image-tools/transforms/images/apply-flatfield-tool/plugin.json at f2d76ffad26c922914a288a14a384c99cb4cb467 · PolusAI/image-tools · GitHub

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{
  "name": "Apply Flatfield",
  "version": "2.1.0-dev0",
  "title": "Apply Flatfield",
  "description": "Apply a flatfield algorithm to a collection of images.",
  "author": "Nick Schaub (Nick.Schaub@nih.gov), Najib Ishaq (najib.ishaq@nih.gov)",
  "institution": "National Center for Advancing Translational Sciences, National Institutes of Health",
  "repository": "https://github.com/labshare/polus-plugins",
  "website": "https://ncats.nih.gov/preclinical/core/informatics",
  "citation": "",
  "containerId": "polusai/apply-flatfield-tool:2.1.0-dev0",
  "baseCommand": [
    "python3",
    "-m",
    "polus.images.transforms.images.apply_flatfield"
  ],
  "inputs": [
    {
      "name": "imgDir",
      "type": "collection",
      "description": "Input image collection to be processed by this plugin",
      "required": true
    },
    {
      "name": "imgPattern",
      "type": "string",
      "description": "Filename pattern used to separate data and match with flatfied files",
      "required": true
    },
    {
      "name": "ffDir",
      "type": "collection",
      "description": "Image collection containing flatfield and/or darkfield images",
      "required": true
    },
    {
      "name": "ffPattern",
      "type": "string",
      "description": "Filename pattern used to match flatfield files to image files",
      "required": true
    },
    {
      "name": "dfPattern",
      "type": "string",
      "description": "Filename pattern used to match darkfield files to image files",
      "required": false
    },
    {
      "name": "preview",
      "type": "boolean",
      "description": "Preview the output images' names without actually running computation",
      "required": false
    }
  ],
  "outputs": [
    {
      "name": "outDir",
      "type": "collection",
      "description": "Output collection"
    }
  ],
  "ui": [
    {
      "key": "inputs.imgDir",
      "title": "Images to correct",
      "description": "Input image collection to be processed by this plugin"
    },
    {
      "key": "inputs.imgPattern",
      "title": "Image pattern",
      "description": "Filename pattern used to separate data and match with flatfield files"
    },
    {
      "key": "inputs.ffDir",
      "title": "Background images (flatfield/darkfield)",
      "description": "Image collection containing flatfield and/or darkfield images"
    },
    {
      "key": "inputs.ffPattern",
      "title": "Flatfield file pattern",
      "description": "Filename pattern used to match flatfield files to image files"
    },
    {
      "key": "inputs.dfPattern",
      "title": "Darkfield file pattern",
      "description": "Filename pattern used to match darkfield files to image files"
    },
    {
      "key": "inputs.preview",
      "title": "Preview Output",
      "description": "Preview the output images' names without actually running computation"
    }
  ]
}