Location: Generic human esophagus scaffold @ 55e4c7b57c05 / OrganScaffold-settings.json

Author:
Mabelle Lin <mlin865@aucklanduni.ac.nz>
Date:
2022-09-05 16:23:31+12:00
Desc:
Make scaffold reusable in PMR
Permanent Source URI:
https://models.fieldml.org/workspace/83d/rawfile/55e4c7b57c05aa577264cb3ccb74e07485a0d5bd/OrganScaffold-settings.json

{
    "scaffold_settings": {
        "deleteElementRanges": "",
        "displayAxes": true,
        "displayElementAxes": false,
        "displayElementNumbers": false,
        "displayLines": true,
        "displayLinesExterior": false,
        "displayMarkerPoints": false,
        "displayModelRadius": false,
        "displayNodeDerivativeLabels": [
            "D1",
            "D2",
            "D3"
        ],
        "displayNodeDerivatives": 0,
        "displayNodeNumbers": false,
        "displayNodePoints": false,
        "displaySurfaces": true,
        "displaySurfacesExterior": true,
        "displaySurfacesTranslucent": true,
        "displaySurfacesWireframe": false,
        "modelCoordinatesField": "coordinates",
        "scaffoldPackage": {
            "_ScaffoldPackage": true,
            "rotation": [
                0.0,
                0.0,
                0.0
            ],
            "scaffoldSettings": {
                "Central path": {
                    "_ScaffoldPackage": true,
                    "meshEdits": "EX Version: 3\nRegion: /\n!#nodeset nodes\nDefine node template: node1\nShape. Dimension=0\n#Fields=1\n1) coordinates, coordinate, rectangular cartesian, real, #Components=3\n x. #Values=6 (value,d/ds1,d/ds2,d2/ds1ds2,d/ds3,d2/ds1ds3)\n y. #Values=6 (value,d/ds1,d/ds2,d2/ds1ds2,d/ds3,d2/ds1ds3)\n z. #Values=6 (value,d/ds1,d/ds2,d2/ds1ds2,d/ds3,d2/ds1ds3)\nNode template: node1\nNode: 1\n  7.500000000000000e+00  2.800000000000000e+00  9.900000000000000e+00  1.000000000000000e-01  0.000000000000000e+00  0.000000000000000e+00\n  2.898000000000000e+02 -3.360000000000000e+01  8.000000000000000e-01 -1.600000000000000e+00  0.000000000000000e+00  0.000000000000000e+00\n  0.000000000000000e+00  0.000000000000000e+00  0.000000000000000e+00  0.000000000000000e+00  1.000000000000000e+01  0.000000000000000e+00\nNode: 2\n  8.900000000000000e+00 -2.600000000000000e+00  1.000000000000000e+01  1.000000000000000e-01  0.000000000000000e+00  0.000000000000000e+00\n  2.425000000000000e+02 -8.750000000000000e+01 -3.000000000000000e-01 -6.000000000000000e-01  0.000000000000000e+00  0.000000000000000e+00\n  0.000000000000000e+00  0.000000000000000e+00  0.000000000000000e+00  0.000000000000000e+00  1.000000000000000e+01  0.000000000000000e+00\nNode: 3\n -2.500000000000000e+00  3.900000000000000e+00  1.000000000000000e+01 -3.000000000000000e-01  0.000000000000000e+00  0.000000000000000e+00\n  1.154000000000000e+02 -1.020000000000000e+02  4.000000000000000e-01  1.900000000000000e+00  0.000000000000000e+00  0.000000000000000e+00\n  0.000000000000000e+00  0.000000000000000e+00  0.000000000000000e+00  0.000000000000000e+00  1.000000000000000e+01  0.000000000000000e+00\nNode: 4\n  1.010000000000000e+01  1.780000000000000e+01  9.600000000000000e+00 -1.300000000000000e+00  0.000000000000000e+00  0.000000000000000e+00\n  4.030000000000000e+01 -5.790000000000000e+01  2.900000000000000e+00  3.200000000000000e+00  0.000000000000000e+00  0.000000000000000e+00\n  0.000000000000000e+00  0.000000000000000e+00  0.000000000000000e+00  0.000000000000000e+00  1.000000000000000e+01  0.000000000000000e+00\nNode: 5\n  2.860000000000000e+01  1.850000000000000e+01  7.700000000000000e+00 -2.400000000000000e+00  0.000000000000000e+00  0.000000000000000e+00\n -1.000000000000000e-01 -2.210000000000000e+01  6.500000000000000e+00  3.900000000000000e+00  0.000000000000000e+00  0.000000000000000e+00\n  0.000000000000000e+00  0.000000000000000e+00  0.000000000000000e+00  0.000000000000000e+00  1.000000000000000e+01  0.000000000000000e+00\nGroup name: meshEdits\n!#nodeset nodes\nNode group:\n1..5\n",
                    "rotation": [
                        0.0,
                        0.0,
                        0.0
                    ],
                    "scaffoldSettings": {
                        "Coordinate dimensions": 3,
                        "D2 derivatives": true,
                        "D3 derivatives": true,
                        "Length": 1.0,
                        "Number of elements": 4
                    },
                    "scaffoldTypeName": "1D Path 1",
                    "scale": [
                        1.0,
                        1.0,
                        1.0
                    ],
                    "translation": [
                        0.0,
                        0.0,
                        0.0
                    ],
                    "userAnnotationGroups": [
                        {
                            "_AnnotationGroup": true,
                            "dimension": 1,
                            "identifierRanges": "1",
                            "name": "cervical part of esophagus",
                            "ontId": "UBERON:0035450"
                        },
                        {
                            "_AnnotationGroup": true,
                            "dimension": 1,
                            "identifierRanges": "2-3",
                            "name": "thoracic part of esophagus",
                            "ontId": "UBERON:0035216"
                        },
                        {
                            "_AnnotationGroup": true,
                            "dimension": 1,
                            "identifierRanges": "4",
                            "name": "abdominal part of esophagus",
                            "ontId": "UBERON:0035177"
                        }
                    ]
                },
                "Circular muscle layer relative thickness": 0.25,
                "Longitudinal muscle layer relative thickness": 0.25,
                "Mucosa relative thickness": 0.35,
                "Number of elements along": 12,
                "Number of elements around": 8,
                "Number of elements through wall": 4,
                "Refine": false,
                "Refine number of elements along": 1,
                "Refine number of elements around": 1,
                "Refine number of elements through wall": 1,
                "Submucosa relative thickness": 0.15,
                "Use cross derivatives": false,
                "Use linear through wall": true,
                "Wall thickness": 5.0
            },
            "scaffoldTypeName": "3D Esophagus 1",
            "scale": [
                1.0,
                1.0,
                1.0
            ],
            "translation": [
                0.0,
                0.0,
                0.0
            ]
        }
    },
    "segmentation_data_settings": {
        "displayDataContours": true,
        "displayDataMarkerNames": true,
        "displayDataMarkerPoints": true,
        "displayDataPoints": false,
        "displayDataRadius": false
    }
}