booldog.network

Defines booldog.network.BoolDogModel, the central class of the package.

BoolDogModel carries almost no logic of its own: it is a composition of mixins (Boolean-network operations, structural modifications, continuous/ODE simulation, and I/O), each implemented in its own subpackage. This module only owns __init__, node/index bookkeeping, and the primes property.

Attributes

logger

Classes

BoolDogModel

A class to represent a Boolean network.

Module Contents

booldog.network.logger

class booldog.network.BoolDogModel(nodes=None, primes=None, modelinfo=None)

Bases: booldog.boolean.BooleanNetworkMixin, booldog.boolean.BooleanNetworkModificationMixin, booldog.continuous.ContinuousMixin, booldog.io.BoolDogModelIOFromMixin, booldog.io.BoolDogModelIOToMixin

A class to represent a Boolean network.

This class is a composition of mixins: booldog.boolean.BooleanNetworkMixin (read-only Boolean-network operations), booldog.boolean.BooleanNetworkModificationMixin (structural edits), booldog.continuous.ContinuousMixin (ODE-based continuous simulation), and booldog.io.BoolDogModelIOFromMixin/booldog.io.BoolDogModelIOToMixin (reading/writing various network exchange formats). This class (network.py) itself only defines __init__, node/index bookkeeping, and the primes property.

nodes

the network’s nodes, keyed by identifier.

Type:: dict of str to BoolDogNode

_primes_cached = True

modelinfo

model metadata; a default instance if modelinfo was not provided.

Type:: BoolDogModelInfo

modifications = []

audit trail of structural modifications (see booldog.boolean.modifications.Modification) applied to this network via add_node/remove_node(s)/update_node/modify_network.

Type:: list of Modification

_set_node_ids_and_index()

Set the sorted node identifiers and index mapping to integers.

Called on initialisation, and again after any structural modification (see booldog.boolean.modifications.BooleanNetworkModificationMixin._update_model_object) to keep node_ids/index consistent with self.nodes.

property n: Number of nodes in the network

property primes: Prime implicants of the Boolean network. See PyBoolNet:prime implicants for more information.

__repr__(): String representation of the model, showing its class and node count.

__len__(): Number of nodes in the network (same as n).