descriptor.json

{
    "name": "W_NucleiSegmentation-Sandbox",
    "description": "BIAFLOWS Sandbox workflow.",
    "container-image": {
        "image": "neubiaswg5/w_nucleisegmentation-sandbox",
        "type": "singularity"
    },
    "command-line": "python wrapper.py CYTOMINE_HOST CYTOMINE_PUBLIC_KEY CYTOMINE_PRIVATE_KEY CYTOMINE_ID_PROJECT CYTOMINE_ID_SOFTWARE RADIUS THRESHOLD",
    "inputs": [
        {
            "id": "cytomine_host",
            "value-key": "@ID",
            "command-line-flag": "--@id",
            "name": "Cytomine host",
            "set-by-server": true,
            "optional": false,
            "type": "String"
        },
        {
            "id": "cytomine_public_key",
            "value-key": "@ID",
            "command-line-flag": "--@id",
            "name": "Cytomine public key",
            "set-by-server": true,
            "optional": false,
            "type": "String"
        },
        {
            "id": "cytomine_private_key",
            "value-key": "@ID",
            "command-line-flag": "--@id",
            "name": "Cytomine private key",
            "set-by-server": true,
            "optional": false,
            "type": "String"
        },
        {
            "id": "cytomine_id_project",
            "value-key": "@ID",
            "command-line-flag": "--@id",
            "name": "Cytomine project ID",
            "set-by-server": true,
            "optional": false,
            "type": "Number"
        },
        {
            "id": "cytomine_id_software",
            "value-key": "@ID",
            "command-line-flag": "--@id",
            "name": "Cytomine software ID",
            "set-by-server": true,
            "optional": false,
            "type": "Number"
        },
        {
            "id": "radius",
            "name": "Radius",
            "description": "Radius for Laplacian filter",
            "default-value": 5,
            "type": "Number",
            "set-by-server": false,
            "value-key": "@ID",
            "optional": true,
            "command-line-flag": "--@id"
        },
        {
            "id": "threshold",
            "name": "Threshold",
            "description": "Segmentation threshold",
            "default-value": -0.5,
            "type": "Number",
            "set-by-server": false,
            "value-key": "@ID",
            "optional": true,
            "command-line-flag": "--@id"
        }
    ],
    "schema-version": "cytomine-0.1"
}