descriptor.json

{
    "name": "PartTracking-ImageJ",
    "container-image": {
        "image": "neubiaswg5/w_parttracking-imagej",
        "type": "singularity"
    },
    "schema-version": "cytomine-0.1",
    "description": "Particle tracking based on linking closest intensity minima detected from LoG filtered time-lapse.",
    "command-line": "python wrapper.py CYTOMINE_HOST CYTOMINE_PUBLIC_KEY CYTOMINE_PRIVATE_KEY CYTOMINE_ID_PROJECT CYTOMINE_ID_SOFTWARE LAPRAD THR MAXLNKDST",
    "inputs": [
        {
            "id": "cytomine_host",
            "value-key": "@ID",
            "command-line-flag": "--@id",
            "name": "Cytomine host",
            "description": "Cytomine server hostname",
            "type": "String",
            "optional": false,
            "set-by-server": true
        },
        {
            "id": "cytomine_public_key",
            "value-key": "@ID",
            "command-line-flag": "--@id",
            "name": "Cytomine public key",
            "description": "Cytomine public key",
            "type": "String",
            "optional": false,
            "set-by-server": true
        },
        {
            "id": "cytomine_private_key",
            "value-key": "@ID",
            "command-line-flag": "--@id",
            "name": "Cytomine private key",
            "description": "Cytomine private key",
            "type": "String",
            "optional": false,
            "set-by-server": true
        },
        {
            "id": "cytomine_id_project",
            "value-key": "@ID",
            "command-line-flag": "--@id",
            "name": "Cytomine project id",
            "description": "Cytomine project id",
            "type": "String",
            "optional": false,
            "set-by-server": true
        },
        {
            "id": "cytomine_id_software",
            "value-key": "@ID",
            "command-line-flag": "--@id",
            "name": "Cytomine software id",
            "description": "Cytomine software id",
            "type": "String",
            "optional": false,
            "set-by-server": true
        },
        {
            "id": "laprad",
            "value-key": "@ID",
            "command-line-flag": "--@id",
            "name": "LoG Radius",
            "description": "Radius for the LoG filter",
            "type": "Number",
            "default-value": 9,
            "optional": true
        },
        {
            "id": "thr",
            "value-key": "@ID",
            "command-line-flag": "--@id",
            "name": "Threshold",
            "description": "Particle detection threshold",
            "type": "Number",
            "default-value": 0.05,
            "optional": true
        },
        {
            "id": "maxlnkdst",
            "value-key": "@ID",
            "command-line-flag": "--@id",
            "name": "Maximum linking distance",
            "description": "Maximum distance to link particles in consecutive frames",
            "type": "Number",
            "default-value": 15,
            "optional": true
        }
    ]
}