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mixture.py
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# Copyright 2020 The PyMC Developers
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
from collections.abc import Iterable
import numpy as np
import theano
import theano.tensor as tt
from pymc3.distributions.continuous import Normal, get_tau_sigma
from pymc3.distributions.dist_math import bound, random_choice
from pymc3.distributions.distribution import (
Discrete,
Distribution,
_DrawValuesContext,
_DrawValuesContextBlocker,
draw_values,
generate_samples,
)
from pymc3.distributions.shape_utils import (
broadcast_distribution_samples,
get_broadcastable_dist_samples,
to_tuple,
)
from pymc3.math import logsumexp
from pymc3.theanof import _conversion_map, take_along_axis
__all__ = ["Mixture", "NormalMixture", "MixtureSameFamily"]
def all_discrete(comp_dists):
"""
Determine if all distributions in comp_dists are discrete
"""
if isinstance(comp_dists, Distribution):
return isinstance(comp_dists, Discrete)
else:
return all(isinstance(comp_dist, Discrete) for comp_dist in comp_dists)
class Mixture(Distribution):
R"""
Mixture log-likelihood
Often used to model subpopulation heterogeneity
.. math:: f(x \mid w, \theta) = \sum_{i = 1}^n w_i f_i(x \mid \theta_i)
======== ============================================
Support :math:`\cup_{i = 1}^n \textrm{support}(f_i)`
Mean :math:`\sum_{i = 1}^n w_i \mu_i`
======== ============================================
Parameters
----------
w: array of floats
w >= 0 and w <= 1
the mixture weights
comp_dists: multidimensional PyMC3 distribution (e.g. `pm.Poisson.dist(...)`)
or iterable of PyMC3 distributions the component distributions
:math:`f_1, \ldots, f_n`
Examples
--------
.. code-block:: python
# 2-Mixture Poisson distribution
with pm.Model() as model:
lam = pm.Exponential('lam', lam=1, shape=(2,)) # `shape=(2,)` indicates two mixture components.
# As we just need the logp, rather than add a RV to the model, we need to call .dist()
components = pm.Poisson.dist(mu=lam, shape=(2,))
w = pm.Dirichlet('w', a=np.array([1, 1])) # two mixture component weights.
like = pm.Mixture('like', w=w, comp_dists=components, observed=data)
# 2-Mixture Poisson using iterable of distributions.
with pm.Model() as model:
lam1 = pm.Exponential('lam1', lam=1)
lam2 = pm.Exponential('lam2', lam=1)
pois1 = pm.Poisson.dist(mu=lam1)
pois2 = pm.Poisson.dist(mu=lam2)
w = pm.Dirichlet('w', a=np.array([1, 1]))
like = pm.Mixture('like', w=w, comp_dists = [pois1, pois2], observed=data)
# npop-Mixture of multidimensional Gaussian
npop = 5
nd = (3, 4)
with pm.Model() as model:
mu = pm.Normal('mu', mu=np.arange(npop), sigma=1, shape=npop) # Each component has an independent mean
w = pm.Dirichlet('w', a=np.ones(npop))
components = pm.Normal.dist(mu=mu, sigma=1, shape=nd + (npop,)) # nd + (npop,) shaped multinomial
like = pm.Mixture('like', w=w, comp_dists = components, observed=data, shape=nd) # The resulting mixture is nd-shaped
# Multidimensional Mixture as stacked independent mixtures
with pm.Model() as model:
mu = pm.Normal('mu', mu=np.arange(5), sigma=1, shape=5) # Each component has an independent mean
w = pm.Dirichlet('w', a=np.ones(3, 5)) # w is a stack of 3 independent 5 component weight arrays
components = pm.Normal.dist(mu=mu, sigma=1, shape=(3, 5))
