@cornerstonejs/tools 1.48.2 → 1.49.1

package/src/utilities/contours/reverseIfAntiClockwise.ts

@@ -0,0 +1,50 @@
+import { Types } from '@cornerstonejs/core';
+
+/**
+ * getSumReducer - A reducer function that calculates the sum of an array.
+ *
+ * @param total - The running total.
+ * @param num - The numerical value of the array element.
+ * @returns The updated running total.
+ */
+function getSumReducer(total: number, num: number): number {
+  return total + num;
+}
+
+/**
+ * _reverseIfAntiClockwise - If the contour's nodes run anti-clockwise,
+ * reverse them.
+ *
+ * @param points - The points array.
+ * @returns The contour, corrected to be clockwise if appropriate.
+ */
+export default function reverseIfAntiClockwise(points: Types.Point2[]) {
+  const length = points.length;
+  if (!length) {
+    return points;
+  }
+  let xSum = 0;
+  for (const point of points) {
+    xSum += point[0];
+  }
+  const xMean = xSum / length;
+
+  let checkSum = 0;
+
+  for (let k = 0, i = 1, j = 2; k < length; k++) {
+    checkSum += (points[i][0] - xMean) * (points[j][1] - points[k][1]);
+    i++;
+    j++;
+    if (i >= length) {
+      i = 0;
+    }
+    if (j >= length) {
+      j = 0;
+    }
+  }
+
+  if (checkSum > 0) {
+    return points.slice().reverse();
+  }
+  return points;
+}

package/src/utilities/getViewportForAnnotation.ts

@@ -0,0 +1,29 @@
+import { getEnabledElements, utilities as csUtils } from '@cornerstonejs/core';
+import type { Annotation } from '../types';
+
+const { isEqual } = csUtils;
+
+/**
+ * Finds a matching viewport in terms of the orientation of the annotation data
+ * and the frame of reference.  This doesn't mean the annotation IS being displayed
+ * in the viewport, just that it could be by navigating the slice, and/or pan/zoom,
+ * without changing the orientation.
+ *
+ * @param annotation - to find a viewport that it could display in
+ * @returns The viewport to display in
+ */
+export default function getViewportForAnnotation(annotation: Annotation) {
+  const { metadata } = annotation;
+  const enabledElement = getEnabledElements().find((enabledElement) => {
+    if (enabledElement.FrameOfReferenceUID === metadata.FrameOfReferenceUID) {
+      const viewport = enabledElement.viewport;
+      const { viewPlaneNormal, viewUp } = viewport.getCamera();
+      return (
+        isEqual(viewPlaneNormal, metadata.viewPlaneNormal) &&
+        (!metadata.viewUp || isEqual(viewUp, metadata.viewUp))
+      );
+    }
+    return;
+  });
+  return enabledElement?.viewport;
+}

package/src/utilities/index.ts

@@ -26,6 +26,7 @@ import scroll from './scroll';
 import { pointToString } from './pointToString';
 import annotationFrameRange from './annotationFrameRange';
 import pointInSurroundingSphereCallback from './pointInSurroundingSphereCallback';
+import getViewportForAnnotation from './getViewportForAnnotation';
 
 // name spaces
 import * as contours from './contours';
@@ -74,6 +75,7 @@ export {
   pointInShapeCallback,
   getSphereBoundsInfo,
   getAnnotationNearPoint,
+  getViewportForAnnotation,
   getAnnotationNearPointOnEnabledElement,
   jumpToSlice,
   pointInSurroundingSphereCallback,

package/src/utilities/livewire/LivewireScissors.ts

@@ -14,7 +14,7 @@ const TWO_THIRD_PI = 2 / (3 * Math.PI);
  *
  * {@link http://www.sciencedirect.com/science/article/B6WG4-45JB8WN-9/2/6fe59d8089fd1892c2bfb82283065579}
  *
- * Implementation based on
+ * Implementation based on MIT licensed code at:
  * {@link http://code.google.com/p/livewire-javascript/}
  */
 export class LivewireScissors {

package/src/utilities/planar/filterAnnotationsForDisplay.ts

@@ -42,7 +42,12 @@ export default function filterAnnotationsForDisplay(
         return false;
       }
 
