image-tools/formats/czi-extract-plugin/plugin.json at 2a50d9fe1885bd78192c9c4358a2afaaec3e3f53 · PolusAI/image-tools · GitHub

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{
  "name": "Czi Extraction",
  "version": "1.1.2-dev",
  "title": "Extract TIFFs From CZI",
  "description": "Extracts individual fields of view from a CZI file. Saves as OME TIFF.",
  "author": "Nick Schaub (nick.schaub@nih.gov), Hamdah Shafqat Abbasi (hamdahshafqat.abbasi@nih.gov)",
  "institution": "National Center for Advancing Translational Sciences, National Institutes of Health",
  "repository": "https://github.com/PolusAI/polus-plugins",
  "website": "https://ncats.nih.gov/preclinical/core/informatics",
  "containerId": "polusai/czi-extract-plugin:1.1.2-dev",
  "baseCommand": [
    "python3",
    "-m",
    "polus.plugins.formats.czi_extract"
  ],
  "inputs": {
    "inpDir": {
      "type": "collection",
      "title": "Input collection",
      "description": "Input image collection to be processed by this plugin.",
      "required": "True"
    },
    "filePattern": {
      "type": "string",
      "title": "Filename pattern",
      "description": "Filename pattern used to separate data.",
      "required": "False"
    },
    "preview": {
      "type": "boolean",
      "title": "Preview",
      "description": "Generate an output preview.",
      "required": "False"
    }
  },
  "outputs": {
    "outDir": {
      "type": "collection",
      "description": "Output collection."
    }
  },
  "ui": {
    "inpDir": {
      "type": "collection",
      "title": "Input collection",
      "description": "Input image collection to be processed by this plugin.",
      "required": "True"
    },
    "filePattern": {
      "type": "string",
      "title": "Filename pattern",
      "description": "Filename pattern used to separate data.",
      "required": "False",
      "default": ".*.czi"
    },
    "preview": {
      "type": "boolean",
      "title": "Preview example output of this plugin",
      "description": "Generate an output preview.",
      "required": "False"
    }
  }
}