def axon_replenish(rs=[0.1, 0.5, 1.0]): data = [] for r in rs: syn = Synapse(verbose=args.verbose) axon = syn.create_axon( replenish_rate=r, reuptake_rate=0.0, verbose=args.verbose) axon.set_concentration(0.0) axon_recording = [] for _ in xrange(50): axon_recording.append(axon.get_concentration()) axon.replenish() axon_recording.append(axon.get_concentration()) data.append(("replenish %s" % str(r), axon_recording)) if not args.silent: plot(data, title="Replenish (replenish rate)")
def axon_reuptake(rs=[0.1, 0.5, 1.0], print_synaptic_cleft=False): data = [] for r in rs: syn = Synapse(verbose=args.verbose) syn.synaptic_cleft.add_concentration(0.5) axon = syn.create_axon( replenish_rate=0.0, reuptake_rate=r, verbose=args.verbose) axon.set_concentration(0.0) record_components = [("reuptake %s" % str(r), axon)] if print_synaptic_cleft: record_components.append(( "synaptic cleft %s" % str(r), syn.synaptic_cleft)) data += simulate_synapse(syn, record_components = record_components, iterations = 100) if not args.silent: plot(data, title="Reuptake (reuptake rate)")
def create_synapse(presynaptic, postsynaptic, active_molecules=None, transporter=Transporters.GLUTAMATE, receptor=Receptors.AMPA, enzyme_concentration=1.0, axon_delay=0, dendrite_strength=0.0015): synapse = Synapse( postsynaptic_id=postsynaptic.neuron_id, initial_enzyme_concentration=enzyme_concentration, active_molecules=active_molecules) axon = synapse.create_axon( transporter=transporter, replenish_rate=0.1, reuptake_rate=0.5, capacity=1.0, delay=axon_delay) dendrite = synapse.create_dendrite( receptor=receptor, density=0.25, strength=dendrite_strength) presynaptic.axons.append(axon) presynaptic.synapses.append(synapse) presynaptic.synapses_stable.append(True) postsynaptic.dendrites.append(dendrite) return synapse