# The mixture is an array of 3 elements.
# Each can be thought of as an independent scalar mixture of 5 components
like = pm.Mixture('like', w=w, comp_dists = components, observed=data, shape=3)
"""
def __init__(self, w, comp_dists, *args, **kwargs):
# comp_dists type checking
if not (
isinstance(comp_dists, Distribution)
or (
isinstance(comp_dists, Iterable)
and all(isinstance(c, Distribution) for c in comp_dists)
)
):
raise TypeError(
"Supplied Mixture comp_dists must be a "
"Distribution or an iterable of "
"Distributions. Got {} instead.".format(
type(comp_dists)
if not isinstance(comp_dists, Iterable)
else [type(c) for c in comp_dists]
)
)
shape = kwargs.pop("shape", ())
self.w = w = tt.as_tensor_variable(w)
self.comp_dists = comp_dists
defaults = kwargs.pop("defaults", [])
if all_discrete(comp_dists):
default_dtype = _conversion_map[theano.config.floatX]
else:
default_dtype = theano.config.floatX
try:
self.mean = (w * self._comp_means()).sum(axis=-1)
if "mean" not in defaults:
defaults.append("mean")
except AttributeError:
pass
dtype = kwargs.pop("dtype", default_dtype)
try:
if isinstance(comp_dists, Distribution):
comp_mode_logps = comp_dists.logp(comp_dists.mode)
else:
comp_mode_logps = tt.stack([cd.logp(cd.mode) for cd in comp_dists])
mode_idx = tt.argmax(tt.log(w) + comp_mode_logps, axis=-1)
self.mode = self._comp_modes()[mode_idx]
if "mode" not in defaults:
defaults.append("mode")
except (AttributeError, ValueError, IndexError):
pass
super().__init__(shape, dtype, defaults=defaults, *args, **kwargs)
@property
def comp_dists(self):
return self._comp_dists
@comp_dists.setter
def comp_dists(self, comp_dists):
self._comp_dists = comp_dists
if isinstance(comp_dists, Distribution):
self._comp_dist_shapes = to_tuple(comp_dists.shape)
self._broadcast_shape = self._comp_dist_shapes
self.comp_is_distribution = True
else:
# Now we check the comp_dists distribution shape, see what
# the broadcast shape would be. This shape will be the dist_shape
# used by generate samples (the shape of a single random sample)
# from the mixture
self._comp_dist_shapes = [to_tuple(d.shape) for d in comp_dists]
# All component distributions must broadcast with each other
try:
self._broadcast_shape = np.broadcast(
*[np.empty(shape) for shape in self._comp_dist_shapes]
).shape
except Exception:
raise TypeError(
"Supplied comp_dists shapes do not broadcast "
"with each other. comp_dists shapes are: "
"{}".format(self._comp_dist_shapes)
)
# We wrap the _comp_dist.random by adding the kwarg raw_size_,
# which will be the size attribute passed to _comp_samples.
# _comp_samples then calls generate_samples, which may change the
# size value to make it compatible with scipy.stats.*.rvs
self._generators = []
for comp_dist in comp_dists:
generator = Mixture._comp_dist_random_wrapper(comp_dist.random)
self._generators.append(generator)
self.comp_is_distribution = False
@staticmethod
def _comp_dist_random_wrapper(random):
"""Wrap the comp_dists.random method to take the kwarg raw_size_ and
use it's value to replace the size parameter. This is needed because
generate_samples makes the size value compatible with the
scipy.stats.*.rvs, where size has a different meaning than in the
distributions' random methods.
"""
def wrapped_random(*args, **kwargs):
raw_size_ = kwargs.pop("raw_size_", None)
# Distribution.random's signature is always (point=None, size=None)
# so size could be the second arg or be given as a kwarg
if len(args) > 1:
args[1] = raw_size_
else:
kwargs["size"] = raw_size_
return random(*args, **kwargs)
return wrapped_random
def _comp_logp(self, value):
comp_dists = self.comp_dists
if self.comp_is_distribution:
# Value can be many things. It can be the self tensor, the mode
# test point or it can be observed data. The latter case requires
# careful handling of shape, as the observed's shape could look
# like (repetitions,) + dist_shape, which does not include the last
# mixture axis. For this reason, we try to eval the value.shape,
# compare it with self.shape and shape_padright if we infer that
# the value holds observed data
try:
val_shape = tuple(value.shape.eval())
except AttributeError:
val_shape = value.shape
except theano.graph.fg.MissingInputError:
val_shape = None
try:
self_shape = tuple(self.shape)
except AttributeError:
# Happens in __init__ when computing self.logp(comp_modes)
self_shape = None
comp_shape = tuple(comp_dists.shape)
ndim = value.ndim
if val_shape is not None and not (
(self_shape is not None and val_shape == self_shape) or val_shape == comp_shape
):
# value is neither the test point nor the self tensor, it
# is likely to hold observed values, so we must compute the
# ndim discarding the dimensions that don't match
# self_shape
if self_shape and val_shape[-len(self_shape) :] == self_shape:
# value has observed values for the Mixture
ndim = len(self_shape)
elif comp_shape and val_shape[-len(comp_shape) :] == comp_shape:
# value has observed for the Mixture components
ndim = len(comp_shape)
else:
# We cannot infer what was passed, we handle this
# as was done in earlier versions of Mixture. We pad
# always if ndim is lower or equal to 1 (default
# legacy implementation)
if ndim <= 1:
ndim = len(comp_dists.shape) - 1
else:
