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| 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 | import type { ContourSegmentationAnnotation } from '../../../types';
import { getAnnotation } from '../../annotation/annotationState';
import { getSegmentation } from '../getSegmentation';
import { extractSegmentPolylines } from './extractSegmentPolylines';
import findIslands from '../../../utilities/contours/findIslands';
import { removeCompleteContourAnnotation } from './removeCompleteContourAnnotation';
/**
* Removes contour islands from a segmentation segment by detecting and deleting small isolated contours.
* Islands are contours that are smaller than the specified threshold and are not connected to larger contours.
* This helps clean up segmentations by removing noise and small artifacts.
*
* @param segmentationId - The unique identifier of the segmentation
* @param segmentIndex - The index of the segment within the segmentation
* @param options - Configuration options for island detection
* @param options.threshold - The minimum size threshold for contours (default: 3)
*/
export default function removeContourIslands(
segmentationId: string,
segmentIndex: number,
options: { threshold: number } = { threshold: 3 }
) {
const segmentation = getSegmentation(segmentationId);
if (!segmentation) {
console.warn(`Invalid segmentation given ${segmentationId}`);
return;
}
if (!segmentation.representationData.Contour) {
console.warn(
`No contour representation found for segmentation ${segmentationId}`
);
return;
}
const polylinesCanvasMap = extractSegmentPolylines(
segmentationId,
segmentIndex
);
if (!polylinesCanvasMap) {
console.warn(
`Error extracting contour data from segment ${segmentIndex} in segmentation ${segmentationId}`
);
return;
}
const keys = Array.from(polylinesCanvasMap?.keys());
const polylines = keys.map((key) => polylinesCanvasMap.get(key));
const islands = findIslands(polylines, options.threshold);
if (islands?.length > 0) {
islands.forEach((index) => {
const annotation = getAnnotation(
keys[index]
) as ContourSegmentationAnnotation;
removeCompleteContourAnnotation(annotation);
});
}
}
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