# Copyright (c) 2017-2019 Uber Technologies, Inc.
# SPDX-License-Identifier: Apache-2.0
from functools import reduce
import warnings
import torch
import pyro
import pyro.poutine as poutine
from pyro.poutine.util import prune_subsample_sites
def _guess_max_plate_nesting(model, args, kwargs):
"""
Guesses max_plate_nesting by running the model once
without enumeration. This optimistically assumes static model
structure.
"""
with poutine.block():
model_trace = poutine.trace(model).get_trace(*args, **kwargs)
sites = [site for site in model_trace.nodes.values()
if site["type"] == "sample"]
dims = [frame.dim
for site in sites
for frame in site["cond_indep_stack"]
if frame.vectorized]
max_plate_nesting = -min(dims) if dims else 0
return max_plate_nesting
def _predictive_sequential(model, posterior_samples, model_args, model_kwargs,
num_samples, return_site_shapes, return_trace=False):
collected = []
samples = [{k: v[i] for k, v in posterior_samples.items()} for i in range(num_samples)]
for i in range(num_samples):
trace = poutine.trace(poutine.condition(model, samples[i])).get_trace(*model_args, **model_kwargs)
if return_trace:
collected.append(trace)
else:
collected.append({site: trace.nodes[site]['value'] for site in return_site_shapes})
if return_trace:
return collected
else:
return {site: torch.stack([s[site] for s in collected]).reshape(shape)
for site, shape in return_site_shapes.items()}
def _predictive(model, posterior_samples, num_samples, return_sites=(),
return_trace=False, parallel=False, model_args=(), model_kwargs={}):
max_plate_nesting = _guess_max_plate_nesting(model, model_args, model_kwargs)
vectorize = pyro.plate("_num_predictive_samples", num_samples, dim=-max_plate_nesting-1)
model_trace = prune_subsample_sites(poutine.trace(model).get_trace(*model_args, **model_kwargs))
reshaped_samples = {}
for name, sample in posterior_samples.items():
sample_shape = sample.shape[1:]
sample = sample.reshape((num_samples,) + (1,) * (max_plate_nesting - len(sample_shape)) + sample_shape)
reshaped_samples[name] = sample
if return_trace:
trace = poutine.trace(poutine.condition(vectorize(model), reshaped_samples))\
.get_trace(*model_args, **model_kwargs)
return trace
return_site_shapes = {}
for site in model_trace.stochastic_nodes + model_trace.observation_nodes:
append_ndim = max_plate_nesting - len(model_trace.nodes[site]["fn"].batch_shape)
site_shape = (num_samples,) + (1,) * append_ndim + model_trace.nodes[site]['value'].shape
# non-empty return-sites
if return_sites:
if site in return_sites:
return_site_shapes[site] = site_shape
# special case (for guides): include all sites
elif return_sites is None:
return_site_shapes[site] = site_shape
# default case: return sites = ()
# include all sites not in posterior samples
elif site not in posterior_samples:
return_site_shapes[site] = site_shape
# handle _RETURN site
if return_sites is not None and '_RETURN' in return_sites:
value = model_trace.nodes['_RETURN']['value']
shape = (num_samples,) + value.shape if torch.is_tensor(value) else None
return_site_shapes['_RETURN'] = shape
if not parallel:
return _predictive_sequential(model, posterior_samples, model_args, model_kwargs, num_samples,
return_site_shapes, return_trace=False)
trace = poutine.trace(poutine.condition(vectorize(model), reshaped_samples))\
.get_trace(*model_args, **model_kwargs)
predictions = {}
for site, shape in return_site_shapes.items():
value = trace.nodes[site]['value']
if site == '_RETURN' and shape is None:
predictions[site] = value
continue
if value.numel() < reduce((lambda x, y: x * y), shape):
predictions[site] = value.expand(shape)
else:
predictions[site] = value.reshape(shape)
return predictions
[docs]class Predictive(torch.nn.Module):
"""
EXPERIMENTAL class used to construct predictive distribution. The predictive
distribution is obtained by running the `model` conditioned on latent samples
from `posterior_samples`. If a `guide` is provided, then posterior samples
from all the latent sites are also returned.