-      const imageId = annotation.metadata.referencedImageId;
+      // The referenced image id can be a targetId, so handle removing the
+      // imageId portion to make the base comparison work.
+      const imageId = annotation.metadata.referencedImageId?.replace(
+        'imageId:',
+        ''
+      );
 
       if (imageId === undefined) {
         // This annotation was not drawn on a non-coplanar reformat, and such does

package/src/utilities/planarFreehandROITool/index.ts

@@ -1,7 +1,7 @@
-import interpolateAnnotation from './interpolateAnnotation';
+import smoothAnnotation from './smoothAnnotation';
 
 export default {
-  interpolateAnnotation,
+  smoothAnnotation,
 };
 
-export { interpolateAnnotation };
+export { smoothAnnotation };

package/src/utilities/planarFreehandROITool/{interpolateAnnotation.ts → smoothAnnotation.ts}

@@ -50,7 +50,7 @@ function shouldPreventInterpolation(
  * The param knotsRatioPercentage defines the percentage of points to be considered as knots on the interpolation process.
  * Interpolation will be skipped in case: annotation is not present in enabledElement (or there is no toolGroup associated with it), related tool is being modified.
  */
-export default function interpolateAnnotation(
+export default function smoothAnnotation(
   enabledElement: Types.IEnabledElement,
   annotation: PlanarFreehandROIAnnotation,
   knotsRatioPercentage: number
@@ -65,7 +65,9 @@ export default function interpolateAnnotation(
   const { viewport } = enabledElement;
   // use only 2 dimensions on interpolation (what visually matters),
   // otherwise a 3d interpolation might have a totally different output as it consider one more dimension.
-  const canvasPoints = annotation.data.polyline.map(viewport.worldToCanvas);
+  const canvasPoints = annotation.data.contour.polyline.map(
+    viewport.worldToCanvas
+  );
   const interpolatedCanvasPoints = <Types.Point2[]>(
     interpolateSegmentPoints(
       canvasPoints,
@@ -79,7 +81,7 @@ export default function interpolateAnnotation(
     return false;
   }
 
-  annotation.data.polyline = interpolatedCanvasPoints.map(
+  annotation.data.contour.polyline = interpolatedCanvasPoints.map(
     viewport.canvasToWorld
   );
 

package/src/utilities/planarFreehandROITool/{interpolatePoints.ts → smoothPoints.ts}

@@ -2,10 +2,16 @@ import { Types } from '@cornerstonejs/core';
 import { point } from '../math';
 import interpolateSegmentPoints from './interpolation/interpolateSegmentPoints';
 
-export function shouldInterpolate(configuration: Record<any, any>): boolean {
+export function shouldSmooth(
+  configuration: Record<any, any>,
+  annotation?
+): boolean {
+  if (annotation?.autoGenerated) {
+    return false;
+  }
   return (
-    configuration?.interpolation?.interpolateOnAdd === true ||
-    configuration?.interpolation?.interpolateOnEdit === true
+    configuration?.smoothing?.smoothOnAdd === true ||
+    configuration?.smoothing?.smoothOnEdit === true
   );
 }
 
@@ -179,14 +185,14 @@ export function getInterpolatedPoints(
     const {
       knotsRatioPercentageOnAdd,
       knotsRatioPercentageOnEdit,
-      interpolateOnAdd = false,
-      interpolateOnEdit = false,
+      smoothOnAdd = false,
+      smoothOnEdit = false,
     } = interpolation;
 
     const knotsRatioPercentage = pointsOfReference
       ? knotsRatioPercentageOnEdit
       : knotsRatioPercentageOnAdd;
-    const isEnabled = pointsOfReference ? interpolateOnEdit : interpolateOnAdd;
+    const isEnabled = pointsOfReference ? smoothOnEdit : smoothOnAdd;
 
     if (isEnabled) {
       // partial or total interpolation

package/src/utilities/polyData/utils.ts

@@ -1,14 +1,21 @@
 import vtkPolyData from '@kitware/vtk.js/Common/DataModel/PolyData';
+import type { Types } from '@cornerstonejs/core';
+import { vec3 } from 'gl-matrix';
 
 /**
  * Gets a point from an array of numbers given its index
- * @param points array of number, each point defined by three consecutive numbers
- * @param idx index of the point to retrieve
+ * @param points - array of number, each point defined by three consecutive numbers
+ * @param idx - index of the point to retrieve
  * @returns
  */
-export function getPoint(points, idx) {
-  if (idx < points.length / 3) {
-    return [points[idx * 3], points[idx * 3 + 1], points[idx * 3 + 2]];
+export function getPoint(points, idx): Types.Point3 {
+  const idx3 = idx * 3;
+  if (idx3 < points.length) {
+    return vec3.fromValues(
+      points[idx3],
+      points[idx3 + 1],
+      points[idx3 + 2]
+    ) as Types.Point3;
   }
 }
 

