Source code for gerrychain.chain

from .constraints import Validator

[docs]class MarkovChain: """ MarkovChain is an iterator that allows the user to iterate over the states of a Markov chain run. Example usage: .. code-block:: python chain = MarkovChain(proposal, constraints, accept, initial_state, total_steps) for state in chain: # Do whatever you want - print output, compute scores, ... """ def __init__(self, proposal, constraints, accept, initial_state, total_steps): """ :param proposal: Function proposing the next state from the current state. :param constraints: A function with signature ``Partition -> bool`` determining whether the proposed next state is valid (passes all binary constraints). Usually this is a :class:`~gerrychain.constraints.Validator` class instance. :param accept: Function accepting or rejecting the proposed state. In the most basic use case, this always returns ``True``. But if the user wanted to use a Metropolis-Hastings acceptance rule, this is where you would implement it. :param initial_state: Initial :class:`gerrychain.partition.Partition` class. :param total_steps: Number of steps to run. """ if callable(constraints): is_valid = constraints else: is_valid = Validator(constraints) if not is_valid(initial_state): failed = [ constraint for constraint in is_valid.constraints if not constraint(initial_state) ] message = ( "The given initial_state is not valid according is_valid. " "The failed constraints were: " + ",".join([f.__name__ for f in failed]) ) raise ValueError(message) self.proposal = proposal self.is_valid = is_valid self.accept = accept self.total_steps = total_steps self.initial_state = initial_state self.state = initial_state def __iter__(self): self.counter = 0 self.state = self.initial_state return self def __next__(self): if self.counter == 0: self.counter += 1 return self.state while self.counter < self.total_steps: proposed_next_state = self.proposal(self.state) # Erase the parent of the parent, to avoid memory leak self.state.parent = None if self.is_valid(proposed_next_state): if self.accept(proposed_next_state): self.state = proposed_next_state self.counter += 1 return self.state raise StopIteration def __len__(self): return self.total_steps def __repr__(self): return "<MarkovChain [{} steps]>".format(len(self)) def with_progress_bar(self): from import tqdm return tqdm(self)