Location: Generic rat brainstem scaffold @ 5aecc505d537 / OrganScaffold-settings.json

Author:
Zohreh Ekhlasi <zekh167@aucklanduni.ac.nz>
Date:
2022-09-07 15:36:21+12:00
Desc:
Added updated files.
Permanent Source URI:
https://models.physiomeproject.org/workspace/6a7/rawfile/5aecc505d537d03a6dcae7029949a002964f394b/OrganScaffold-settings.json

{
    "scaffold_settings": {
        "deleteElementRanges": "",
        "displayAxes": false,
        "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": {
                "Base parameter set": "Rat 1",
                "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  0.000000000000000e+00  0.000000000000000e+00  1.900000000000000e+00 -2.000000000000000e-01  0.000000000000000e+00 -0.000000000000000e+00\n  2.900000000000000e+00  5.000000000000000e-01  0.000000000000000e+00  0.000000000000000e+00  1.300000000000000e+00  2.000000000000000e-01\n -5.400000000000000e+00  1.700000000000000e+00  0.000000000000000e+00  0.000000000000000e+00 -4.000000000000000e-01  1.300000000000000e+00\nNode: 2\n  0.000000000000000e+00  0.000000000000000e+00  1.800000000000000e+00  0.000000000000000e+00 -0.000000000000000e+00 -0.000000000000000e+00\n  2.700000000000000e+00 -9.000000000000000e-01  0.000000000000000e+00  0.000000000000000e+00  1.400000000000000e+00  0.000000000000000e+00\n -3.500000000000000e+00  2.000000000000000e+00  0.000000000000000e+00  0.000000000000000e+00  6.000000000000000e-01  8.000000000000000e-01\nNode: 3\n  0.000000000000000e+00  0.000000000000000e+00  2.000000000000000e+00  5.000000000000000e-01 -0.000000000000000e+00  0.000000000000000e+00\n  1.100000000000000e+00 -1.400000000000000e+00  0.000000000000000e+00  0.000000000000000e+00  1.300000000000000e+00  1.000000000000000e-01\n -1.800000000000000e+00  1.700000000000000e+00  0.000000000000000e+00  0.000000000000000e+00  1.100000000000000e+00  2.000000000000000e-01\nNode: 4\n  0.000000000000000e+00  0.000000000000000e+00  2.700000000000000e+00  3.000000000000000e-01 -0.000000000000000e+00  0.000000000000000e+00\n -1.000000000000000e-01 -1.100000000000000e+00  0.000000000000000e+00  0.000000000000000e+00  1.500000000000000e+00  2.000000000000000e-01\n -2.000000000000000e-01  1.500000000000000e+00  0.000000000000000e+00  0.000000000000000e+00  1.100000000000000e+00 -2.000000000000000e-01\nNode: 5\n  0.000000000000000e+00  0.000000000000000e+00  2.700000000000000e+00 -2.000000000000000e-01 -0.000000000000000e+00  0.000000000000000e+00\n -1.100000000000000e+00 -7.000000000000000e-01  0.000000000000000e+00  0.000000000000000e+00  1.800000000000000e+00  1.000000000000000e-01\n  1.200000000000000e+00  1.600000000000000e+00  0.000000000000000e+00  0.000000000000000e+00  8.000000000000000e-01 -1.000000000000000e-01\nNode: 6\n  0.000000000000000e+00  0.000000000000000e+00  2.200000000000000e+00 -1.000000000000000e-01 -0.000000000000000e+00  0.000000000000000e+00\n -1.500000000000000e+00 -1.100000000000000e+00  0.000000000000000e+00  0.000000000000000e+00  1.700000000000000e+00 -4.000000000000000e-01\n  3.000000000000000e+00  1.900000000000000e+00  0.000000000000000e+00  0.000000000000000e+00  1.000000000000000e+00  4.000000000000000e-01\nNode: 7\n  0.000000000000000e+00  0.000000000000000e+00  2.700000000000000e+00  1.100000000000000e+00 -0.000000000000000e+00  0.000000000000000e+00\n -3.300000000000000e+00 -2.400000000000000e+00  0.000000000000000e+00  0.000000000000000e+00  9.000000000000000e-01 -1.200000000000000e+00\n  4.600000000000000e+00  1.300000000000000e+00  0.000000000000000e+00  0.000000000000000e+00  1.700000000000000e+00  1.000000000000000e+00\nGroup name: meshEdits\n!#nodeset nodes\nNode group:\n1..7\n",
                    "rotation": [
                        0.0,
                        0.0,
                        0.0
                    ],
                    "scaffoldSettings": {
                        "Coordinate dimensions": 3,
                        "D2 derivatives": true,
                        "D3 derivatives": true,
                        "Length": 1.0,
                        "Number of elements": 6
                    },
                    "scaffoldTypeName": "1D Path 1",
                    "scale": [
                        1.0,
                        1.0,
                        1.0
                    ],
                    "translation": [
                        0.0,
                        0.0,
                        0.0
                    ],
                    "userAnnotationGroups": [
                        {
                            "_AnnotationGroup": true,
                            "dimension": 1,
                            "identifierRanges": "1-2",
                            "name": "medulla oblongata",
                            "ontId": "UBERON:0001896"
                        },
                        {
                            "_AnnotationGroup": true,
                            "dimension": 1,
                            "identifierRanges": "3-4",
                            "name": "pons",
                            "ontId": "UBERON:0000988"
                        },
                        {
                            "_AnnotationGroup": true,
                            "dimension": 1,
                            "identifierRanges": "5-6",
                            "name": "midbrain",
                            "ontId": "UBERON:0001891"
                        }
                    ]
                },
                "Number of elements across major": 6,
                "Number of elements across minor": 6,
                "Number of elements along": 8,
                "Refine": false,
                "Refine number of elements across major and minor": 1,
                "Refine number of elements along": 1,
                "Use cross derivatives": false
            },
            "scaffoldTypeName": "3D Brainstem 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
    }
}