cisegmentation/plugin.json at main · Cellular-Imaging-Amsterdam-UMC/cisegmentation · GitHub

1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
{
  "$schema": "https://agent-plugins.org/schemas/1.0.0/plugin.schema.json",
  "name": "cisegmentation",
  "version": "0.7.0",
  "description": "Agent skills for the Bilayers CI Segmentation workflow and its measurement databases.",
  "author": {
    "name": "Cellular Imaging Amsterdam UMC",
    "url": "https://github.com/Cellular-Imaging-Amsterdam-UMC"
  },
  "homepage": "https://github.com/Cellular-Imaging-Amsterdam-UMC/cisegmentation",
  "repository": "https://github.com/Cellular-Imaging-Amsterdam-UMC/cisegmentation",
  "license": "MIT",
  "keywords": [
    "bioimaging",
    "segmentation",
    "ome-zarr",
    "duckdb",
    "sqlite"
  ],
  "extensions": {
    "nl.bioimaging.biomero": {
      "skills": {
        "analyze-cisegmentation-measurements": {
          "purpose": "attachment-analysis",
          "consumers": [
            "omero-analysis"
          ],
          "auto_activate": true,
          "match": {
            "extensions": [
              ".duckdb",
              ".sqlite",
              ".sqlite3"
            ],
            "filename_globs": [
              "*__cisegmentation_measurements.duckdb",
              "*__cisegmentation_measurements.sqlite",
              "*__cisegmentation_measurements.sqlite3"
            ],
            "required_tables": [
              "schema_info",
              "measurement_runs"
            ]
          },
          "required_resources": [
            "references/REFERENCE.md"
          ],
          "preferred_capabilities": [
            "omero-data-query-v1"
          ]
        },
        "use-cisegmentation-workflow": {
          "purpose": "workflow-operation",
          "consumers": [
            "omero-biomero"
          ],
          "auto_activate": false,
          "required_resources": [
            "references/PARAMETERS.md"
          ]
        },
        "analyze-cisegmentation-geometry": {
          "purpose": "attachment-analysis",
          "consumers": [
            "omero-analysis"
          ],
          "auto_activate": true,
          "match": {
            "extensions": [
              ".duckdb",
              ".sqlite",
              ".sqlite3"
            ],
            "filename_globs": [
              "*__cisegmentation_geometry.duckdb",
              "*__cisegmentation_geometry.sqlite",
              "*__cisegmentation_geometry.sqlite3"
            ],
            "required_tables": [
              "geometry_info",
              "geometries"
            ]
          },
          "required_resources": [
            "references/GEOMETRY.md"
          ],
          "preferred_capabilities": [
            "omero-data-query-v1"
          ]
        }
      }
    }
  }
}