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Wodarz1999 - Nowak Mathematical Immunological Control Hiv Lab

About lab

Source-faithful physiology lab for Wodarz, Nowak, 1999. Public controls and outputs are mapped to real source symbols for source-model physiology.

Runtime

Duration0.01
Comms Step0.01
Settle Steps1

Runs

Total0
Completed0
Failed0

Metadata

Packagewodarz1999-nowak-mathematical-immunological-control-hiv-lab
Created2026-05-23
Updated2026-05-23
physiologycellmlphysiomefaithfulvisualisationother

Manifest

{
  "io": {
    "inputs": [
      {
        "name": "initial_ctl_effectors",
        "label": "Initial CTL Effectors",
        "maps_to": "physiology_cellml_wodarz_nowak_1999_wodarznowak1999_model.initial_ctl_effectors",
        "description": "Initial value for CTL Effectors. Maps to source symbol `z`. Units: per_mm3. Naming evidence: source metadata names `z` as `CTL effectors`.",
        "accepted_units": [
          "per_mm3"
        ]
      },
      {
        "name": "initial_infected_cd4_t_cells",
        "label": "Initial Infected CD4 T Cells",
        "maps_to": "physiology_cellml_wodarz_nowak_1999_wodarznowak1999_model.initial_infected_cd4_t_cells",
        "description": "Initial value for Infected CD4 T Cells. Maps to source symbol `y`. Units: per_mm3. Naming evidence: source metadata names `y` as `infected CD4 T cells`.",
        "accepted_units": [
          "per_mm3"
        ]
      }
    ],
    "outputs": [
      {
        "name": "state",
        "label": "Selected Source State",
        "maps_to": "physiology_cellml_wodarz_nowak_1999_wodarznowak1999_model.state"
      },
      {
        "name": "summary",
        "label": "Simulation Summary",
        "maps_to": "physiology_cellml_wodarz_nowak_1999_wodarznowak1999_model.summary"
      },
      {
        "name": "trajectory",
        "label": "Source Trajectory",
        "maps_to": "physiology_cellml_wodarz_nowak_1999_wodarznowak1999_model.trajectory"
      },
      {
        "name": "variable_labels",
        "label": "Observable Labels",
        "maps_to": "physiology_cellml_wodarz_nowak_1999_wodarznowak1999_model.variable_labels"
      },
      {
        "name": "ctl_effectors",
        "label": "CTL Effectors",
        "maps_to": "physiology_cellml_wodarz_nowak_1999_wodarznowak1999_model.ctl_effectors",
        "description": "CTL Effectors. Maps to source symbol `z`. Units: per_mm3. Naming evidence: source metadata names `z` as `CTL effectors`."
      },
      {
        "name": "infected_cd4_t_cells",
        "label": "Infected CD4 T Cells",
        "maps_to": "physiology_cellml_wodarz_nowak_1999_wodarznowak1999_model.infected_cd4_t_cells",
        "description": "Infected CD4 T Cells. Maps to source symbol `y`. Units: per_mm3. Naming evidence: source metadata names `y` as `infected CD4 T cells`."
      },
      {
        "name": "uninfected_cd4_t_cells",
        "label": "Uninfected CD4 T Cells",
        "maps_to": "physiology_cellml_wodarz_nowak_1999_wodarznowak1999_model.uninfected_cd4_t_cells",
        "description": "Uninfected CD4 T Cells. Maps to source symbol `x`. Units: per_mm3. Naming evidence: source metadata names `x` as `uninfected CD4 T cells`."
      },
      {
        "name": "cytotoxic_t_lymphocyte_precursors",
        "label": "Cytotoxic T Lymphocyte Precursors",
        "maps_to": "physiology_cellml_wodarz_nowak_1999_wodarznowak1999_model.cytotoxic_t_lymphocyte_precursors",
        "description": "Cytotoxic T Lymphocyte Precursors. Maps to source symbol `w`. Units: per_mm3. Naming evidence: source metadata names `w` as `cytotoxic T lymphocyte precursors`."
      },
      {
        "name": "beta",
        "label": "Beta",
        "maps_to": "physiology_cellml_wodarz_nowak_1999_wodarznowak1999_model.beta",
        "description": "Beta. Maps to source symbol `beta`. Units: mm3_per_day. Naming evidence: source symbol, component, or units provide a direct public name."
      },
      {
        "name": "kinetic_parameters_c",
        "label": "Kinetic Parameters C",
        "maps_to": "physiology_cellml_wodarz_nowak_1999_wodarznowak1999_model.kinetic_parameters_c",
        "description": "Kinetic Parameters C. Maps to source symbol `c`. Units: mm3_mm3_per_day. Naming evidence: source symbol, component, or units provide a direct public name."
      }
    ]
  },
  "title": "Wodarz1999 - Nowak Mathematical Immunological Control Hiv Lab",
  "models": [
    {
      "path": "owned/models/physiology_cellml_wodarz_nowak_1999_wodarznowak1999_model",
      "alias": "physiology_cellml_wodarz_nowak_1999_wodarznowak1999_model",
      "parameters": {
        "model_path": "data/wodarz_nowak_1999.cellml",
        "integration_step": 0.01
      },
      "provenance": {
        "owned_path": "owned/models/physiology_cellml_wodarz_nowak_1999_wodarznowak1999_model"
      }
    },
    {
      "path": "owned/models/visualisation",
      "alias": "visualisation",
      "provenance": {
        "owned_path": "owned/models/visualisation"
      }
    }
  ],
  "wiring": [
    {
      "to": [
        "visualisation.physiology_cellml_wodarz_nowak_1999_wodarznowak1999_model_state"
      ],
      "from": "physiology_cellml_wodarz_nowak_1999_wodarznowak1999_model.state"
    },
    {
      "to": [
        "visualisation.physiology_cellml_wodarz_nowak_1999_wodarznowak1999_model_summary"
      ],
      "from": "physiology_cellml_wodarz_nowak_1999_wodarznowak1999_model.summary"
    },
    {
      "to": [
        "visualisation.physiology_cellml_wodarz_nowak_1999_wodarznowak1999_model_trajectory"
      ],
      "from": "physiology_cellml_wodarz_nowak_1999_wodarznowak1999_model.trajectory"
    },
    {
      "to": [
        "visualisation.physiology_cellml_wodarz_nowak_1999_wodarznowak1999_model_variable_labels"
      ],
      "from": "physiology_cellml_wodarz_nowak_1999_wodarznowak1999_model.variable_labels"
    }
  ],
  "runtime": {
    "duration": 0.01,
    "settle_steps": 1,
    "initial_inputs": {},
    "communication_step": 0.01
  },
  "description": "Source-faithful physiology lab for Wodarz, Nowak, 1999. Public controls and outputs are mapped to real source symbols for source-model physiology.",
  "schema_version": "2.0"
}

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