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Url Xml Lab

About lab

This is a kinetic model of the monomeric photosystem II (PSII). The model is partially based on the earlier model used for simulation of the flash-induced period-four damped oscillation of oxygen evol.

Runtime

Duration1
Comms Step0.1

Runs

Total0
Completed0
Failed0

Metadata

Packageurl-xml-lab
Created2026-05-17
Updated2026-05-17
systemsbiologysbmlbiomodels_ebifaithfulcuratedvisualisation

Manifest

{
  "io": {
    "inputs": [
      {
        "name": "initial_model_state_pq",
        "label": "Initial Model State Pq",
        "maps_to": "systemsbiology_sbml_model3631586579_url_xml_model3631586579_model.initial_model_state_pq",
        "description": "Source state initial condition exposed as a model-specific control because no explicit intervention parameter is identifiable. Maps to SBML symbol `PQ`."
      },
      {
        "name": "initial_y_dox",
        "label": "Initial Y Dox",
        "maps_to": "systemsbiology_sbml_model3631586579_url_xml_model3631586579_model.initial_y_dox",
        "description": "Source state initial condition exposed as a model-specific control because no explicit intervention parameter is identifiable. Maps to SBML symbol `YDox`."
      },
      {
        "name": "initial_s1_yphab",
        "label": "Initial S1 Yphab",
        "maps_to": "systemsbiology_sbml_model3631586579_url_xml_model3631586579_model.initial_s1_yphab",
        "description": "Source state initial condition exposed as a model-specific control because no explicit intervention parameter is identifiable. Maps to SBML symbol `S1YPHAB`."
      },
      {
        "name": "initial_s1_ypha_bm",
        "label": "Initial S1 Ypha Bm",
        "maps_to": "systemsbiology_sbml_model3631586579_url_xml_model3631586579_model.initial_s1_ypha_bm",
        "description": "Source state initial condition exposed as a model-specific control because no explicit intervention parameter is identifiable. Maps to SBML symbol `S1YPHABm`."
      },
      {
        "name": "initial_model_state_yd",
        "label": "Initial Model State Yd",
        "maps_to": "systemsbiology_sbml_model3631586579_url_xml_model3631586579_model.initial_model_state_yd",
        "description": "Source state initial condition exposed as a model-specific control because no explicit intervention parameter is identifiable. Maps to SBML symbol `YD`."
      },
      {
        "name": "initial_s3_yp_pp_hm_am_bmm",
        "label": "Initial S3 Yp Pp Hm Am Bmm",
        "maps_to": "systemsbiology_sbml_model3631586579_url_xml_model3631586579_model.initial_s3_yp_pp_hm_am_bmm",
        "description": "Source state initial condition exposed as a model-specific control because no explicit intervention parameter is identifiable. Maps to SBML symbol `S3YpPpHmAmBmm`."
      }
    ],
    "outputs": [
      {
        "name": "state",
        "maps_to": "systemsbiology_sbml_model3631586579_url_xml_model3631586579_model.state"
      },
      {
        "name": "summary",
        "maps_to": "systemsbiology_sbml_model3631586579_url_xml_model3631586579_model.summary"
      },
      {
        "name": "species_labels",
        "maps_to": "systemsbiology_sbml_model3631586579_url_xml_model3631586579_model.species_labels"
      },
      {
        "name": "model_state_pq",
        "maps_to": "systemsbiology_sbml_model3631586579_url_xml_model3631586579_model.model_state_pq"
      },
      {
        "name": "y_dox",
        "maps_to": "systemsbiology_sbml_model3631586579_url_xml_model3631586579_model.y_dox"
      },
      {
        "name": "s1_yphab",
        "maps_to": "systemsbiology_sbml_model3631586579_url_xml_model3631586579_model.s1_yphab"
      },
      {
        "name": "s1_ypha_bm",
        "maps_to": "systemsbiology_sbml_model3631586579_url_xml_model3631586579_model.s1_ypha_bm"
      },
      {
        "name": "model_state_yd",
        "maps_to": "systemsbiology_sbml_model3631586579_url_xml_model3631586579_model.model_state_yd"
      },
      {
        "name": "s3_yp_pp_hm_am_bmm",
        "maps_to": "systemsbiology_sbml_model3631586579_url_xml_model3631586579_model.s3_yp_pp_hm_am_bmm"
      }
    ]
  },
  "tags": [
    "systemsbiology",
    "sbml",
    "biomodels_ebi",
    "faithful",
    "curated"
  ],
  "title": "Url Xml Lab",
  "models": [
    {
      "path": "owned/models/systemsbiology_sbml_model3631586579_url_xml_model3631586579_model",
      "alias": "systemsbiology_sbml_model3631586579_url_xml_model3631586579_model",
      "provenance": {
        "owned_path": "owned/models/systemsbiology_sbml_model3631586579_url_xml_model3631586579_model"
      }
    },
    {
      "path": "owned/models/visualisation",
      "alias": "visualisation",
      "provenance": {
        "owned_path": "owned/models/visualisation"
      }
    }
  ],
  "wiring": [
    {
      "to": [
        "visualisation.systemsbiology_sbml_model3631586579_url_xml_model3631586579_model_state"
      ],
      "from": "systemsbiology_sbml_model3631586579_url_xml_model3631586579_model.state"
    },
    {
      "to": [
        "visualisation.systemsbiology_sbml_model3631586579_url_xml_model3631586579_model_summary"
      ],
      "from": "systemsbiology_sbml_model3631586579_url_xml_model3631586579_model.summary"
    },
    {
      "to": [
        "visualisation.systemsbiology_sbml_model3631586579_url_xml_model3631586579_model_species_labels"
      ],
      "from": "systemsbiology_sbml_model3631586579_url_xml_model3631586579_model.species_labels"
    }
  ],
  "runtime": {
    "duration": 1,
    "initial_inputs": {},
    "communication_step": 0.1
  },
  "description": "This is a kinetic model of the monomeric photosystem II (PSII). The model is partially based on the earlier model used for simulation of the flash-induced period-four damped oscillation of oxygen evol.",
  "schema_version": "2.0"
}

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