/
descriptor.json
221 lines (219 loc) · 6.61 KB
/
descriptor.json
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{
"name": "Segment-CV-AdaptThres-Object-BI",
"description": "Detects objects in a big image using adaptive thresholding, tiling, and union",
"container-image": {
"image": "cytomineuliege/s_segment-cv-adaptthres-object-bi",
"type": "singularity"
},
"command-line": "[CYTOMINE_HOST] [CYTOMINE_PUBLIC_KEY] [CYTOMINE_PRIVATE_KEY] [CYTOMINE_ID_PROJECT] [CYTOMINE_ID_IMAGE] [CYTOMINE_ID_SOFTWARE] [CYTOMINE_ID_PREDICTED_TERM] [CYTOMINE_ZOOM_LEVEL] [CYTOMINE_FILTER] [CYTOMINE_TILE_SIZE] [CYTOMINE_TILE_OVERLAP] [CYTOMINE_MIN_AREA] [CYTOMINE_MAX_AREA] [CYTOMINE_UNION_MIN_LENGTH] [CYTOMINE_UNION_BUFFEROVERLAP] [CYTOMINE_UNION_AREA] [CYTOMINE_UNION_MIN_POINT_FOR_SIMPLIFY] [CYTOMINE_UNION_MIN_POINT] [CYTOMINE_UNION_MAX_POINT] [CYTOMINE_UNION_NB_ZONES_WIDTH] [CYTOMINE_UNION_NB_ZONES_HEIGHT]",
"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": "cytomine_id_predicted_term",
"value-key": "[@ID]",
"command-line-flag": "--@id",
"name": "Term to predict",
"description": "The term that will be associated to detected objects",
"optional": true,
"type": "Domain",
"uri": "/api/ontology/$currentOntology$/term.json",
"uri-print-attribute": "name",
"uri-sort-attribute": "name"
},
{
"id": "cytomine_id_image",
"value-key": "[@ID]",
"command-line-flag": "--@id",
"name": "Image to process",
"optional": false,
"type": "Domain",
"uri": "/api/project/$currentProject$/imageinstance.json",
"uri-print-attribute": "instanceFilename",
"uri-sort-attribute": "instanceFilename"
},
{
"id": "cytomine_zoom_level",
"value-key": "[@ID]",
"command-line-flag": "--@id",
"name": "Cytomine zoom level",
"description": "Cytomine zoom level at which to perform thresholding",
"optional": false,
"default-value": "0",
"type": "Number"
},
{
"id": "cytomine_filter",
"value-key": "[@ID]",
"command-line-flag": "--@id",
"name": "Cytomine thresholding filter",
"description": "Filter (adaptive,otsu,binary) to detect foreground objects",
"optional": false,
"default-value": "adaptive",
"type": "String"
},
{
"id": "cytomine_tile_size",
"value-key": "[@ID]",
"command-line-flag": "--@id",
"name": "Cytomine Processing Tile size",
"description": "Cytomine tile size where threshold is applied",
"optional": false,
"default-value": "512",
"type": "Number"
},
{
"id": "cytomine_tile_overlap",
"value-key": "[@ID]",
"command-line-flag": "--@id",
"name": "Cytomine Processing Tile Overlap",
"description": "Cytomine tile overlap where threshold is applied",
"optional": false,
"default-value": "0",
"type": "Number"
},
{
"id": "cytomine_min_area",
"value-key": "[@ID]",
"command-line-flag": "--@id",
"name": "Cytomine Minimum Object Area",
"description": "Cytomine minimum area of objects in pixels",
"optional": false,
"default-value": "1000",
"type": "Number"
},
{
"id": "cytomine_max_area",
"value-key": "[@ID]",
"command-line-flag": "--@id",
"name": "Cytomine Maximum object area",
"description": "Cytomine maximum area of objects in pixels",
"optional": false,
"default-value": "10000000",
"type": "Number"
},
{
"id": "cytomine_union_min_length",
"value-key": "[@ID]",
"command-line-flag": "--@id",
"name": "Cytomine union minimum length",
"description": "Cytomine minimum length for union",
"optional": false,
"default-value": "10",
"type": "Number"
},
{
"id": "cytomine_union_bufferoverlap",
"value-key": "[@ID]",
"command-line-flag": "--@id",
"name": "Cytomine Union Buffer Overlap",
"description": "Cytomine buffer overlap for union",
"optional": false,
"default-value": "5",
"type": "Number"
},
{
"id": "cytomine_union_area",
"value-key": "[@ID]",
"command-line-flag": "--@id",
"name": "Cytomine Union Area",
"description": "Cytomine area for union",
"optional": false,
"default-value": "5000",
"type": "Number"
},
{
"id": "cytomine_union_min_point_for_simplify",
"value-key": "[@ID]",
"command-line-flag": "--@id",
"name": "Cytomine Union Minimum Point Simplification",
"description": "Cytomine minimum number of points in polygon for simplification step",
"optional": false,
"default-value": "1000",
"type": "Number"
},
{
"id": "cytomine_union_min_point",
"value-key": "[@ID]",
"command-line-flag": "--@id",
"name": "Cytomine Minimum Point",
"description": "Cytomine minimum number of points in polygon",
"optional": false,
"default-value": "500",
"type": "Number"
},
{
"id": "cytomine_union_max_point",
"value-key": "[@ID]",
"command-line-flag": "--@id",
"description": "Cytomine maximum number of points in polygon",
"optional": false,
"default-value": "1000",
"type": "Number"
},
{
"id": "cytomine_union_nb_zones_width",
"value-key": "[@ID]",
"command-line-flag": "--@id",
"name": "Cytomine Union Number of Zones Width",
"description": "Cytomine number of zones width for union",
"optional": false,
"default-value": "5",
"type": "Number"
},
{
"id": "cytomine_union_nb_zones_height",
"value-key": "[@ID]",
"command-line-flag": "--@id",
"name": "Cytomine Union Number of Zones Height",
"description": "Cytomine number of zones height for union",
"optional": false,
"default-value": "5",
"type": "Number"
}
],
"schema-version": "cytomine-0.1"
}