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"ABCD": {
"format": "ModECI MDF v0.4",
"graphs": {
"ABCD": {
"notes": "Example of a simplified network",
"nodes": {
"A_input": {
"metadata": {
"color": "0.2 0.2 0.2",
"radius": 3,
"region": "region1"
},
"parameters": {
"variable": {
"value": [
2.0
]
},
"spike": {
"default_initial_value": [
0
],
"conditions": {
"condition_0_on": {
"test": "OUTPUT < 0",
"value": 1
},
"condition_0_off": {
"test": "spike > 0",
"value": 0
}
}
},
"V": {
"value": 0
},
"OUTPUT": {
"value": "variable"
}
},
"input_ports": {
"INPUT": {}
},
"output_ports": {
"spike": {
"value": "spike"
},
"V": {
"value": "V"
},
"OUTPUT": {
"value": "OUTPUT"
}
},
"notes": "Cell: [Cell(notes=None, id='a_input', parameters={'variable': 'A_initial'}, neuroml2_source_file=None, lems_source_file='PNL.xml', neuroml2_cell=None, pynn_cell=None, arbor_cell=None, bindsnet_node=None)] is defined in PNL.xml and in Lems is: Component, id: a_input, type: inputNode,\n parameters: {'variable': '2'}\n parent: None\n"
},
"A": {
"metadata": {
"color": "0 0.9 0",
"radius": 5,
"region": "region1"
},
"parameters": {
"slope": {
"value": [
2.0
]
},
"intercept": {
"value": [
2.0
]
},
"spike": {
"default_initial_value": [
0
],
"conditions": {
"condition_0_on": {
"test": "OUTPUT < 0",
"value": 1
},
"condition_0_off": {
"test": "spike > 0",
"value": 0
}
}
},
"V": {
"value": 0
},
"OUTPUT": {
"value": "INPUT*slope + intercept"
}
},
"input_ports": {
"INPUT": {}
},
"output_ports": {
"spike": {
"value": "spike"
},
"V": {
"value": "V"
},
"OUTPUT": {
"value": "OUTPUT"
}
},
"notes": "Cell: [Cell(notes=None, id='a', parameters=None, neuroml2_source_file=None, lems_source_file='PNL.xml', neuroml2_cell=None, pynn_cell=None, arbor_cell=None, bindsnet_node=None)] is defined in PNL.xml and in Lems is: Component, id: a, type: pnlLinearFunctionTM,\n parameters: {'slope': '2', 'intercept': '2'}\n parent: None\n"
},
"B": {
"metadata": {
"color": ".8 .8 .8",
"radius": 5,
"region": "region1"
},
"parameters": {
"gain": {
"value": [
1.0
]
},
"bias": {
"value": [
0.0
]
},
"x_0": {
"value": [
0.0
]
},
"offset": {
"value": [
0.0
]
},
"spike": {
"default_initial_value": [
0
],
"conditions": {
"condition_0_on": {
"test": "OUTPUT < 0",
"value": 1
},
"condition_0_off": {
"test": "spike > 0",
"value": 0
}
}
},
"V": {
"value": 0
},
"OUTPUT": {
"value": "1/(1+numpy.exp(-1*gain*(INPUT + bias - x_0)+offset))"
}
},
"input_ports": {
"INPUT": {}
},
"output_ports": {
"spike": {
"value": "spike"
},
"V": {
"value": "V"
},
"OUTPUT": {
"value": "OUTPUT"
}
},
"notes": "Cell: [Cell(notes=None, id='b', parameters=None, neuroml2_source_file=None, lems_source_file='PNL.xml', neuroml2_cell=None, pynn_cell=None, arbor_cell=None, bindsnet_node=None)] is defined in PNL.xml and in Lems is: Component, id: b, type: pnlLogisticFunctionTM,\n parameters: {'gain': '1.0', 'bias': '0.0', 'x_0': '0.0', 'offset': '0.0'}\n parent: None\n"
},
"C": {
"metadata": {
"color": "0.7 0.7 0.7",
"radius": 5,
"region": "region1"
},
"parameters": {
"rate": {
