Old engine for Continuous Time Bayesian Networks. Superseded by reCTBN. 🐍
https://github.com/madlabunimib/PyCTBN
You can not select more than 25 topics
Topics must start with a letter or number, can include dashes ('-') and can be up to 35 characters long.
97 lines
3.4 KiB
97 lines
3.4 KiB
4 years ago
|
import os
|
||
|
|
import pytest
|
||
|
|
import shutil
|
||
|
|
import subprocess
|
||
|
|
import sys
|
||
|
|
import warnings
|
||
|
|
import numpy as np
|
||
|
|
|
||
|
|
try:
|
||
|
|
import cffi
|
||
|
|
except ImportError:
|
||
|
|
cffi = None
|
||
|
|
|
||
|
|
if sys.flags.optimize > 1:
|
||
|
|
# no docstrings present to inspect when PYTHONOPTIMIZE/Py_OptimizeFlag > 1
|
||
|
|
# cffi cannot succeed
|
||
|
|
cffi = None
|
||
|
|
|
||
|
|
try:
|
||
|
|
with warnings.catch_warnings(record=True) as w:
|
||
|
|
# numba issue gh-4733
|
||
|
|
warnings.filterwarnings('always', '', DeprecationWarning)
|
||
|
|
import numba
|
||
|
|
except ImportError:
|
||
|
|
numba = None
|
||
|
|
|
||
|
|
try:
|
||
|
|
import cython
|
||
|
|
from Cython.Compiler.Version import version as cython_version
|
||
|
|
except ImportError:
|
||
|
|
cython = None
|
||
|
|
else:
|
||
|
|
from distutils.version import LooseVersion
|
||
|
|
# Cython 0.29.21 is required for Python 3.9 and there are
|
||
|
|
# other fixes in the 0.29 series that are needed even for earlier
|
||
|
|
# Python versions.
|
||
|
|
# Note: keep in sync with the one in pyproject.toml
|
||
|
|
required_version = LooseVersion('0.29.21')
|
||
|
|
if LooseVersion(cython_version) < required_version:
|
||
|
|
# too old or wrong cython, skip the test
|
||
|
|
cython = None
|
||
|
|
|
||
|
|
|
||
|
|
@pytest.mark.skipif(cython is None, reason="requires cython")
|
||
|
|
@pytest.mark.slow
|
||
|
|
def test_cython(tmp_path):
|
||
|
|
srcdir = os.path.join(os.path.dirname(__file__), '..')
|
||
|
|
shutil.copytree(srcdir, tmp_path / 'random')
|
||
|
|
# build the examples and "install" them into a temporary directory
|
||
|
|
build_dir = tmp_path / 'random' / '_examples' / 'cython'
|
||
|
|
subprocess.check_call([sys.executable, 'setup.py', 'build', 'install',
|
||
|
|
'--prefix', str(tmp_path / 'installdir'),
|
||
|
|
'--single-version-externally-managed',
|
||
|
|
'--record', str(tmp_path/ 'tmp_install_log.txt'),
|
||
|
|
],
|
||
|
|
cwd=str(build_dir),
|
||
|
|
)
|
||
|
|
# gh-16162: make sure numpy's __init__.pxd was used for cython
|
||
|
|
# not really part of this test, but it is a convenient place to check
|
||
|
|
with open(build_dir / 'extending.c') as fid:
|
||
|
|
txt_to_find = 'NumPy API declarations from "numpy/__init__.pxd"'
|
||
|
|
for i, line in enumerate(fid):
|
||
|
|
if txt_to_find in line:
|
||
|
|
break
|
||
|
|
else:
|
||
|
|
assert False, ("Could not find '{}' in C file, "
|
||
|
|
"wrong pxd used".format(txt_to_find))
|
||
|
|
# get the path to the so's
|
||
|
|
so1 = so2 = None
|
||
|
|
with open(tmp_path /'tmp_install_log.txt') as fid:
|
||
|
|
for line in fid:
|
||
|
|
if 'extending.' in line:
|
||
|
|
so1 = line.strip()
|
||
|
|
if 'extending_distributions' in line:
|
||
|
|
so2 = line.strip()
|
||
|
|
assert so1 is not None
|
||
|
|
assert so2 is not None
|
||
|
|
# import the so's without adding the directory to sys.path
|
||
|
|
from importlib.machinery import ExtensionFileLoader
|
||
|
|
extending = ExtensionFileLoader('extending', so1).load_module()
|
||
|
|
extending_distributions = ExtensionFileLoader('extending_distributions', so2).load_module()
|
||
|
|
|
||
|
|
# actually test the cython c-extension
|
||
|
|
from numpy.random import PCG64
|
||
|
|
values = extending_distributions.uniforms_ex(PCG64(0), 10, 'd')
|
||
|
|
assert values.shape == (10,)
|
||
|
|
assert values.dtype == np.float64
|
||
|
|
|
||
|
|
@pytest.mark.skipif(numba is None or cffi is None,
|
||
|
|
reason="requires numba and cffi")
|
||
|
|
def test_numba():
|
||
|
|
from numpy.random._examples.numba import extending # noqa: F401
|
||
|
|
|
||
|
|
@pytest.mark.skipif(cffi is None, reason="requires cffi")
|
||
|
|
def test_cffi():
|
||
|
|
from numpy.random._examples.cffi import extending # noqa: F401
|