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Source-faithful physiology lab for Rubin, Shevtsova, Ermentrout, Smith and Rybak 2009. Public controls and outputs are mapped to real source symbols for respiratory physiology.
Manifest
{
"io": {
"inputs": [
{
"name": "initial_sodium_h_gate",
"label": "Initial Sodium H Gate",
"maps_to": "physiology_cellml_rubin_shevtsova_ermentrout_smith_and_rybak_2009_rubinshevtsovaermentroutsmithrybak2009_model.initial_sodium_h_gate",
"description": "Initial value for Sodium H Gate. Maps to source symbol `h`. Units: dimensionless. Naming evidence: source symbol, component, or units provide a direct public name.",
"accepted_units": [
"dimensionless"
]
},
{
"name": "initial_potassium_m_gate",
"label": "Initial Potassium M Gate",
"maps_to": "physiology_cellml_rubin_shevtsova_ermentrout_smith_and_rybak_2009_rubinshevtsovaermentroutsmithrybak2009_model.initial_potassium_m_gate",
"description": "Initial value for Potassium M Gate. Maps to source symbol `m`. Units: dimensionless. Naming evidence: source symbol, component, or units provide a direct public name.",
"accepted_units": [
"dimensionless"
]
}
],
"outputs": [
{
"name": "state",
"label": "Selected Source State",
"maps_to": "physiology_cellml_rubin_shevtsova_ermentrout_smith_and_rybak_2009_rubinshevtsovaermentroutsmithrybak2009_model.state"
},
{
"name": "summary",
"label": "Simulation Summary",
"maps_to": "physiology_cellml_rubin_shevtsova_ermentrout_smith_and_rybak_2009_rubinshevtsovaermentroutsmithrybak2009_model.summary"
},
{
"name": "trajectory",
"label": "Source Trajectory",
"maps_to": "physiology_cellml_rubin_shevtsova_ermentrout_smith_and_rybak_2009_rubinshevtsovaermentroutsmithrybak2009_model.trajectory"
},
{
"name": "variable_labels",
"label": "Observable Labels",
"maps_to": "physiology_cellml_rubin_shevtsova_ermentrout_smith_and_rybak_2009_rubinshevtsovaermentroutsmithrybak2009_model.variable_labels"
},
{
"name": "sodium_h_gate",
"label": "Sodium H Gate",
"maps_to": "physiology_cellml_rubin_shevtsova_ermentrout_smith_and_rybak_2009_rubinshevtsovaermentroutsmithrybak2009_model.sodium_h_gate",
"description": "Sodium H Gate. Maps to source symbol `h`. Units: dimensionless. Naming evidence: source symbol, component, or units provide a direct public name."
},
{
"name": "potassium_m_gate",
"label": "Potassium M Gate",
"maps_to": "physiology_cellml_rubin_shevtsova_ermentrout_smith_and_rybak_2009_rubinshevtsovaermentroutsmithrybak2009_model.potassium_m_gate",
"description": "Potassium M Gate. Maps to source symbol `m`. Units: dimensionless. Naming evidence: source symbol, component, or units provide a direct public name."
},
{
"name": "model_state_v1",
"label": "Model State V1 (source V1)",
"maps_to": "physiology_cellml_rubin_shevtsova_ermentrout_smith_and_rybak_2009_rubinshevtsovaermentroutsmithrybak2009_model.model_state_v1",
"description": "Model State V1 (source V1). Maps to source symbol `V1`. Units: millivolt. Naming evidence: source symbol is too ambiguous for a stronger public label."
},
{
"name": "model_state_v2",
"label": "Model State V2 (source V2)",
"maps_to": "physiology_cellml_rubin_shevtsova_ermentrout_smith_and_rybak_2009_rubinshevtsovaermentroutsmithrybak2009_model.model_state_v2",
"description": "Model State V2 (source V2). Maps to source symbol `V2`. Units: millivolt. Naming evidence: source symbol is too ambiguous for a stronger public label."
},
{
"name": "model_state_v3",
"label": "Model State V3 (source V3)",
"maps_to": "physiology_cellml_rubin_shevtsova_ermentrout_smith_and_rybak_2009_rubinshevtsovaermentroutsmithrybak2009_model.model_state_v3",
"description": "Model State V3 (source V3). Maps to source symbol `V3`. Units: millivolt. Naming evidence: source symbol is too ambiguous for a stronger public label."
},
{
"name": "model_state_v4",
"label": "Model State V4 (source V4)",
"maps_to": "physiology_cellml_rubin_shevtsova_ermentrout_smith_and_rybak_2009_rubinshevtsovaermentroutsmithrybak2009_model.model_state_v4",
"description": "Model State V4 (source V4). Maps to source symbol `V4`. Units: millivolt. Naming evidence: source symbol is too ambiguous for a stronger public label."
}
]
},
"title": "Rubin2009 - Multiple Rhythmic States Respiratory Central Pattern Lab",
"models": [
{
"path": "models/core",
"alias": "physiology_cellml_rubin_shevtsova_ermentrout_smith_and_rybak_2009_rubinshevtsovaermentroutsmithrybak2009_model",
"parameters": {
"model_path": "data/rubin_2009.cellml",
"integration_step": 0.01
}
},
{
"path": "models/visualisation",
"alias": "visualisation"
}
],
"wiring": [
{
"to": [
"visualisation.physiology_cellml_rubin_shevtsova_ermentrout_smith_and_rybak_2009_rubinshevtsovaermentroutsmithrybak2009_model_state"
],
"from": "physiology_cellml_rubin_shevtsova_ermentrout_smith_and_rybak_2009_rubinshevtsovaermentroutsmithrybak2009_model.state"
},
{
"to": [
"visualisation.physiology_cellml_rubin_shevtsova_ermentrout_smith_and_rybak_2009_rubinshevtsovaermentroutsmithrybak2009_model_summary"
],
"from": "physiology_cellml_rubin_shevtsova_ermentrout_smith_and_rybak_2009_rubinshevtsovaermentroutsmithrybak2009_model.summary"
},
{
"to": [
"visualisation.physiology_cellml_rubin_shevtsova_ermentrout_smith_and_rybak_2009_rubinshevtsovaermentroutsmithrybak2009_model_trajectory"
],
"from": "physiology_cellml_rubin_shevtsova_ermentrout_smith_and_rybak_2009_rubinshevtsovaermentroutsmithrybak2009_model.trajectory"
},
{
"to": [
"visualisation.physiology_cellml_rubin_shevtsova_ermentrout_smith_and_rybak_2009_rubinshevtsovaermentroutsmithrybak2009_model_variable_labels"
],
"from": "physiology_cellml_rubin_shevtsova_ermentrout_smith_and_rybak_2009_rubinshevtsovaermentroutsmithrybak2009_model.variable_labels"
}
],
"package": "rubin2009-multiple-rhythmic-states-respiratory-central-pattern",
"runtime": {
"duration": 0.01,
"settle_steps": 1,
"initial_inputs": {},
"communication_step": 0.01
},
"version": "1.0.0",
"description": "Source-faithful physiology lab for Rubin, Shevtsova, Ermentrout, Smith and Rybak 2009. Public controls and outputs are mapped to real source symbols for respiratory physiology.",
"schema_version": "2.0"
}Runtime
Duration0.01
Comms Step0.01
Settle Steps1
Runs
Total0
Completed0
Failed0
Metadata
Packagerubin2009-multiple-rhythmic-states-respiratory-central-pattern
Created2026-05-23
Updated2026-06-13
physiologycellmlphysiomefaithfulvisualisationother