"value": [
1.0
]
},
"bias": {
"value": [
0.0
]
},
"scale": {
"value": [
1.0
]
},
"offset": {
"value": [
0.0
]
},
"spike": {
"default_initial_value": [
0
],
"conditions": {
"condition_0_on": {
"test": "OUTPUT < 0",
"value": 1
},
"condition_0_off": {
"test": "spike > 0",
"value": 0
}
}
},
"V": {
"value": 0
},
"OUTPUT": {
"value": "scale * numpy.exp((rate * INPUT) + bias) + offset"
}
},
"input_ports": {
"INPUT": {}
},
"output_ports": {
"spike": {
"value": "spike"
},
"V": {
"value": "V"
},
"OUTPUT": {
"value": "OUTPUT"
}
},
"notes": "Cell: [Cell(notes=None, id='c', parameters=None, neuroml2_source_file=None, lems_source_file='PNL.xml', neuroml2_cell=None, pynn_cell=None, arbor_cell=None, bindsnet_node=None)] is defined in PNL.xml and in Lems is: Component, id: c, type: pnlExponentialFunctionTM,\n parameters: {'rate': '1.0', 'bias': '0.0', 'scale': '1.0', 'offset': '0.0'}\n parent: None\n"
},
"D": {
"metadata": {
"color": "0.7 0 0",
"radius": 5,
"region": "region1"
},
"parameters": {
"rate": {
"value": [
0.05
]
},
"time_step_size": {
"value": [
0.1
]
},
"spike": {
"default_initial_value": [
0
],
"conditions": {
"condition_0_on": {
"test": "OUTPUT < 0",
"value": 1
},
"condition_0_off": {
"test": "spike > 0",
"value": 0
}
}
},
"OUTPUT": {
"time_derivative": "(rate * INPUT) / time_step_size",
"default_initial_value": [
0
]
},
"V": {
"value": 0
}
},
"input_ports": {
"INPUT": {}
},
"output_ports": {
"spike": {
"value": "spike"
},
"OUTPUT": {
"value": "OUTPUT"
},
"V": {
"value": "V"
}
},
"notes": "Cell: [Cell(notes=None, id='d', parameters=None, neuroml2_source_file=None, lems_source_file='PNL.xml', neuroml2_cell=None, pynn_cell=None, arbor_cell=None, bindsnet_node=None)] is defined in PNL.xml and in Lems is: Component, id: d, type: pnlSimpleIntegratorMechanism,\n parameters: {'rate': '0.05', 'time_step_size': '0.1s'}\n parent: None\n"
},
"proj_input_rsDL": {
"parameters": {
"weight": {
"value": [
1.0
]
},
"SEC": {
"value": [
1.0
]
},
"rpeer": {
"value": "peer_OUTPUT"
},
"I": {
"value": "weight * rpeer"
}
},
"input_ports": {
"peer_OUTPUT": {}
},
"output_ports": {
"I": {
"value": "I"
}
},
"notes": "Cell: [Synapse(notes=None, id='rsDL', parameters=None, neuroml2_source_file=None, lems_source_file='PNL.xml', pynn_synapse_type=None, pynn_receptor_type=None)] is defined in PNL.xml and in Lems is: Component, id: rsDL, type: synapseDL,\n parameters: {}\n parent: None\n"
},
"proj0_rsDL": {
"parameters": {
"weight": {
"value": [
1.0
]
},
"SEC": {
"value": [
1.0
]
},
"rpeer": {
"value": "peer_OUTPUT"
},
"I": {
"value": "weight * rpeer"
}
},
"input_ports": {
"peer_OUTPUT": {}
},
"output_ports": {
"I": {
"value": "I"
}
},
"notes": "Cell: [Synapse(notes=None, id='rsDL', parameters=None, neuroml2_source_file=None, lems_source_file='PNL.xml', pynn_synapse_type=None, pynn_receptor_type=None)] is defined in PNL.xml and in Lems is: Component, id: rsDL, type: synapseDL,\n parameters: {}\n parent: None\n"
},
"proj1_rsDL": {
"parameters": {
"weight": {
"value": [
1.0
]
},
"SEC": {
"value": [
