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Source-faithful physiology lab for Shim 2006. Public controls and outputs are mapped to real source symbols for electrophysiology.
Manifest
{
"io": {
"inputs": [
{
"name": "initial_membrane_voltage",
"label": "Initial Membrane Voltage",
"maps_to": "physiology_cellml_shim_2006_shimleemabenoma2006_model.initial_membrane_voltage",
"description": "Initial value for Membrane Voltage. Maps to source symbol `V`. Units: mV. Naming evidence: source symbol, component, or units provide a direct public name.",
"accepted_units": [
"mV"
]
},
{
"name": "initial_intracellular_sodium",
"label": "Initial Intracellular Sodium",
"maps_to": "physiology_cellml_shim_2006_shimleemabenoma2006_model.initial_intracellular_sodium",
"description": "Initial value for Intracellular Sodium. Maps to source symbol `Nai`. Units: mM. Naming evidence: source symbol, component, or units provide a direct public name.",
"accepted_units": [
"mM"
]
}
],
"outputs": [
{
"name": "state",
"label": "Selected Source State",
"maps_to": "physiology_cellml_shim_2006_shimleemabenoma2006_model.state"
},
{
"name": "summary",
"label": "Simulation Summary",
"maps_to": "physiology_cellml_shim_2006_shimleemabenoma2006_model.summary"
},
{
"name": "trajectory",
"label": "Source Trajectory",
"maps_to": "physiology_cellml_shim_2006_shimleemabenoma2006_model.trajectory"
},
{
"name": "variable_labels",
"label": "Observable Labels",
"maps_to": "physiology_cellml_shim_2006_shimleemabenoma2006_model.variable_labels"
},
{
"name": "membrane_voltage",
"label": "Membrane Voltage",
"maps_to": "physiology_cellml_shim_2006_shimleemabenoma2006_model.membrane_voltage",
"description": "Membrane Voltage. Maps to source symbol `V`. Units: mV. Naming evidence: source symbol, component, or units provide a direct public name."
},
{
"name": "itotal",
"label": "Itotal",
"maps_to": "physiology_cellml_shim_2006_shimleemabenoma2006_model.itotal",
"description": "Itotal. Maps to source symbol `Itotal`. Units: uA_per_mmsq. Naming evidence: source symbol, component, or units provide a direct public name."
},
{
"name": "intracellular_sodium",
"label": "Intracellular Sodium",
"maps_to": "physiology_cellml_shim_2006_shimleemabenoma2006_model.intracellular_sodium",
"description": "Intracellular Sodium. Maps to source symbol `Nai`. Units: mM. Naming evidence: source symbol, component, or units provide a direct public name."
},
{
"name": "intracellular_potassium",
"label": "Intracellular Potassium",
"maps_to": "physiology_cellml_shim_2006_shimleemabenoma2006_model.intracellular_potassium",
"description": "Intracellular Potassium. Maps to source symbol `Ki`. Units: mM. Naming evidence: source symbol, component, or units provide a direct public name."
},
{
"name": "membrane_capacitance",
"label": "Membrane Capacitance",
"maps_to": "physiology_cellml_shim_2006_shimleemabenoma2006_model.membrane_capacitance",
"description": "Membrane Capacitance. Maps to source symbol `Cm`. Units: uF_per_mmsq. Naming evidence: source symbol, component, or units provide a direct public name."
},
{
"name": "ica_additional",
"label": "Ica Additional",
"maps_to": "physiology_cellml_shim_2006_shimleemabenoma2006_model.ica_additional",
"description": "Ica Additional. Maps to source symbol `ICa_additional`. Units: uA_per_mmsq. Naming evidence: source symbol, component, or units provide a direct public name."
}
]
},
"title": "Shim2006 - New Multi Scale Simulation Circulation Cells System Lab",
"models": [
{
"path": "models/core",
"alias": "physiology_cellml_shim_2006_shimleemabenoma2006_model",
"parameters": {
"model_path": "data/shim_leem_abe_noma_2006.cellml",
"integration_step": 0.01
}
},
{
"path": "models/visualisation",
"alias": "visualisation"
}
],
"wiring": [
{
"to": [
"visualisation.physiology_cellml_shim_2006_shimleemabenoma2006_model_state"
],
"from": "physiology_cellml_shim_2006_shimleemabenoma2006_model.state"
},
{
"to": [
"visualisation.physiology_cellml_shim_2006_shimleemabenoma2006_model_summary"
],
"from": "physiology_cellml_shim_2006_shimleemabenoma2006_model.summary"
},
{
"to": [
"visualisation.physiology_cellml_shim_2006_shimleemabenoma2006_model_trajectory"
],
"from": "physiology_cellml_shim_2006_shimleemabenoma2006_model.trajectory"
},
{
"to": [
"visualisation.physiology_cellml_shim_2006_shimleemabenoma2006_model_variable_labels"
],
"from": "physiology_cellml_shim_2006_shimleemabenoma2006_model.variable_labels"
}
],
"package": "shim2006-new-multi-scale-simulation-circulation-cells-system",
"runtime": {
"duration": 0.01,
"settle_steps": 1,
"initial_inputs": {},
"communication_step": 0.01
},
"version": "1.0.0",
"description": "Source-faithful physiology lab for Shim 2006. Public controls and outputs are mapped to real source symbols for electrophysiology.",
"schema_version": "2.0"
}Runtime
Duration0.01
Comms Step0.01
Settle Steps1
Runs
Total0
Completed0
Failed0
Metadata
Packageshim2006-new-multi-scale-simulation-circulation-cells-system
Created2026-05-23
Updated2026-06-13
physiologycellmlphysiomefaithfulvisualisationother