac
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def ismac():
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return sys.platform[:6] == 'darwin'
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return sys.platform[:6] == "darwin"
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if ismac():
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compile_flags = [ '-O3', ]
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compile_flags = [
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"-O3",
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]
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link_args = []
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else:
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compile_flags = [ '-fopenmp', '-O3']
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link_args = ['-lgomp' ]
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compile_flags = ["-fopenmp", "-O3"]
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link_args = ["-lgomp"]
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try:
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# So that we don't need numpy installed to determine it's a dependency.
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import numpy as np
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ext_mods = [Extension(name='GPy.kern.src.stationary_cython',
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sources=['GPy/kern/src/stationary_cython.pyx',
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'GPy/kern/src/stationary_utils.c'],
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include_dirs=[np.get_include(), '.'],
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extra_compile_args=compile_flags,
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extra_link_args=link_args),
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Extension(name='GPy.util.choleskies_cython',
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sources=['GPy/util/choleskies_cython.pyx'],
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include_dirs=[np.get_include(), '.'],
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extra_link_args=link_args,
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extra_compile_args=compile_flags),
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Extension(name='GPy.util.linalg_cython',
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sources=['GPy/util/linalg_cython.pyx'],
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include_dirs=[np.get_include(), '.'],
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extra_compile_args=compile_flags,
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extra_link_args=link_args),
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Extension(name='GPy.kern.src.coregionalize_cython',
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sources=['GPy/kern/src/coregionalize_cython.pyx'],
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include_dirs=[np.get_include(), '.'],
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extra_compile_args=compile_flags,
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extra_link_args=link_args),
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Extension(name='GPy.models.state_space_cython',
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sources=['GPy/models/state_space_cython.pyx'],
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include_dirs=[np.get_include(), '.'],
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extra_compile_args=compile_flags,
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extra_link_args=link_args)]
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ext_mods = [
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Extension(
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name="GPy.kern.src.stationary_cython",
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sources=[
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"GPy/kern/src/stationary_cython.pyx",
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"GPy/kern/src/stationary_utils.c",
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],
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include_dirs=[np.get_include(), "."],
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extra_compile_args=compile_flags,
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extra_link_args=link_args,
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),
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Extension(
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name="GPy.util.choleskies_cython",
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sources=["GPy/util/choleskies_cython.pyx"],
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include_dirs=[np.get_include(), "."],
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extra_link_args=link_args,
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extra_compile_args=compile_flags,
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),
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Extension(
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name="GPy.util.linalg_cython",
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sources=["GPy/util/linalg_cython.pyx"],
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include_dirs=[np.get_include(), "."],
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extra_compile_args=compile_flags,
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extra_link_args=link_args,
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),
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Extension(
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name="GPy.kern.src.coregionalize_cython",
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sources=["GPy/kern/src/coregionalize_cython.pyx"],
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include_dirs=[np.get_include(), "."],
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extra_compile_args=compile_flags,
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extra_link_args=link_args,
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),
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Extension(
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name="GPy.models.state_space_cython",
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sources=["GPy/models/state_space_cython.pyx"],
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include_dirs=[np.get_include(), "."],
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extra_compile_args=compile_flags,
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extra_link_args=link_args,
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),
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]
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except ModuleNotFoundError:
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ext_mods = []
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install_requirements = ['numpy>=1.7', 'six', 'paramz>=0.9.0', 'cython>=0.29']
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matplotlib_version = 'matplotlib==3.3.4'
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install_requirements += ['scipy>=1.3.0']
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install_requirements = ["numpy>=1.7", "six", "paramz>=0.9.0", "cython>=0.29"]
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matplotlib_version = "matplotlib==3.3.4"
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install_requirements += ["scipy>=1.3.0"]
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setup(name = 'GPy',
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version = __version__,
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author = read_to_rst('AUTHORS.txt'),
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author_email = "gpy.authors@gmail.com",
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description = ("The Gaussian Process Toolbox"),
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long_description = desc,
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license = "BSD 3-clause",
