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Source-faithful physiology lab for Barberis, Klipp, Vanoni, Alberghina, 2007. Public controls and outputs are mapped to real source symbols for source-model physiology.
Manifest
{
"io": {
"inputs": [
{
"name": "initial_cdk1_c",
"label": "Initial Cdk1 C",
"maps_to": "physiology_cellml_barberis_klipp_vanoni_alberghina_2007_barberisklippvanonialberghina2007_model.initial_cdk1_c",
"description": "Initial value for Cdk1 C. Maps to source symbol `cdk1_c`. Units: nanomolar. Naming evidence: source symbol, component, or units provide a direct public name.",
"accepted_units": [
"nanomolar"
]
},
{
"name": "initial_cdk1_n",
"label": "Initial Cdk1 N",
"maps_to": "physiology_cellml_barberis_klipp_vanoni_alberghina_2007_barberisklippvanonialberghina2007_model.initial_cdk1_n",
"description": "Initial value for Cdk1 N. Maps to source symbol `cdk1_n`. Units: nanomolar. Naming evidence: source symbol, component, or units provide a direct public name.",
"accepted_units": [
"nanomolar"
]
}
],
"outputs": [
{
"name": "state",
"label": "Selected Source State",
"maps_to": "physiology_cellml_barberis_klipp_vanoni_alberghina_2007_barberisklippvanonialberghina2007_model.state"
},
{
"name": "summary",
"label": "Simulation Summary",
"maps_to": "physiology_cellml_barberis_klipp_vanoni_alberghina_2007_barberisklippvanonialberghina2007_model.summary"
},
{
"name": "trajectory",
"label": "Source Trajectory",
"maps_to": "physiology_cellml_barberis_klipp_vanoni_alberghina_2007_barberisklippvanonialberghina2007_model.trajectory"
},
{
"name": "variable_labels",
"label": "Observable Labels",
"maps_to": "physiology_cellml_barberis_klipp_vanoni_alberghina_2007_barberisklippvanonialberghina2007_model.variable_labels"
},
{
"name": "k_volume",
"label": "K Volume",
"maps_to": "physiology_cellml_barberis_klipp_vanoni_alberghina_2007_barberisklippvanonialberghina2007_model.k_volume",
"description": "K Volume. Maps to source symbol `k_volume`. Units: dimensionless. Naming evidence: source symbol, component, or units provide a direct public name."
},
{
"name": "cdk1_c",
"label": "Cdk1 C",
"maps_to": "physiology_cellml_barberis_klipp_vanoni_alberghina_2007_barberisklippvanonialberghina2007_model.cdk1_c",
"description": "Cdk1 C. Maps to source symbol `cdk1_c`. Units: nanomolar. Naming evidence: source symbol, component, or units provide a direct public name."
},
{
"name": "cdk1_n",
"label": "Cdk1 N",
"maps_to": "physiology_cellml_barberis_klipp_vanoni_alberghina_2007_barberisklippvanonialberghina2007_model.cdk1_n",
"description": "Cdk1 N. Maps to source symbol `cdk1_n`. Units: nanomolar. Naming evidence: source symbol, component, or units provide a direct public name."
},
{
"name": "cdk1clb5_c",
"label": "Cdk1clb5 C",
"maps_to": "physiology_cellml_barberis_klipp_vanoni_alberghina_2007_barberisklippvanonialberghina2007_model.cdk1clb5_c",
"description": "Cdk1clb5 C. Maps to source symbol `cdk1clb5_c`. Units: nanomolar. Naming evidence: source symbol, component, or units provide a direct public name."
},
{
"name": "cdk1clb5_n",
"label": "Cdk1clb5 N",
"maps_to": "physiology_cellml_barberis_klipp_vanoni_alberghina_2007_barberisklippvanonialberghina2007_model.cdk1clb5_n",
"description": "Cdk1clb5 N. Maps to source symbol `cdk1clb5_n`. Units: nanomolar. Naming evidence: source symbol, component, or units provide a direct public name."
},
{
"name": "cdk1clb5sic1_c",
"label": "Cdk1clb5sic1 C",
"maps_to": "physiology_cellml_barberis_klipp_vanoni_alberghina_2007_barberisklippvanonialberghina2007_model.cdk1clb5sic1_c",
"description": "Cdk1clb5sic1 C. Maps to source symbol `cdk1clb5sic1_c`. Units: nanomolar. Naming evidence: source symbol, component, or units provide a direct public name."
}
]
},
"title": "Barberis2007 - Cell Size At Phase Initiation Emergent Prope Barberisklippv Lab",
"models": [
{
"path": "models/core",
"alias": "physiology_cellml_barberis_klipp_vanoni_alberghina_2007_barberisklippvanonialberghina2007_model",
"parameters": {
"model_path": "data/barberis_klipp_vanoni_alberghina_2007.cellml",
"integration_step": 0.01
}
},
{
"path": "models/visualisation",
"alias": "visualisation"
}
],
"wiring": [
{
"to": [
"visualisation.physiology_cellml_barberis_klipp_vanoni_alberghina_2007_barberisklippvanonialberghina2007_model_state"
],
"from": "physiology_cellml_barberis_klipp_vanoni_alberghina_2007_barberisklippvanonialberghina2007_model.state"
},
{
"to": [
"visualisation.physiology_cellml_barberis_klipp_vanoni_alberghina_2007_barberisklippvanonialberghina2007_model_summary"
],
"from": "physiology_cellml_barberis_klipp_vanoni_alberghina_2007_barberisklippvanonialberghina2007_model.summary"
},
{
"to": [
"visualisation.physiology_cellml_barberis_klipp_vanoni_alberghina_2007_barberisklippvanonialberghina2007_model_trajectory"
],
"from": "physiology_cellml_barberis_klipp_vanoni_alberghina_2007_barberisklippvanonialberghina2007_model.trajectory"
},
{
"to": [
"visualisation.physiology_cellml_barberis_klipp_vanoni_alberghina_2007_barberisklippvanonialberghina2007_model_variable_labels"
],
"from": "physiology_cellml_barberis_klipp_vanoni_alberghina_2007_barberisklippvanonialberghina2007_model.variable_labels"
}
],
"package": "barberis2007-cell-size-at-phase-initiation-emergent-pro-a7f8f7ff",
"runtime": {
"duration": 0.01,
"settle_steps": 1,
"initial_inputs": {},
"communication_step": 0.01
},
"version": "1.0.0",
"description": "Source-faithful physiology lab for Barberis, Klipp, Vanoni, Alberghina, 2007. Public controls and outputs are mapped to real source symbols for source-model physiology.",
"schema_version": "2.0"
}Runtime
Duration0.01
Comms Step0.01
Settle Steps1
Runs
Total0
Completed0
Failed0
Metadata
Packagebarberis2007-cell-size-at-phase-initiation-emergent-pro-a7f8f7ff
Created2026-05-23
Updated2026-06-13
physiologycellmlphysiomefaithfulvisualisationother