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Source-faithful physiology lab for Tran, Smith, Loiselle, Crampin, 2009. Public controls and outputs are mapped to real source symbols for electrophysiology.
Manifest
{
"io": {
"inputs": [
{
"name": "initial_ca_sr",
"label": "Initial Ca Sr",
"maps_to": "physiology_cellml_tran_smith_loiselle_crampin_2009_transmithloisellecrampin2009_model.initial_ca_sr",
"description": "Initial value for Ca Sr. Maps to source symbol `Ca_sr`. Units: millimolar. Naming evidence: source symbol, component, or units provide a direct public name.",
"accepted_units": [
"millimolar"
]
}
],
"outputs": [
{
"name": "state",
"label": "Selected Source State",
"maps_to": "physiology_cellml_tran_smith_loiselle_crampin_2009_transmithloisellecrampin2009_model.state"
},
{
"name": "summary",
"label": "Simulation Summary",
"maps_to": "physiology_cellml_tran_smith_loiselle_crampin_2009_transmithloisellecrampin2009_model.summary"
},
{
"name": "trajectory",
"label": "Source Trajectory",
"maps_to": "physiology_cellml_tran_smith_loiselle_crampin_2009_transmithloisellecrampin2009_model.trajectory"
},
{
"name": "variable_labels",
"label": "Observable Labels",
"maps_to": "physiology_cellml_tran_smith_loiselle_crampin_2009_transmithloisellecrampin2009_model.variable_labels"
},
{
"name": "intracellular_calcium",
"label": "Intracellular Calcium",
"maps_to": "physiology_cellml_tran_smith_loiselle_crampin_2009_transmithloisellecrampin2009_model.intracellular_calcium",
"description": "Intracellular Calcium. Maps to source symbol `Ca_i`. Units: millimolar. Naming evidence: source symbol, component, or units provide a direct public name."
},
{
"name": "atp_concentration",
"label": "ATP Concentration",
"maps_to": "physiology_cellml_tran_smith_loiselle_crampin_2009_transmithloisellecrampin2009_model.atp_concentration",
"description": "ATP Concentration. Maps to source symbol `ATP`. Units: millimolar. Naming evidence: source symbol, component, or units provide a direct public name."
},
{
"name": "adp_concentration",
"label": "ADP Concentration",
"maps_to": "physiology_cellml_tran_smith_loiselle_crampin_2009_transmithloisellecrampin2009_model.adp_concentration",
"description": "ADP Concentration. Maps to source symbol `ADP`. Units: millimolar. Naming evidence: source symbol, component, or units provide a direct public name."
},
{
"name": "ca_sr",
"label": "Ca Sr",
"maps_to": "physiology_cellml_tran_smith_loiselle_crampin_2009_transmithloisellecrampin2009_model.ca_sr",
"description": "Ca Sr. Maps to source symbol `Ca_sr`. Units: millimolar. Naming evidence: source symbol, component, or units provide a direct public name."
},
{
"name": "concentration_h_i",
"label": "Concentration H I (source H_i)",
"maps_to": "physiology_cellml_tran_smith_loiselle_crampin_2009_transmithloisellecrampin2009_model.concentration_h_i",
"description": "Concentration H I (source H_i). Maps to source symbol `H_i`. Units: millimolar. Naming evidence: amount concentration units identify a concentration state."
},
{
"name": "concentration_p_i",
"label": "Concentration P I (source P_i)",
"maps_to": "physiology_cellml_tran_smith_loiselle_crampin_2009_transmithloisellecrampin2009_model.concentration_p_i",
"description": "Concentration P I (source P_i). Maps to source symbol `P_i`. Units: millimolar. Naming evidence: amount concentration units identify a concentration state."
}
]
},
"title": "Tran2009 - Thermodynamic Cardiac Sarcoplasmic Endoplasmic Calcium 2 Lab",
"models": [
{
"path": "models/core",
"alias": "physiology_cellml_tran_smith_loiselle_crampin_2009_transmithloisellecrampin2009_model",
"parameters": {
"model_path": "data/tran_smith_loiselle_crampin_2009.cellml",
"integration_step": 0.01
}
},
{
"path": "models/visualisation",
"alias": "visualisation"
}
],
"wiring": [
{
"to": [
"visualisation.physiology_cellml_tran_smith_loiselle_crampin_2009_transmithloisellecrampin2009_model_state"
],
"from": "physiology_cellml_tran_smith_loiselle_crampin_2009_transmithloisellecrampin2009_model.state"
},
{
"to": [
"visualisation.physiology_cellml_tran_smith_loiselle_crampin_2009_transmithloisellecrampin2009_model_summary"
],
"from": "physiology_cellml_tran_smith_loiselle_crampin_2009_transmithloisellecrampin2009_model.summary"
},
{
"to": [
"visualisation.physiology_cellml_tran_smith_loiselle_crampin_2009_transmithloisellecrampin2009_model_trajectory"
],
"from": "physiology_cellml_tran_smith_loiselle_crampin_2009_transmithloisellecrampin2009_model.trajectory"
},
{
"to": [
"visualisation.physiology_cellml_tran_smith_loiselle_crampin_2009_transmithloisellecrampin2009_model_variable_labels"
],
"from": "physiology_cellml_tran_smith_loiselle_crampin_2009_transmithloisellecrampin2009_model.variable_labels"
}
],
"package": "tran2009-thermodynamic-cardiac-sarcoplasmic-endoplasmic-780e3293",
"runtime": {
"duration": 0.01,
"settle_steps": 1,
"initial_inputs": {},
"communication_step": 0.01
},
"version": "1.0.0",
"description": "Source-faithful physiology lab for Tran, Smith, Loiselle, Crampin, 2009. 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
Packagetran2009-thermodynamic-cardiac-sarcoplasmic-endoplasmic-780e3293
Created2026-05-23
Updated2026-06-13
physiologycellmlphysiomefaithfulvisualisationother