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Merge pull request #719 from ajgpitch/install_fixes

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FIXES - for installing under Python 3.7
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Max Zwiessele 2019-01-22 16:03:39 +00:00 • committed by GitHub
commit 313fb7c07e
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9 changed files with 45453 additions and 23880 deletions
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5507
GPy/kern/src/coregionalize_cython.c
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12655
GPy/kern/src/stationary_cython.c
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GPy/kern/src/stationary_cython.pyx
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@ -6,6 +6,8 @@ cimport numpy as np
from cython.parallel import prange from cython.parallel import prange
cimport cython cimport cython
np.import_array()
ctypedef np.float64_t DTYPE_t ctypedef np.float64_t DTYPE_t
cdef extern from "stationary_utils.h": cdef extern from "stationary_utils.h":

28744
GPy/models/state_space_cython.c
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GPy/models/state_space_cython.pyx
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@ -493,7 +493,7 @@ cdef class AQcompute_batch_Cython(Q_handling_Cython):
U,S,Vh = self.Q_svd_dict[matrix_index] U,S,Vh = self.Q_svd_dict[matrix_index]
square_root = U * np.sqrt(S) square_root = U * np.sqrt(S)
self.Q_suqare_root_dict[matrix_index] = square_root self.Q_square_root_dict[matrix_index] = square_root
return square_root return square_root

17342
GPy/util/choleskies_cython.c
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GPy/util/choleskies_cython.pyx
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@ -9,6 +9,8 @@ from cython.parallel import prange, parallel
cimport numpy as np cimport numpy as np
cimport scipy.linalg.cython_blas as cblas cimport scipy.linalg.cython_blas as cblas
np.import_array()
def flat_to_triang(double[:, :] flat, int M): def flat_to_triang(double[:, :] flat, int M):
"""take a matrix N x D and return a D X M x M array where """take a matrix N x D and return a D X M x M array where

5069
GPy/util/linalg_cython.c
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setup.py
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@ -84,28 +84,28 @@ try:
import numpy as np import numpy as np
ext_mods = [Extension(name='GPy.kern.src.stationary_cython', ext_mods = [Extension(name='GPy.kern.src.stationary_cython',
sources=['GPy/kern/src/stationary_cython.c', sources=['GPy/kern/src/stationary_cython.pyx',
'GPy/kern/src/stationary_utils.c'], 'GPy/kern/src/stationary_utils.c'],
include_dirs=[np.get_include(), '.'], include_dirs=[np.get_include(), '.'],
extra_compile_args=compile_flags, extra_compile_args=compile_flags,
extra_link_args=link_args), extra_link_args=link_args),
Extension(name='GPy.util.choleskies_cython', Extension(name='GPy.util.choleskies_cython',
sources=['GPy/util/choleskies_cython.c'], sources=['GPy/util/choleskies_cython.pyx'],
include_dirs=[np.get_include(), '.'], include_dirs=[np.get_include(), '.'],
extra_link_args=link_args, extra_link_args=link_args,
extra_compile_args=compile_flags), extra_compile_args=compile_flags),
Extension(name='GPy.util.linalg_cython', Extension(name='GPy.util.linalg_cython',
sources=['GPy/util/linalg_cython.c'], sources=['GPy/util/linalg_cython.pyx'],
include_dirs=[np.get_include(), '.'], include_dirs=[np.get_include(), '.'],
extra_compile_args=compile_flags, extra_compile_args=compile_flags,
extra_link_args=link_args), extra_link_args=link_args),
Extension(name='GPy.kern.src.coregionalize_cython', Extension(name='GPy.kern.src.coregionalize_cython',
sources=['GPy/kern/src/coregionalize_cython.c'], sources=['GPy/kern/src/coregionalize_cython.pyx'],
include_dirs=[np.get_include(), '.'], include_dirs=[np.get_include(), '.'],
extra_compile_args=compile_flags, extra_compile_args=compile_flags,
extra_link_args=link_args), extra_link_args=link_args),
Extension(name='GPy.models.state_space_cython', Extension(name='GPy.models.state_space_cython',
sources=['GPy/models/state_space_cython.c'], sources=['GPy/models/state_space_cython.pyx'],
include_dirs=[np.get_include(), '.'], include_dirs=[np.get_include(), '.'],
extra_compile_args=compile_flags, extra_compile_args=compile_flags,
extra_link_args=link_args)] extra_link_args=link_args)]