# We reach this point if value does not hold observed data, so
# we can use its ndim safely to determine shape padding, or it
# holds something that we cannot infer, so we revert to using
# the value's ndim for shape padding.
# We will always pad a single dimension if ndim is lower or
# equal to 1 (default legacy implementation)
if ndim <= 1:
ndim = len(comp_dists.shape) - 1
if ndim < len(comp_dists.shape):
value_ = tt.shape_padright(value, len(comp_dists.shape) - ndim)
else:
value_ = value
return comp_dists.logp(value_)
else:
return tt.squeeze(
tt.stack([comp_dist.logp(value) for comp_dist in comp_dists], axis=-1)
)
def _comp_means(self):
try:
return tt.as_tensor_variable(self.comp_dists.mean)
except AttributeError:
return tt.squeeze(tt.stack([comp_dist.mean for comp_dist in self.comp_dists], axis=-1))
def _comp_modes(self):
try:
return tt.as_tensor_variable(self.comp_dists.mode)
except AttributeError:
return tt.squeeze(tt.stack([comp_dist.mode for comp_dist in self.comp_dists], axis=-1))
def _comp_samples(self, point=None, size=None, comp_dist_shapes=None, broadcast_shape=None):
if self.comp_is_distribution:
samples = self._comp_dists.random(point=point, size=size)
else:
if comp_dist_shapes is None:
comp_dist_shapes = self._comp_dist_shapes
if broadcast_shape is None:
broadcast_shape = self._sample_shape
samples = []
for dist_shape, generator in zip(comp_dist_shapes, self._generators):
sample = generate_samples(
generator=generator,
dist_shape=dist_shape,
broadcast_shape=broadcast_shape,
point=point,
size=size,
not_broadcast_kwargs={"raw_size_": size},
)
samples.append(sample)
samples = np.array(broadcast_distribution_samples(samples, size=size))
# In the logp we assume the last axis holds the mixture components
# so we move the axis to the last dimension
samples = np.moveaxis(samples, 0, -1)
return samples.astype(self.dtype)
def infer_comp_dist_shapes(self, point=None):
"""Try to infer the shapes of the component distributions,
`comp_dists`, and how they should broadcast together.
The behavior is slightly different if `comp_dists` is a `Distribution`
as compared to when it is a list of `Distribution`s. When it is a list
the following procedure is repeated for each element in the list:
1. Look up the `comp_dists.shape`
2. If it is not empty, use it as `comp_dist_shape`
3. If it is an empty tuple, a single random sample is drawn by calling
`comp_dists.random(point=point, size=None)`, and the returned
test_sample's shape is used as the inferred `comp_dists.shape`
Parameters
----------
point: None or dict (optional)
Dictionary that maps rv names to values, to supply to
`self.comp_dists.random`
Returns
-------
comp_dist_shapes: shape tuple or list of shape tuples.
If `comp_dists` is a `Distribution`, it is a shape tuple of the
inferred distribution shape.
If `comp_dists` is a list of `Distribution`s, it is a list of
shape tuples inferred for each element in `comp_dists`
broadcast_shape: shape tuple
The shape that results from broadcasting all component's shapes
together.