package/src/utilities/segmentation/InterpolationManager/InterpolationManager.ts

@@ -0,0 +1,207 @@
+import { utilities as csUtils } from '@cornerstonejs/core';
+import type { Types } from '@cornerstonejs/core';
+import {
+  AnnotationCompletedEventType,
+  AnnotationModifiedEventType,
+  AnnotationRemovedEventType,
+} from '../../../types/EventTypes';
+import { state as annotationState } from '../../../stateManagement/annotation';
+import type AnnotationGroupSelector from '../../../types/AnnotationGroupSelector';
+import getInterpolationDataCollection from '../../contours/interpolation/getInterpolationDataCollection';
+import type {
+  InterpolationViewportData,
+  AcceptInterpolationSelector,
+} from '../../../types/InterpolationTypes';
+import interpolate from '../../contours/interpolation/interpolate';
+import deleteRelatedAnnotations from './deleteRelatedAnnotations';
+import { InterpolationROIAnnotation } from '../../../types/ToolSpecificAnnotationTypes';
+import ChangeTypes from '../../../enums/ChangeTypes';
+import getViewportForAnnotation from '../../getViewportForAnnotation';
+
+const { uuidv4 } = csUtils;
+
+export default class InterpolationManager {
+  static toolNames = [];
+
+  static addTool(toolName: string) {
+    if (!this.toolNames.includes(toolName)) {
+      this.toolNames.push(toolName);
+    }
+  }
+
+  /**
+   * Accepts the autogenerated interpolations, marking them as non-autogenerated.
+   * Can provide a selector to choose which ones to accept
+   */
+  static acceptAutoGenerated(
+    annotationGroupSelector: AnnotationGroupSelector,
+    selector: AcceptInterpolationSelector = {}
+  ) {
+    const { toolNames, segmentationId, segmentIndex } = selector;
+    for (const toolName of toolNames || InterpolationManager.toolNames) {
+      const annotations = annotationState.getAnnotations(
+        toolName,
+        annotationGroupSelector
+      );
+      if (!annotations?.length) {
+        continue;
+      }
+      for (const annotation of annotations) {
+        const { data, autoGenerated } = annotation;
+        if (!autoGenerated) {
+          continue;
+        }
+        if (segmentIndex && segmentIndex !== data.segmentation.segmentIndex) {
+          continue;
+        }
+        if (
+          segmentationId &&
+          segmentationId !== data.segmentation.segmentationId
+        ) {
+          continue;
+        }
+        annotation.autoGenerated = false;
+      }
+    }
+  }
+
+  static handleAnnotationCompleted = (evt: AnnotationCompletedEventType) => {
+    const annotation = evt.detail.annotation as InterpolationROIAnnotation;
+    if (!annotation?.metadata) {
+      return;
+    }
+    const { toolName } = annotation.metadata;
+
+    if (!this.toolNames.includes(toolName)) {
+      return;
+    }
+
+    const viewport = getViewportForAnnotation(annotation);
+    if (!viewport) {
+      console.warn('Unable to find viewport for', annotation);
+      return;
+    }
+    const sliceData: Types.ImageSliceData = getSliceData(viewport);
+    const viewportData: InterpolationViewportData = {
+      viewport,
+      sliceData,
+      annotation,
+      interpolationUID: annotation.interpolationUID,
+    };
+    const hasInterpolationUID = !!annotation.interpolationUID;
+    // If any update, triggered on an annotation, then it will be treated as non-autogenerated.
+    annotation.autoGenerated = false;
+    if (hasInterpolationUID) {
+      // This has already been configured with matching details, so just run
