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Physiome 293 - H Atpase Proton Pump Lab

About lab

Source-faithful physiology lab for H+-ATPase (proton pump). Public controls and outputs are mapped to real source symbols for transport physiology.

Runtime

Duration0.01
Comms Step0.01
Settle Steps1

Runs

Total0
Completed0
Failed0

Metadata

Packagephysiome-293-h-atpase-proton-pump-lab
Created2026-05-23
Updated2026-05-23
physiologycellmlphysiomefaithfulvisualisationother

Manifest

{
  "io": {
    "inputs": [
      {
        "name": "initial_p_h_ext",
        "label": "Initial P H Ext",
        "maps_to": "physiology_cellml_h_atpase_proton_pump_293_model.initial_p_h_ext",
        "description": "Initial value for P H Ext. Maps to source symbol `pH_ext`. Units: dimensionless. Naming evidence: source symbol, component, or units provide a direct public name.",
        "accepted_units": [
          "dimensionless"
        ]
      },
      {
        "name": "initial_p_h_int",
        "label": "Initial P H Int",
        "maps_to": "physiology_cellml_h_atpase_proton_pump_293_model.initial_p_h_int",
        "description": "Initial value for P H Int. Maps to source symbol `pH_int`. 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_h_atpase_proton_pump_293_model.state"
      },
      {
        "name": "summary",
        "label": "Simulation Summary",
        "maps_to": "physiology_cellml_h_atpase_proton_pump_293_model.summary"
      },
      {
        "name": "trajectory",
        "label": "Source Trajectory",
        "maps_to": "physiology_cellml_h_atpase_proton_pump_293_model.trajectory"
      },
      {
        "name": "variable_labels",
        "label": "Observable Labels",
        "maps_to": "physiology_cellml_h_atpase_proton_pump_293_model.variable_labels"
      },
      {
        "name": "h_atpase_f",
        "label": "H Atpase F",
        "maps_to": "physiology_cellml_h_atpase_proton_pump_293_model.h_atpase_f",
        "description": "H Atpase F. Maps to source symbol `F`. Units: C_per_mol. Naming evidence: source symbol, component, or units provide a direct public name."
      },
      {
        "name": "h_atpase_r",
        "label": "H Atpase R",
        "maps_to": "physiology_cellml_h_atpase_proton_pump_293_model.h_atpase_r",
        "description": "H Atpase R. Maps to source symbol `R`. Units: mJ_per_mol_per_kelvin. Naming evidence: source symbol, component, or units provide a direct public name."
      },
      {
        "name": "h_atpase_t",
        "label": "H Atpase T",
        "maps_to": "physiology_cellml_h_atpase_proton_pump_293_model.h_atpase_t",
        "description": "H Atpase T. Maps to source symbol `T`. Units: kelvin. Naming evidence: source symbol, component, or units provide a direct public name."
      },
      {
        "name": "h_atpase_xi",
        "label": "H Atpase Xi",
        "maps_to": "physiology_cellml_h_atpase_proton_pump_293_model.h_atpase_xi",
        "description": "H Atpase Xi. Maps to source symbol `xi`. Units: mol_per_mJ. Naming evidence: source symbol, component, or units provide a direct public name."
      },
      {
        "name": "h_atpase_z",
        "label": "H Atpase Z",
        "maps_to": "physiology_cellml_h_atpase_proton_pump_293_model.h_atpase_z",
        "description": "H Atpase Z. Maps to source symbol `z`. Units: dimensionless. Naming evidence: source symbol, component, or units provide a direct public name."
      },
      {
        "name": "j_vtype_h",
        "label": "J Vtype H",
        "maps_to": "physiology_cellml_h_atpase_proton_pump_293_model.j_vtype_h",
        "description": "J Vtype H. Maps to source symbol `J_Vtype_H`. Units: umol_per_s_per_cm2_1. Naming evidence: source symbol, component, or units provide a direct public name."
      }
    ]
  },
  "title": "Physiome 293 - H Atpase Proton Pump Lab",
  "models": [
    {
      "path": "owned/models/physiology_cellml_h_atpase_proton_pump_293_model",
      "alias": "physiology_cellml_h_atpase_proton_pump_293_model",
      "parameters": {
        "model_path": "data/HATPase_test.cellml",
        "integration_step": 0.01
      },
      "provenance": {
        "owned_path": "owned/models/physiology_cellml_h_atpase_proton_pump_293_model"
      }
    },
    {
      "path": "owned/models/visualisation",
      "alias": "visualisation",
      "provenance": {
        "owned_path": "owned/models/visualisation"
      }
    }
  ],
  "wiring": [
    {
      "to": [
        "visualisation.physiology_cellml_h_atpase_proton_pump_293_model_state"
      ],
      "from": "physiology_cellml_h_atpase_proton_pump_293_model.state"
    },
    {
      "to": [
        "visualisation.physiology_cellml_h_atpase_proton_pump_293_model_summary"
      ],
      "from": "physiology_cellml_h_atpase_proton_pump_293_model.summary"
    },
    {
      "to": [
        "visualisation.physiology_cellml_h_atpase_proton_pump_293_model_trajectory"
      ],
      "from": "physiology_cellml_h_atpase_proton_pump_293_model.trajectory"
    },
    {
      "to": [
        "visualisation.physiology_cellml_h_atpase_proton_pump_293_model_variable_labels"
      ],
      "from": "physiology_cellml_h_atpase_proton_pump_293_model.variable_labels"
    }
  ],
  "runtime": {
    "duration": 0.01,
    "settle_steps": 1,
    "initial_inputs": {},
    "communication_step": 0.01
  },
  "description": "Source-faithful physiology lab for H+-ATPase (proton pump). Public controls and outputs are mapped to real source symbols for transport physiology.",
  "schema_version": "2.0"
}

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