"""
if self.comp_is_distribution:
if len(self._comp_dist_shapes) > 0:
comp_dist_shapes = self._comp_dist_shapes
else:
# Happens when the distribution is a scalar or when it was not
# given a shape. In these cases we try to draw a single value
# to check its shape, we use the provided point dictionary
# hoping that it can circumvent the Flat and HalfFlat
# undrawable distributions.
with _DrawValuesContextBlocker():
test_sample = self._comp_dists.random(point=point, size=None)
comp_dist_shapes = test_sample.shape
broadcast_shape = comp_dist_shapes
else:
# Now we check the comp_dists distribution shape, see what
# the broadcast shape would be. This shape will be the dist_shape
# used by generate samples (the shape of a single random sample)
# from the mixture
comp_dist_shapes = []
for dist_shape, comp_dist in zip(self._comp_dist_shapes, self._comp_dists):
if dist_shape == tuple():
# Happens when the distribution is a scalar or when it was
# not given a shape. In these cases we try to draw a single
# value to check its shape, we use the provided point
# dictionary hoping that it can circumvent the Flat and
# HalfFlat undrawable distributions.
with _DrawValuesContextBlocker():
test_sample = comp_dist.random(point=point, size=None)
dist_shape = test_sample.shape
comp_dist_shapes.append(dist_shape)
# All component distributions must broadcast with each other
try:
broadcast_shape = np.broadcast(
*[np.empty(shape) for shape in comp_dist_shapes]
).shape
except Exception:
raise TypeError(
"Inferred comp_dist shapes do not broadcast "
"with each other. comp_dists inferred shapes "
"are: {}".format(comp_dist_shapes)
)
return comp_dist_shapes, broadcast_shape
def logp(self, value):
"""
Calculate log-probability of defined Mixture distribution at specified value.
Parameters
----------
value: numeric
Value(s) for which log-probability is calculated. If the log probabilities for multiple
values are desired the values must be provided in a numpy array or theano tensor
Returns
-------
TensorVariable
"""
w = self.w
return bound(
logsumexp(tt.log(w) + self._comp_logp(value), axis=-1, keepdims=False),
w >= 0,
w <= 1,
tt.allclose(w.sum(axis=-1), 1),
broadcast_conditions=False,
)
def random(self, point=None, size=None):
"""
Draw random values from defined Mixture distribution.
Parameters
----------
point: dict, optional
Dict of variable values on which random values are to be
conditioned (uses default point if not specified).
size: int, optional
Desired size of random sample (returns one sample if not
specified).
Returns
-------
array
"""
# Convert size to tuple
size = to_tuple(size)
# Draw mixture weights and infer the comp_dists shapes
with _DrawValuesContext() as draw_context:
# We first need to check w and comp_tmp shapes and re compute size
w = draw_values([self.w], point=point, size=size)[0]
comp_dist_shapes, broadcast_shape = self.infer_comp_dist_shapes(point=point)
# When size is not None, it's hard to tell the w parameter shape
if size is not None and w.shape[: len(size)] == size:
w_shape = w.shape[len(size) :]
else:
w_shape = w.shape
# Try to determine parameter shape and dist_shape
if self.comp_is_distribution:
param_shape = np.broadcast(np.empty(w_shape), np.empty(broadcast_shape)).shape
else:
param_shape = np.broadcast(np.empty(w_shape), np.empty(broadcast_shape + (1,))).shape
if np.asarray(self.shape).size != 0:
dist_shape = np.broadcast(np.empty(self.shape), np.empty(param_shape[:-1])).shape
else:
dist_shape = param_shape[:-1]