+      //  the interpolation again.
+      deleteRelatedAnnotations(viewportData);
+      interpolate(viewportData);
+      return;
+    }
+    const filterData = [
+      {
+        key: 'segmentIndex',
+        value: annotation.data.segmentation.segmentIndex,
+        parentKey: (annotation) => annotation.data.segmentation,
+      },
+      {
+        key: 'viewPlaneNormal',
+        value: annotation.metadata.viewPlaneNormal,
+        parentKey: (annotation) => annotation.metadata,
+      },
+      {
+        key: 'viewUp',
+        value: annotation.metadata.viewUp,
+        parentKey: (annotation) => annotation.metadata,
+      },
+    ];
+    let interpolationAnnotations = getInterpolationDataCollection(
+      viewportData,
+      filterData
+    );
+    // Skip other type of annotations with same location
+    interpolationAnnotations = interpolationAnnotations.filter(
+      (interpolationAnnotation) => interpolationAnnotation.interpolationUID
+    );
+    if (!annotation.interpolationUID) {
+      annotation.interpolationUID =
+        interpolationAnnotations[0]?.interpolationUID || uuidv4();
+      viewportData.interpolationUID = annotation.interpolationUID;
+    }
+    interpolate(viewportData);
+  };
+
+  static handleAnnotationUpdate = (evt: AnnotationModifiedEventType) => {
+    const annotation = evt.detail.annotation as InterpolationROIAnnotation;
+    const { changeType = ChangeTypes.HandlesUpdated } = evt.detail;
+    if (!annotation?.metadata) {
+      return;
+    }
+    const { toolName } = annotation.metadata;
+
+    if (
+      !this.toolNames.includes(toolName) ||
+      changeType !== ChangeTypes.HandlesUpdated
+    ) {
+      return;
+    }
+
+    const viewport = getViewportForAnnotation(annotation);
+    if (!viewport) {
+      console.warn(
+        'Unable to find matching viewport for annotation interpolation',
+        annotation
+      );
+      return;
+    }
+
+    const sliceData: Types.ImageSliceData = getSliceData(viewport);
+    const viewportData: InterpolationViewportData = {
+      viewport,
+      sliceData,
+      annotation,
+      interpolationUID: annotation.interpolationUID,
+    };
+    interpolate(viewportData);
+  };
+
+  static handleAnnotationDelete = (evt: AnnotationRemovedEventType) => {
+    const annotation = evt.detail.annotation as InterpolationROIAnnotation;
+    if (!annotation?.metadata) {
+      return;
+    }
+    const { toolName } = annotation.metadata;
+
+    if (!this.toolNames.includes(toolName) || annotation.autoGenerated) {
+      return;
+    }
+    const viewport = getViewportForAnnotation(annotation);
+
+    if (!viewport) {
+      console.warn(
+        "No viewport, can't delete interpolated results",
+        annotation
+      );
+      return;
+    }
+
+    const sliceData: Types.ImageSliceData = getSliceData(viewport);
+    const viewportData: InterpolationViewportData = {
+      viewport,
+      sliceData,
+      annotation,
+      interpolationUID: annotation.interpolationUID,
+    };
+    // If any update, triggered on an annotation, then it will be treated as non-interpolated.
+    annotation.autoGenerated = false;
+    deleteRelatedAnnotations(viewportData);
+  };
+}
+
+function getSliceData(viewport): Types.ImageSliceData {
+  const sliceData: Types.ImageSliceData = {
+    numberOfSlices: viewport.getNumberOfSlices(),
+    imageIndex: viewport.getCurrentImageIdIndex(),
+  };
+  return sliceData;
+}