.. warning::
The interface for the :class:`Predictive` class is experimental, and
might change in the future.
:param model: Python callable containing Pyro primitives.
:param dict posterior_samples: dictionary of samples from the posterior.
:param callable guide: optional guide to get posterior samples of sites not present
in `posterior_samples`.
:param int num_samples: number of samples to draw from the predictive distribution.
This argument has no effect if ``posterior_samples`` is non-empty, in which case,
the leading dimension size of samples in ``posterior_samples`` is used.
:param return_sites: sites to return; by default only sample sites not present
in `posterior_samples` are returned.
:type return_sites: list, tuple, or set
:param bool parallel: predict in parallel by wrapping the existing model
in an outermost `plate` messenger. Note that this requires that the model has
all batch dims correctly annotated via :class:`~pyro.plate`. Default is `False`.
"""
def __init__(self, model, posterior_samples=None, guide=None, num_samples=None,
return_sites=(), parallel=False):
super().__init__()
if posterior_samples is None:
if num_samples is None:
raise ValueError("Either posterior_samples or num_samples must be specified.")
posterior_samples = {}
for name, sample in posterior_samples.items():
batch_size = sample.shape[0]
if num_samples is None:
num_samples = batch_size
elif num_samples != batch_size:
warnings.warn("Sample's leading dimension size {} is different from the "
"provided {} num_samples argument. Defaulting to {}."
.format(batch_size, num_samples, batch_size), UserWarning)
num_samples = batch_size
if num_samples is None:
raise ValueError("No sample sites in posterior samples to infer `num_samples`.")
if guide is not None and posterior_samples:
raise ValueError("`posterior_samples` cannot be provided with the `guide` argument.")
if return_sites is not None:
assert isinstance(return_sites, (list, tuple, set))
self.model = model
self.posterior_samples = {} if posterior_samples is None else posterior_samples
self.num_samples = num_samples
self.guide = guide
self.return_sites = return_sites
self.parallel = parallel
[docs] def call(self, *args, **kwargs):
"""
Method that calls :meth:`forward` and returns parameter values of the
guide as a `tuple` instead of a `dict`, which is a requirement for
JIT tracing. Unlike :meth:`forward`, this method can be traced by
:func:`torch.jit.trace_module`.
.. warning::
This method may be removed once PyTorch JIT tracer starts accepting
`dict` as valid return types. See
`issue <https://github.com/pytorch/pytorch/issues/27743>`_.
"""
result = self.forward(*args, **kwargs)
return tuple(v for _, v in sorted(result.items()))
[docs] def forward(self, *args, **kwargs):
"""
Returns dict of samples from the predictive distribution. By default, only sample sites not
contained in `posterior_samples` are returned. This can be modified by changing the
`return_sites` keyword argument of this :class:`Predictive` instance.
:param args: model arguments.
:param kwargs: model keyword arguments.
"""
posterior_samples = self.posterior_samples
return_sites = self.return_sites
if self.guide is not None:
# return all sites by default if a guide is provided.
return_sites = None if not return_sites else return_sites
posterior_samples = _predictive(self.guide, posterior_samples, self.num_samples, return_sites=None,
parallel=self.parallel, model_args=args, model_kwargs=kwargs)
return _predictive(self.model, posterior_samples, self.num_samples, return_sites=return_sites,
parallel=self.parallel, model_args=args, model_kwargs=kwargs)
[docs] def get_samples(self, *args, **kwargs):
warnings.warn("The method `.get_samples` has been deprecated in favor of `.forward`.",
DeprecationWarning)
return self.forward(*args, **kwargs)
[docs] def get_vectorized_trace(self, *args, **kwargs):
"""
Returns a single vectorized `trace` from the predictive distribution. Note that this
requires that the model has all batch dims correctly annotated via :class:`~pyro.plate`.
:param args: model arguments.
:param kwargs: model keyword arguments.
"""
posterior_samples = self.posterior_samples
if self.guide is not None:
posterior_samples = _predictive(self.guide, posterior_samples, self.num_samples,
parallel=self.parallel, model_args=args, model_kwargs=kwargs)
return _predictive(self.model, posterior_samples, self.num_samples,
return_trace=True, model_args=args, model_kwargs=kwargs)