110 lines
2.0 KiB
JSON
110 lines
2.0 KiB
JSON
{
|
|
"#Testing": {
|
|
"description": "Cellular Potts Model with dynamic ECM"
|
|
},
|
|
"Application": "Cells",
|
|
"Geometry": {
|
|
"blocksize": [20, 40, 40],
|
|
"blockcount": [4, 2, 2]
|
|
},
|
|
"Settings": {
|
|
"timesteps": 250,
|
|
"randomseed": 42
|
|
},
|
|
"Filling": {
|
|
"cells": [
|
|
{
|
|
"_comment": "This is for the dynamic ECM",
|
|
"shape": "cube",
|
|
"box": [
|
|
[0, 0, 0],
|
|
[79, 79, 79]
|
|
],
|
|
"value": 0,
|
|
"celltype": 0
|
|
},
|
|
{
|
|
"shape": "cube",
|
|
"box": [
|
|
[41, 35, 10],
|
|
[45, 39, 15]
|
|
],
|
|
"celltype": 2
|
|
},
|
|
{
|
|
"shape": "cube",
|
|
"box": [
|
|
[40, 15, 14],
|
|
[47, 22, 20]
|
|
],
|
|
"celltype": 2
|
|
},
|
|
{
|
|
"shape": "cube",
|
|
"box": [
|
|
[40, 20, 20],
|
|
[47, 27, 26]
|
|
],
|
|
"celltype": 3
|
|
},
|
|
{
|
|
"shape": "cube",
|
|
"box": [
|
|
[38, 20, 60],
|
|
[45, 27, 66]
|
|
],
|
|
"celltype": 3
|
|
}
|
|
]
|
|
},
|
|
"CellsInSilico": {
|
|
"liquid": 1,
|
|
"adhesion": {
|
|
"matrix": [
|
|
[0, 0, 0, 0],
|
|
[0, 0, 0, 0],
|
|
[0, 0, 10, 5],
|
|
[0, 0, 5, 5]
|
|
]
|
|
},
|
|
"temperature": 15,
|
|
"volume": {
|
|
"default": {
|
|
"storage": "const",
|
|
"value": 2000
|
|
},
|
|
"lambda": {
|
|
"storage": "const",
|
|
"value": 10
|
|
}
|
|
},
|
|
"surface": {
|
|
"default": {
|
|
"storage": "const",
|
|
"value": 800
|
|
},
|
|
"lambda": {
|
|
"storage": "const",
|
|
"value": 10
|
|
}
|
|
},
|
|
"cleaner": {
|
|
"killdistance": 100
|
|
},
|
|
"checkerboard": "00",
|
|
"energyfunctions": ["Volume00", "Surface00", "Adhesion00"],
|
|
"centerofmass": {
|
|
"steps": 10
|
|
}
|
|
},
|
|
"Writers": {
|
|
"ParallelVTK_Cells": {
|
|
"writer": "ParallelVtkImage",
|
|
"outputtype": "UInt32",
|
|
"field": "cells",
|
|
"steps": 1
|
|
}
|
|
},
|
|
"WriteActions": ["ParallelVTK_Cells"]
|
|
}
|