package/src/utilities/segmentation/InterpolationManager/deleteRelatedAnnotations.ts

@@ -0,0 +1,97 @@
+import { triggerEvent } from '@cornerstonejs/core';
+import * as annotationStateManagement from '../../../stateManagement/annotation';
+import interpolate from '../../contours/interpolation/interpolate';
+import type { InterpolationViewportData } from '../../../types/InterpolationTypes';
+import getInterpolationData from '../../contours/interpolation/getInterpolationData';
+import type { InterpolationROIAnnotation } from '../../../types/ToolSpecificAnnotationTypes';
+import EventTypes from '../../../enums/Events';
+import type { AnnotationInterpolationRemovedEventDetail } from '../../../types/EventTypes';
+
+/**
+ * deleteRelatedAnnotations - Delete the same interpolation uid on deleting one of them.
+ *
+ * @param eventData - Object.
+ * @returns null
+ */
+export default function deleteRelatedAnnotations(
+  viewportData: InterpolationViewportData
+) {
+  const { annotation } = viewportData;
+  const interpolationAnnotations = getInterpolationData(viewportData, [
+    { key: 'interpolationUID', value: viewportData.interpolationUID },
+  ]);
+
+  const referencedSliceIndex = annotation.metadata.referencedSliceIndex;
+  let minInterpolation = -1;
+  let maxInterpolation = viewportData.sliceData.numberOfSlices;
+  for (const [sliceIndex, annotations] of interpolationAnnotations.entries()) {
+    if (sliceIndex === referencedSliceIndex) {
+      continue;
+    }
+    const nonInterpolated = annotations.find(
+      (annotation) => !annotation.autoGenerated
+    );
+    if (!nonInterpolated) {
+      continue;
+    }
+    if (sliceIndex < referencedSliceIndex) {
+      minInterpolation = Math.max(sliceIndex, minInterpolation);
+    } else {
+      maxInterpolation = Math.min(sliceIndex, maxInterpolation);
+    }
+  }
+
+  const removedAnnotations = [];
+  for (const [sliceIndex, annotations] of interpolationAnnotations.entries()) {
+    if (
+      sliceIndex <= minInterpolation ||
+      sliceIndex >= maxInterpolation ||
+      sliceIndex === referencedSliceIndex
+    ) {
+      continue;
+    }
+    annotations.forEach((annotationToDelete) => {
+      if (annotationToDelete.autoGenerated) {
+        annotationStateManagement.state.removeAnnotation(
+          annotationToDelete.annotationUID
+        );
+        removedAnnotations.push(annotationToDelete);
+      }
+    });
+  }
+
+  if (removedAnnotations.length) {
+    const eventDetails: AnnotationInterpolationRemovedEventDetail = {
+      annotations: removedAnnotations,
+      element: viewportData.viewport.element,
+      viewportId: viewportData.viewport.id,
+      renderingEngineId: viewportData.viewport.getRenderingEngine().id,
+    };
+
+    triggerEvent(
+      viewportData.viewport.element,
+      EventTypes.INTERPOLATED_ANNOTATIONS_REMOVED,
+      eventDetails
+    );
+  }
+
+  if (
+    minInterpolation >= 0 &&
+    maxInterpolation < viewportData.sliceData.numberOfSlices
+  ) {
+    const nextAnnotation = interpolationAnnotations.get(
+      maxInterpolation
+    )[0] as InterpolationROIAnnotation;
+    // Trigger interpolation for the next non-interpolated annotation
+    const viewportNewData: InterpolationViewportData = {
+      viewport: viewportData.viewport,
+      sliceData: {
+        numberOfSlices: viewportData.sliceData.numberOfSlices,
+        imageIndex: nextAnnotation.metadata.referencedSliceIndex,
+      },
+      annotation: nextAnnotation,
+      interpolationUID: nextAnnotation.interpolationUID,
+    };
+    interpolate(viewportNewData);
+  }
+}

package/src/utilities/triggerAnnotationRenderForViewportIds.ts

@@ -5,12 +5,17 @@ export function triggerAnnotationRenderForViewportIds(
   renderingEngine: Types.IRenderingEngine,
   viewportIdsToRender: string[]
 ): void {
-  if (!viewportIdsToRender.length) {
+  if (!viewportIdsToRender.length || !renderingEngine) {
     return;
   }
 
   viewportIdsToRender.forEach((viewportId) => {
-    const { element } = renderingEngine.getViewport(viewportId);
+    const viewport = renderingEngine.getViewport(viewportId);
+    if (!viewport) {
+      console.warn(`Viewport not available for ${viewportId}`);
+      return;
+    }
+    const { element } = viewport;
     triggerAnnotationRender(element);
   });
 }

package/dist/cjs/utilities/planarFreehandROITool/interpolateAnnotation.d.ts

@@ -1,3 +0,0 @@
-import { Types } from '@cornerstonejs/core';
-import { PlanarFreehandROIAnnotation } from '../../types/ToolSpecificAnnotationTypes';
-export default function interpolateAnnotation(enabledElement: Types.IEnabledElement, annotation: PlanarFreehandROIAnnotation, knotsRatioPercentage: number): boolean;

package/dist/cjs/utilities/planarFreehandROITool/interpolateAnnotation.js.map

@@ -1 +0,0 @@
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package/dist/cjs/utilities/planarFreehandROITool/interpolatePoints.js.map

@@ -1 +0,0 @@
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package/dist/esm/utilities/planarFreehandROITool/interpolateAnnotation.js.map

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package/dist/esm/utilities/planarFreehandROITool/interpolatePoints.js.map

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package/dist/types/utilities/planarFreehandROITool/interpolateAnnotation.d.ts

@@ -1,4 +0,0 @@
-import { Types } from '@cornerstonejs/core';
-import { PlanarFreehandROIAnnotation } from '../../types/ToolSpecificAnnotationTypes';
-export default function interpolateAnnotation(enabledElement: Types.IEnabledElement, annotation: PlanarFreehandROIAnnotation, knotsRatioPercentage: number): boolean;
-//# sourceMappingURL=interpolateAnnotation.d.ts.map

package/dist/types/utilities/planarFreehandROITool/interpolateAnnotation.d.ts.map

@@ -1 +0,0 @@
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package/dist/types/utilities/planarFreehandROITool/interpolatePoints.d.ts.map

@@ -1 +0,0 @@
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