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keywords = "machine-learning gaussian-processes kernels",
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url = "https://sheffieldml.github.io/GPy/",
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download_url='https://github.com/SheffieldML/GPy/archive/refs/heads/devel.zip',
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ext_modules = ext_mods,
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packages = ["GPy",
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"GPy.core",
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"GPy.core.parameterization",
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"GPy.kern",
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"GPy.kern.src",
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"GPy.kern.src.psi_comp",
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"GPy.models",
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"GPy.inference",
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"GPy.inference.optimization",
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"GPy.inference.mcmc",
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"GPy.inference.latent_function_inference",
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"GPy.likelihoods",
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"GPy.mappings",
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"GPy.examples",
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"GPy.testing",
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"GPy.util",
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"GPy.plotting",
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"GPy.plotting.gpy_plot",
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"GPy.plotting.matplot_dep",
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"GPy.plotting.matplot_dep.controllers",
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"GPy.plotting.plotly_dep",
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],
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package_dir={'GPy': 'GPy'},
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#package_data = {'GPy': ['defaults.cfg', 'installation.cfg',
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# 'util/data_resources.json',
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# 'util/football_teams.json',
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# 'testing/plotting_tests/baseline/*.png'
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# ]},
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#data_files=[('GPy/testing/plotting_tests/baseline', 'testing/plotting_tests/baseline/*.png'),
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# ('GPy/testing/', 'GPy/testing/pickle_test.pickle'),
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# ],
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include_package_data = True,
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py_modules = ['GPy.__init__'],
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test_suite = 'GPy.testing',
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setup_requires = ['numpy>=1.7'],
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install_requires = install_requirements,
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extras_require = {'docs':['sphinx'],
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'optional':['mpi4py',
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'ipython>=4.0.0',
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],
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#matplotlib Version see github issue #955
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'plotting':[matplotlib_version,
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'plotly >= 1.8.6'],
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'notebook':['jupyter_client >= 4.0.6',
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'ipywidgets >= 4.0.3',
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'ipykernel >= 4.1.0',
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'notebook >= 4.0.5',
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],
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},
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classifiers=['License :: OSI Approved :: BSD License',
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'Natural Language :: English',
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'Operating System :: MacOS :: MacOS X',
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'Operating System :: Microsoft :: Windows',
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'Operating System :: POSIX :: Linux',
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'Programming Language :: Python :: 3.5',
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'Programming Language :: Python :: 3.6',
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'Programming Language :: Python :: 3.7',
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'Programming Language :: Python :: 3.8',
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'Programming Language :: Python :: 3.9',
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'Framework :: IPython',
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'Intended Audience :: Science/Research',
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'Intended Audience :: Developers',
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'Topic :: Software Development',
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'Topic :: Software Development :: Libraries :: Python Modules',
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],
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project_urls = {"Source Code": "https://github.com/SheffieldML/GPy",
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"Bug Tracker": "https://github.com/SheffieldML/GPy/issues",
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}
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)
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setup(
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name="GPy",
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version=__version__,
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author=read_to_rst("AUTHORS.txt"),
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author_email="gpy.authors@gmail.com",
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description=("The Gaussian Process Toolbox"),
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long_description=desc,
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license="BSD 3-clause",
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keywords="machine-learning gaussian-processes kernels",
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url="https://sheffieldml.github.io/GPy/",
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download_url="https://github.com/SheffieldML/GPy/archive/refs/heads/devel.zip",
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ext_modules=ext_mods,
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packages=[
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"GPy",
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"GPy.core",
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"GPy.core.parameterization",
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"GPy.kern",
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"GPy.kern.src",
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"GPy.kern.src.psi_comp",
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"GPy.models",
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"GPy.inference",
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"GPy.inference.optimization",
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"GPy.inference.mcmc",
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"GPy.inference.latent_function_inference",
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"GPy.likelihoods",
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"GPy.mappings",
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"GPy.examples",
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"GPy.testing",