1.0
]
},
"rpeer": {
"value": "peer_OUTPUT"
},
"I": {
"value": "weight * rpeer"
}
},
"input_ports": {
"peer_OUTPUT": {}
},
"output_ports": {
"I": {
"value": "I"
}
},
"notes": "Cell: [Synapse(notes=None, id='rsDL', parameters=None, neuroml2_source_file=None, lems_source_file='PNL.xml', pynn_synapse_type=None, pynn_receptor_type=None)] is defined in PNL.xml and in Lems is: Component, id: rsDL, type: synapseDL,\n parameters: {}\n parent: None\n"
},
"proj2_rsDL": {
"parameters": {
"weight": {
"value": [
1.0
]
},
"SEC": {
"value": [
1.0
]
},
"rpeer": {
"value": "peer_OUTPUT"
},
"I": {
"value": "weight * rpeer"
}
},
"input_ports": {
"peer_OUTPUT": {}
},
"output_ports": {
"I": {
"value": "I"
}
},
"notes": "Cell: [Synapse(notes=None, id='rsDL', parameters=None, neuroml2_source_file=None, lems_source_file='PNL.xml', pynn_synapse_type=None, pynn_receptor_type=None)] is defined in PNL.xml and in Lems is: Component, id: rsDL, type: synapseDL,\n parameters: {}\n parent: None\n"
},
"proj3_rsDL": {
"parameters": {
"weight": {
"value": [
1.0
]
},
"SEC": {
"value": [
1.0
]
},
"rpeer": {
"value": "peer_OUTPUT"
},
"I": {
"value": "weight * rpeer"
}
},
"input_ports": {
"peer_OUTPUT": {}
},
"output_ports": {
"I": {
"value": "I"
}
},
"notes": "Cell: [Synapse(notes=None, id='rsDL', parameters=None, neuroml2_source_file=None, lems_source_file='PNL.xml', pynn_synapse_type=None, pynn_receptor_type=None)] is defined in PNL.xml and in Lems is: Component, id: rsDL, type: synapseDL,\n parameters: {}\n parent: None\n"
}
},
"edges": {
"A_TO_proj_input_rsDL": {
"name": "A_TO_proj_input_rsDL",
"sender_port": "OUTPUT",
"receiver_port": "peer_OUTPUT",
"sender": "A",
"receiver": "proj_input_rsDL"
},
"proj_input_rsDL_TO_B": {
"name": "proj_input_rsDL_TO_B",
"sender_port": "I",
"receiver_port": "INPUT",
"sender": "proj_input_rsDL",
"receiver": "B"
},
"A_input_TO_proj0_rsDL": {
"name": "A_input_TO_proj0_rsDL",
"sender_port": "OUTPUT",
"receiver_port": "peer_OUTPUT",
"sender": "A_input",
"receiver": "proj0_rsDL"
},
"proj0_rsDL_TO_A": {
"name": "proj0_rsDL_TO_A",
"sender_port": "I",
"receiver_port": "INPUT",
"sender": "proj0_rsDL",
"receiver": "A"
},
"A_TO_proj1_rsDL": {
"name": "A_TO_proj1_rsDL",
"sender_port": "OUTPUT",
"receiver_port": "peer_OUTPUT",
"sender": "A",
"receiver": "proj1_rsDL"
},
"proj1_rsDL_TO_C": {
"name": "proj1_rsDL_TO_C",
"sender_port": "I",
"receiver_port": "INPUT",
"sender": "proj1_rsDL",
"receiver": "C"
},
"B_TO_proj2_rsDL": {
"name": "B_TO_proj2_rsDL",
"sender_port": "OUTPUT",
"receiver_port": "peer_OUTPUT",
"sender": "B",
"receiver": "proj2_rsDL"
},
"proj2_rsDL_TO_D": {
"name": "proj2_rsDL_TO_D",
"sender_port": "I",
"receiver_port": "INPUT",
"sender": "proj2_rsDL",
"receiver": "D"
},
"C_TO_proj3_rsDL": {
"name": "C_TO_proj3_rsDL",
"sender_port": "OUTPUT",
"receiver_port": "peer_OUTPUT",
"sender": "C",
"receiver": "proj3_rsDL"
},
"proj3_rsDL_TO_D": {
"name": "proj3_rsDL_TO_D",
"sender_port": "I",
"receiver_port": "INPUT",
"sender": "proj3_rsDL",
"receiver": "D"
}
}
}
}
}
}
|