# Try to determine the size that must be used to get the mixture
# components (i.e. get random choices using w).
# 1. There must be size independent choices based on w.
# 2. There must also be independent draws for each non singleton axis
# of w.
# 3. There must also be independent draws for each dimension added by
# self.shape with respect to the w.ndim. These usually correspond to
# observed variables with batch shapes
wsh = (1,) * (len(dist_shape) - len(w_shape) + 1) + w_shape[:-1]
psh = (1,) * (len(dist_shape) - len(param_shape) + 1) + param_shape[:-1]
w_sample_size = []
# Loop through the dist_shape to get the conditions 2 and 3 first
for i in range(len(dist_shape)):
if dist_shape[i] != psh[i] and wsh[i] == 1:
# self.shape[i] is a non singleton dimension (usually caused by
# observed data)
sh = dist_shape[i]
else:
sh = wsh[i]
w_sample_size.append(sh)
if size is not None and w_sample_size[: len(size)] != size:
w_sample_size = size + tuple(w_sample_size)
# Broadcast w to the w_sample_size (add a singleton last axis for the
# mixture components)
w = broadcast_distribution_samples([w, np.empty(w_sample_size + (1,))], size=size)[0]
# Semiflatten the mixture weights. The last axis is the number of
# mixture mixture components, and the rest is all about size,
# dist_shape and broadcasting
w_ = np.reshape(w, (-1, w.shape[-1]))
w_samples = random_choice(p=w_, size=None) # w's shape already includes size
# Now we broadcast the chosen components to the dist_shape
w_samples = np.reshape(w_samples, w.shape[:-1])
if size is not None and dist_shape[: len(size)] != size:
w_samples = np.broadcast_to(w_samples, size + dist_shape)
else:
w_samples = np.broadcast_to(w_samples, dist_shape)
# When size is not None, maybe dist_shape partially overlaps with size
if size is not None:
if size == dist_shape:
size = None
elif size[-len(dist_shape) :] == dist_shape:
size = size[: len(size) - len(dist_shape)]
# We get an integer _size instead of a tuple size for drawing the
# mixture, then we just reshape the output
if size is None:
_size = None
else:
_size = int(np.prod(size))
# Compute the total size of the mixture's random call with size
if _size is not None:
output_size = int(_size * np.prod(dist_shape) * param_shape[-1])
else:
output_size = int(np.prod(dist_shape) * param_shape[-1])
# Get the size we need for the mixture's random call
if self.comp_is_distribution:
mixture_size = int(output_size // np.prod(broadcast_shape))
else:
mixture_size = int(output_size // (np.prod(broadcast_shape) * param_shape[-1]))
if mixture_size == 1 and _size is None:
mixture_size = None
# Sample from the mixture
with draw_context:
mixed_samples = self._comp_samples(
point=point,
size=mixture_size,
broadcast_shape=broadcast_shape,
comp_dist_shapes=comp_dist_shapes,
)
# Test that the mixture has the same number of "samples" as w
if w_samples.size != (mixed_samples.size // w.shape[-1]):
raise ValueError(
"Inconsistent number of samples from the "
"mixture and mixture weights. Drew {} mixture "
"weights elements, and {} samples from the "
"mixture components.".format(w_samples.size, mixed_samples.size // w.shape[-1])
)
# Semiflatten the mixture to be able to zip it with w_samples
w_samples = w_samples.flatten()
mixed_samples = np.reshape(mixed_samples, (-1, w.shape[-1]))
# Select the samples from the mixture
samples = np.array([mixed[choice] for choice, mixed in zip(w_samples, mixed_samples)])
# Reshape the samples to the correct output shape
if size is None:
samples = np.reshape(samples, dist_shape)
else:
samples = np.reshape(samples, size + dist_shape)
return samples
def _distr_parameters_for_repr(self):
return []
class NormalMixture(Mixture):
R"""
Normal mixture log-likelihood
.. math::
f(x \mid w, \mu, \sigma^2) = \sum_{i = 1}^n w_i N(x \mid \mu_i, \sigma^2_i)
======== =======================================
Support :math:`x \in \mathbb{R}`
Mean :math:`\sum_{i = 1}^n w_i \mu_i`
Variance :math:`\sum_{i = 1}^n w_i^2 \sigma^2_i`
======== =======================================
Parameters
----------
w: array of floats
w >= 0 and w <= 1
the mixture weights
mu: array of floats
the component means
sigma: array of floats
the component standard deviations
tau: array of floats
the component precisions
comp_shape: shape of the Normal component
notice that it should be different than the shape
of the mixture distribution, with one axis being
the number of components.
Notes
-----
You only have to pass in sigma or tau, but not both.
Examples
--------
.. code-block:: python
n_components = 3
with pm.Model() as gauss_mix:
μ = pm.Normal(
"μ",
data.mean(),
10,
shape=n_components,
transform=pm.transforms.ordered,
testval=[1, 2, 3],
)
σ = pm.HalfNormal("σ", 10, shape=n_components)
weights = pm.Dirichlet("w", np.ones(n_components))
pm.NormalMixture("y", w=weights, mu=μ, sigma=σ, observed=data)
"""
def __init__(self, w, mu, sigma=None, tau=None, sd=None, comp_shape=(), *args, **kwargs):
if sd is not None:
sigma = sd
_, sigma = get_tau_sigma(tau=tau, sigma=sigma)
self.mu = mu = tt.as_tensor_variable(mu)
self.sigma = self.sd = sigma = tt.as_tensor_variable(sigma)
super().__init__(w, Normal.dist(mu, sigma=sigma, shape=comp_shape), *args, **kwargs)
def _distr_parameters_for_repr(self):
return ["w", "mu", "sigma"]
class MixtureSameFamily(Distribution):
R"""
Mixture Same Family log-likelihood
This distribution handles mixtures of multivariate distributions in a vectorized
manner. It is used over Mixture distribution when the mixture components are not
present on the last axis of components' distribution.
