Garde2020 - metabolic oscillations in Bacillus subtilis biofilms Lab

{
  "io": {
    "inputs": [
      {
        "name": "initial_metabolic_pathway_state_1",
        "units": "native SBML value",
        "default": 0.999999999999999,
        "maps_to": "metabolism_sbml_garde2020_metabolic_oscillations_in_bacillus_sub_biomd0000001053_model.initial_metabolic_pathway_state_1",
        "description": "Initial condition for metabolic pathway state 1. Maps to bundled SBML symbol `Gp`. Applied before the Tellurium simulation starts; this does not change kinetic parameters or equations. Default from bundled SBML initial value."
      },
      {
        "name": "initial_metabolic_pathway_state_2",
        "units": "native SBML value",
        "default": 0.999999999999999,
        "maps_to": "metabolism_sbml_garde2020_metabolic_oscillations_in_bacillus_sub_biomd0000001053_model.initial_metabolic_pathway_state_2",
        "description": "Initial condition for metabolic pathway state 2. Maps to bundled SBML symbol `Ai`. Applied before the Tellurium simulation starts; this does not change kinetic parameters or equations. Default from bundled SBML initial value."
      },
      {
        "name": "initial_metabolic_pathway_state_3",
        "units": "native SBML value",
        "default": 0.999999999999999,
        "maps_to": "metabolism_sbml_garde2020_metabolic_oscillations_in_bacillus_sub_biomd0000001053_model.initial_metabolic_pathway_state_3",
        "description": "Initial condition for metabolic pathway state 3. Maps to bundled SBML symbol `Am`. Applied before the Tellurium simulation starts; this does not change kinetic parameters or equations. Default from bundled SBML initial value."
      },
      {
        "name": "initial_metabolic_pathway_state_4",
        "units": "native SBML value",
        "default": 0.999999999999999,
        "maps_to": "metabolism_sbml_garde2020_metabolic_oscillations_in_bacillus_sub_biomd0000001053_model.initial_metabolic_pathway_state_4",
        "description": "Initial condition for metabolic pathway state 4. Maps to bundled SBML symbol `Ap`. Applied before the Tellurium simulation starts; this does not change kinetic parameters or equations. Default from bundled SBML initial value."
      },
      {
        "name": "initial_metabolic_pathway_state_5",
        "units": "native SBML value",
        "default": 1,
        "maps_to": "metabolism_sbml_garde2020_metabolic_oscillations_in_bacillus_sub_biomd0000001053_model.initial_metabolic_pathway_state_5",
        "description": "Initial condition for metabolic pathway state 5. Maps to bundled SBML symbol `Gm`. Applied before the Tellurium simulation starts; this does not change kinetic parameters or equations. Default from bundled SBML initial value."
      }
    ],
    "outputs": [
      {
        "name": "metabolic_pathway_state_1",
        "maps_to": "metabolism_sbml_garde2020_metabolic_oscillations_in_bacillus_sub_biomd0000001053_model.metabolic_pathway_state_1"
      },
      {
        "name": "metabolic_pathway_state_2",
        "maps_to": "metabolism_sbml_garde2020_metabolic_oscillations_in_bacillus_sub_biomd0000001053_model.metabolic_pathway_state_2"
      },
      {
        "name": "metabolic_pathway_state_3",
        "maps_to": "metabolism_sbml_garde2020_metabolic_oscillations_in_bacillus_sub_biomd0000001053_model.metabolic_pathway_state_3"
      },
      {
        "name": "metabolic_pathway_state_4",
        "maps_to": "metabolism_sbml_garde2020_metabolic_oscillations_in_bacillus_sub_biomd0000001053_model.metabolic_pathway_state_4"
      },
      {
        "name": "metabolic_pathway_state_5",
        "maps_to": "metabolism_sbml_garde2020_metabolic_oscillations_in_bacillus_sub_biomd0000001053_model.metabolic_pathway_state_5"
      },
      {
        "name": "observable_values",
        "maps_to": "metabolism_sbml_garde2020_metabolic_oscillations_in_bacillus_sub_biomd0000001053_model.observable_values"
      },
      {
        "name": "run_summary",
        "maps_to": "metabolism_sbml_garde2020_metabolic_oscillations_in_bacillus_sub_biomd0000001053_model.run_summary"
      },
      {
        "name": "observable_labels",
        "maps_to": "metabolism_sbml_garde2020_metabolic_oscillations_in_bacillus_sub_biomd0000001053_model.observable_labels"
      }
    ]
  },
  "title": "Garde2020 - metabolic oscillations in Bacillus subtilis biofilms Lab",
  "models": [
    {
      "path": "models/core",
      "alias": "metabolism_sbml_garde2020_metabolic_oscillations_in_bacillus_sub_biomd0000001053_model",
      "parameters": {
        "model_path": "data/BIOMD0000001053.xml",
        "integration_step": 0.1
      }
    },
    {
      "path": "models/visualisation",
      "alias": "visualisation"
    }
  ],
  "wiring": [
    {
      "to": [
        "visualisation.metabolism_sbml_garde2020_metabolic_oscillations_in_bacillus_sub_biomd0000001053_model_observable_values"
      ],
      "from": "metabolism_sbml_garde2020_metabolic_oscillations_in_bacillus_sub_biomd0000001053_model.observable_values"
    },
    {
      "to": [
        "visualisation.metabolism_sbml_garde2020_metabolic_oscillations_in_bacillus_sub_biomd0000001053_model_run_summary"
      ],
      "from": "metabolism_sbml_garde2020_metabolic_oscillations_in_bacillus_sub_biomd0000001053_model.run_summary"
    },
    {
      "to": [
        "visualisation.metabolism_sbml_garde2020_metabolic_oscillations_in_bacillus_sub_biomd0000001053_model_observable_labels"
      ],
      "from": "metabolism_sbml_garde2020_metabolic_oscillations_in_bacillus_sub_biomd0000001053_model.observable_labels"
    }
  ],
  "package": "garde2020-metabolic-oscillations-in-bacillus-subtilis-biofilms",
  "runtime": {
    "duration": 10,
    "initial_inputs": {},
    "communication_step": 1
  },
  "version": "1.0.0",
  "description": "Ravindra Garde, Bashar Ibrahim & Stefan Schuster. Extending the minimal model of metabolic oscillations in Bacillus subtilis biofilms.",
  "schema_version": "2.0"
}