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"GPy.util",
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"GPy.plotting",
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"GPy.plotting.gpy_plot",
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"GPy.plotting.matplot_dep",
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"GPy.plotting.matplot_dep.controllers",
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"GPy.plotting.plotly_dep",
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],
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package_dir={"GPy": "GPy"},
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# package_data = {'GPy': ['defaults.cfg', 'installation.cfg',
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# 'util/data_resources.json',
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# 'util/football_teams.json',
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# 'testing/plotting_tests/baseline/*.png'
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# ]},
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# data_files=[('GPy/testing/plotting_tests/baseline', 'testing/plotting_tests/baseline/*.png'),
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# ('GPy/testing/', 'GPy/testing/pickle_test.pickle'),
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# ],
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include_package_data=True,
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py_modules=["GPy.__init__"],
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test_suite="GPy.testing",
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setup_requires=["numpy>=1.7"],
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install_requires=install_requirements,
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extras_require={
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"docs": ["sphinx"],
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"optional": [
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"mpi4py",
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"ipython>=4.0.0",
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],
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# matplotlib Version see github issue #955
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"plotting": [matplotlib_version, "plotly >= 1.8.6"],
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"notebook": [
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"jupyter_client >= 4.0.6",
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"ipywidgets >= 4.0.3",
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"ipykernel >= 4.1.0",
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"notebook >= 4.0.5",
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],
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"dev": ["pytest", "matplotlib", "pods"],
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},
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classifiers=[
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"License :: OSI Approved :: BSD License",
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"Natural Language :: English",
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"Operating System :: MacOS :: MacOS X",
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"Operating System :: Microsoft :: Windows",
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"Operating System :: POSIX :: Linux",
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"Programming Language :: Python :: 3.5",
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"Programming Language :: Python :: 3.6",
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"Programming Language :: Python :: 3.7",
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"Programming Language :: Python :: 3.8",
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"Programming Language :: Python :: 3.9",
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"Framework :: IPython",
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"Intended Audience :: Science/Research",
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"Intended Audience :: Developers",
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"Topic :: Software Development",
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"Topic :: Software Development :: Libraries :: Python Modules",
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],
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project_urls={
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"Source Code": "https://github.com/SheffieldML/GPy",
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"Bug Tracker": "https://github.com/SheffieldML/GPy/issues",
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},
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)
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# Check config files and settings:
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local_file = os.path.abspath(os.path.join(os.path.dirname(__file__), 'GPy', 'installation.cfg'))
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home = os.getenv('HOME') or os.getenv('USERPROFILE')
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user_file = os.path.join(home,'.config', 'GPy', 'user.cfg')
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local_file = os.path.abspath(
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os.path.join(os.path.dirname(__file__), "GPy", "installation.cfg")
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)
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home = os.getenv("HOME") or os.getenv("USERPROFILE")
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user_file = os.path.join(home, ".config", "GPy", "user.cfg")
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print("")
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try:
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if not os.path.exists(user_file):
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# Does an old config exist?
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old_user_file = os.path.join(home,'.gpy_user.cfg')
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old_user_file = os.path.join(home, ".gpy_user.cfg")
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if os.path.exists(old_user_file):
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# Move it to new location:
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print("GPy: Found old config file, moving to new location {}".format(user_file))
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print(
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"GPy: Found old config file, moving to new location {}".format(
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user_file
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)
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)
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if not os.path.exists(os.path.dirname(user_file)):
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os.makedirs(os.path.dirname(user_file))
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os.rename(old_user_file, user_file)
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@ -225,8 +259,8 @@ try:
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print("GPy: Saving user configuration file to {}".format(user_file))
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if not os.path.exists(os.path.dirname(user_file)):
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os.makedirs(os.path.dirname(user_file))
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with open(user_file, 'w') as f:
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with open(local_file, 'r') as l:
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with open(user_file, "w") as f:
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with open(local_file, "r") as l:
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tmp = l.read()
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f.write(tmp)
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else:
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