.. math::f(x \mid w, \theta) = \sum_{i = 1}^n w_i f_i(x \mid \theta_i)\textrm{ Along mixture\_axis}
======== ============================================
Support :math:`\textrm{support}(f)`
Mean :math:`w\mu`
======== ============================================
Parameters
----------
w: array of floats
w >= 0 and w <= 1
the mixture weights
comp_dists: PyMC3 distribution (e.g. `pm.Multinomial.dist(...)`)
The `comp_dists` can be scalar or multidimensional distribution.
Assuming its shape to be - (i_0, ..., i_n, mixture_axis, i_n+1, ..., i_N),
the `mixture_axis` is consumed resulting in the shape of mixture as -
(i_0, ..., i_n, i_n+1, ..., i_N).
mixture_axis: int, default = -1
Axis representing the mixture components to be reduced in the mixture.
Notes
-----
The default behaviour resembles Mixture distribution wherein the last axis of component
distribution is reduced.
"""
def __init__(self, w, comp_dists, mixture_axis=-1, *args, **kwargs):
self.w = tt.as_tensor_variable(w)
if not isinstance(comp_dists, Distribution):
raise TypeError(
"The MixtureSameFamily distribution only accepts Distribution "
f"instances as its components. Got {type(comp_dists)} instead."
)
self.comp_dists = comp_dists
if mixture_axis < 0:
mixture_axis = len(comp_dists.shape) + mixture_axis
if mixture_axis < 0:
raise ValueError(
"`mixture_axis` is supposed to be in shape of components' distribution. "
f"Got {mixture_axis + len(comp_dists.shape)} axis instead out of the bounds."
)
comp_shape = to_tuple(comp_dists.shape)
self.shape = comp_shape[:mixture_axis] + comp_shape[mixture_axis + 1 :]
self.mixture_axis = mixture_axis
kwargs.setdefault("dtype", self.comp_dists.dtype)
# Compute the mode so we don't always have to pass a testval
defaults = kwargs.pop("defaults", [])
event_shape = self.comp_dists.shape[mixture_axis + 1 :]
_w = tt.shape_padleft(
tt.shape_padright(w, len(event_shape)),
len(self.comp_dists.shape) - w.ndim - len(event_shape),
)
mode = take_along_axis(
self.comp_dists.mode,
tt.argmax(_w, keepdims=True),
axis=mixture_axis,
)
self.mode = mode[(..., 0) + (slice(None),) * len(event_shape)]
if not all_discrete(comp_dists):
mean = tt.as_tensor_variable(self.comp_dists.mean)
self.mean = (_w * mean).sum(axis=mixture_axis)
if "mean" not in defaults:
defaults.append("mean")
defaults.append("mode")
super().__init__(defaults=defaults, *args, **kwargs)
def logp(self, value):
"""
Calculate log-probability of defined ``MixtureSameFamily`` distribution at specified value.
Parameters
----------
value : numeric
Value(s) for which log-probability is calculated. If the log probabilities for multiple
values are desired the values must be provided in a numpy array or theano tensor
Returns
-------
TensorVariable
"""
comp_dists = self.comp_dists
w = self.w
mixture_axis = self.mixture_axis
event_shape = comp_dists.shape[mixture_axis + 1 :]
# To be able to broadcast the comp_dists.logp with w and value
# We first have to pad the shape of w to the right with ones
# so that it can broadcast with the event_shape.
w = tt.shape_padright(w, len(event_shape))
# Second, we have to add the mixture_axis to the value tensor
# To insert the mixture axis at the correct location, we use the
# negative number index. This way, we can also handle situations
# in which, value is an observed value with more batch dimensions
# than the ones present in the comp_dists.
comp_dists_ndim = len(comp_dists.shape)
value = tt.shape_padaxis(value, axis=mixture_axis - comp_dists_ndim)
comp_logp = comp_dists.logp(value)
return bound(
logsumexp(tt.log(w) + comp_logp, axis=mixture_axis, keepdims=False),
w >= 0,
w <= 1,
tt.allclose(w.sum(axis=mixture_axis - comp_dists_ndim), 1),
broadcast_conditions=False,
)
def random(self, point=None, size=None):
"""
Draw random values from defined ``MixtureSameFamily`` distribution.
Parameters
----------
point : dict, optional
Dict of variable values on which random values are to be
conditioned (uses default point if not specified).
size : int, optional
Desired size of random sample (returns one sample if not
specified).
Returns
-------
array
"""
sample_shape = to_tuple(size)
mixture_axis = self.mixture_axis
# First we draw values for the mixture component weights
(w,) = draw_values([self.w], point=point, size=size)
# We now draw random choices from those weights.
# However, we have to ensure that the number of choices has the
# sample_shape present.
w_shape = w.shape
batch_shape = self.comp_dists.shape[: mixture_axis + 1]
param_shape = np.broadcast(np.empty(w_shape), np.empty(batch_shape)).shape
event_shape = self.comp_dists.shape[mixture_axis + 1 :]
if np.asarray(self.shape).size != 0:
comp_dists_ndim = len(self.comp_dists.shape)
# If event_shape of both comp_dists and supplied shape matches,
# broadcast only batch_shape
# else broadcast the entire given shape with batch_shape.
if list(self.shape[mixture_axis - comp_dists_ndim + 1 :]) == list(event_shape):
dist_shape = np.broadcast(
np.empty(self.shape[:mixture_axis]), np.empty(param_shape[:mixture_axis])
).shape
else:
dist_shape = np.broadcast(
np.empty(self.shape), np.empty(param_shape[:mixture_axis])
).shape
else:
dist_shape = param_shape[:mixture_axis]
# Try to determine the size that must be used to get the mixture
# components (i.e. get random choices using w).
# 1. There must be size independent choices based on w.
# 2. There must also be independent draws for each non singleton axis
# of w.
# 3. There must also be independent draws for each dimension added by
# self.shape with respect to the w.ndim. These usually correspond to
# observed variables with batch shapes
wsh = (1,) * (len(dist_shape) - len(w_shape) + 1) + w_shape[:mixture_axis]
psh = (1,) * (len(dist_shape) - len(param_shape) + 1) + param_shape[:mixture_axis]
w_sample_size = []
# Loop through the dist_shape to get the conditions 2 and 3 first
for i in range(len(dist_shape)):
if dist_shape[i] != psh[i] and wsh[i] == 1:
# self.shape[i] is a non singleton dimension (usually caused by
# observed data)
sh = dist_shape[i]
else:
sh = wsh[i]
w_sample_size.append(sh)
if sample_shape is not None and w_sample_size[: len(sample_shape)] != sample_shape:
w_sample_size = sample_shape + tuple(w_sample_size)
choices = random_choice(p=w, size=w_sample_size)
# We now draw samples from the mixture components random method
comp_samples = self.comp_dists.random(point=point, size=size)
if comp_samples.shape[: len(sample_shape)] != sample_shape:
comp_samples = np.broadcast_to(
comp_samples,
shape=sample_shape + comp_samples.shape,
)
# At this point the shapes of the arrays involved are:
# comp_samples.shape = (sample_shape, batch_shape, mixture_axis, event_shape)
# choices.shape = (sample_shape, batch_shape)
#
# To be able to take the choices along the mixture_axis of the
# comp_samples, we have to add in dimensions to the right of the
# choices array.
# We also need to make sure that the batch_shapes of both the comp_samples
# and choices broadcast with each other.
choices = np.reshape(choices, choices.shape + (1,) * (1 + len(event_shape)))
choices, comp_samples = get_broadcastable_dist_samples([choices, comp_samples], size=size)
# We now take the choices of the mixture components along the mixture_axis
# but we use the negative index representation to be able to handle the
# sample_shape
samples = np.take_along_axis(
comp_samples, choices, axis=mixture_axis - len(self.comp_dists.shape)
)
# The `samples` array still has the `mixture_axis`, so we must remove it:
output = samples[(..., 0) + (slice(None),) * len(event_shape)]
return output
def _distr_parameters_for_repr(self):
return []