@cornerstonejs/tools 1.42.0 → 1.43.0

package/src/utilities/rectangleROITool/isAxisAlignedRectangle.ts

@@ -0,0 +1,53 @@
+import { vec3 } from 'gl-matrix';
+import { utilities as csUtils } from '@cornerstonejs/core';
+
+const { isEqual } = csUtils;
+
+const iAxis = vec3.fromValues(1, 0, 0);
+const jAxis = vec3.fromValues(0, 1, 0);
+const kAxis = vec3.fromValues(0, 0, 1);
+
+const axisList = [iAxis, jAxis, kAxis];
+
+/**
+ * Determines whether a given rectangle in a 3D space (defined by its corner
+ * points in IJK coordinates) is aligned with the IJK axes.
+ * @param rectangleCornersIJK - The corner points of the rectangle in IJK coordinates
+ * @returns True if the rectangle is aligned with the IJK axes, false otherwise
+ */
+function isAxisAlignedRectangle(rectangleCornersIJK) {
+  const rectangleVec1 = vec3.subtract(
+    vec3.create(),
+    rectangleCornersIJK[0],
+    rectangleCornersIJK[1]
+  );
+
+  const rectangleVec2 = vec3.subtract(
+    vec3.create(),
+    rectangleCornersIJK[0],
+    rectangleCornersIJK[2]
+  );
+
+  // Calculate the angles with IJK axes for both vectors
+  const anglesVec1 = calculateAnglesWithAxes(rectangleVec1, axisList);
+  const anglesVec2 = calculateAnglesWithAxes(rectangleVec2, axisList);
+
+  // Check if all angles are aligned (0, 90, 180, or 270 degrees)
+  // we could do csUtils.isEqual(angle % 90, 0) but this is more explicit for reading
+  const isAligned = [...anglesVec1, ...anglesVec2].every(
+    (angle) =>
+      isEqual(angle, 0) ||
+      isEqual(angle, 90) ||
+      isEqual(angle, 180) ||
+      isEqual(angle, 270)
+  );
+
+  return isAligned;
+}
+
+// Function to calculate angle with IJK axes
+function calculateAnglesWithAxes(vec, axes) {
+  return axes.map((axis) => (vec3.angle(vec, axis) * 180) / Math.PI);
+}
+
+export { isAxisAlignedRectangle };

package/src/utilities/segmentation/createImageIdReferenceMap.ts

@@ -0,0 +1,23 @@
+/**
+ * Creates a map that associates each imageId with a set of segmentation imageIds.
+ * Note that this function assumes that the imageIds and segmentationImageIds arrays
+ * are the same length and same order.
+ *
+ * @param imageIdsArray - An array of imageIds.
+ * @param segmentationImageIds - An array of segmentation imageIds.
+ * @returns A map that maps each imageId to a set of segmentation imageIds.
+ */
+function createImageIdReferenceMap(
+  imageIdsArray: string[],
+  segmentationImageIds: string[]
+): Map<string, string> {
+  const imageIdReferenceMap = new Map<string, string>(
+    imageIdsArray.map((imageId, index) => {
+      return [imageId, segmentationImageIds[index]];
+    })
+  );
+
+  return imageIdReferenceMap;
+}
+
+export { createImageIdReferenceMap };

package/src/utilities/segmentation/createLabelmapVolumeForViewport.ts

@@ -65,7 +65,7 @@ export default async function createLabelmapVolumeForViewport(input: {
   } else {
     // create a labelmap from a reference volume
     const { uid: volumeId } = viewport.getDefaultActor();
-    await volumeLoader.createAndCacheDerivedVolume(volumeId, {
+    await volumeLoader.createAndCacheDerivedSegmentationVolume(volumeId, {
       volumeId: segmentationId,
     });
   }

package/src/utilities/segmentation/index.ts

@@ -15,9 +15,11 @@ import {
   setBrushThresholdForToolGroup,
 } from './brushThresholdForToolGroup';
 import thresholdSegmentationByRange from './thresholdSegmentationByRange';
+import { createImageIdReferenceMap } from './createImageIdReferenceMap';
 import contourAndFindLargestBidirectional from './contourAndFindLargestBidirectional';
 import createBidirectionalToolData from './createBidirectionalToolData';
 import segmentContourAction from './segmentContourAction';
+import { invalidateBrushCursor } from './invalidateBrushCursor';
 
 export {
   thresholdVolumeByRange,
@@ -33,7 +35,9 @@ export {
   getBrushThresholdForToolGroup,
   setBrushThresholdForToolGroup,
   thresholdSegmentationByRange,
+  createImageIdReferenceMap,
   contourAndFindLargestBidirectional,
   createBidirectionalToolData,
   segmentContourAction,
+  invalidateBrushCursor,
 };

package/src/utilities/segmentation/invalidateBrushCursor.ts

@@ -0,0 +1,48 @@
+import { getToolGroup } from '../../store/ToolGroupManager';
+import BrushTool from '../../tools/segmentation/BrushTool';
+import triggerAnnotationRenderForViewportIds from '../triggerAnnotationRenderForViewportIds';
+import { getRenderingEngine } from '@cornerstonejs/core';
+import getBrushToolInstances from './utilities';
+
+/**
+ * Invalidates the brush cursor for a specific tool group.
+ * This function triggers the update of the brush being rendered.
+ * It also triggers an annotation render for any viewports on the tool group.
+ *
+ * @param toolGroupId - The ID of the tool group.
+ */
+export function invalidateBrushCursor(toolGroupId: string): void {
+  const toolGroup = getToolGroup(toolGroupId);
+
+  if (toolGroup === undefined) {
+    return;
+  }
+
+  const brushBasedToolInstances = getBrushToolInstances(toolGroupId);
+
+  brushBasedToolInstances.forEach((tool: BrushTool) => {
+    // Invalidate the brush being rendered so it can update.
+    tool.invalidateBrushCursor();
+  });
+
+  // Trigger an annotation render for any viewports on the toolgroup
+  const viewportsInfo = toolGroup.getViewportsInfo();
+
+  const viewportsInfoArray = Object.keys(viewportsInfo).map(
+    (key) => viewportsInfo[key]
+  );
+
+  if (!viewportsInfoArray.length) {
+    return;
+  }
+
+  const { renderingEngineId } = viewportsInfoArray[0];
+
+  // Use helper to get array of viewportIds, or we just end up doing this mapping
+  // ourselves here.
+  const viewportIds = toolGroup.getViewportIds();
+
+  const renderingEngine = getRenderingEngine(renderingEngineId);
+
+  triggerAnnotationRenderForViewportIds(renderingEngine, viewportIds);
+}

package/src/utilities/segmentation/thresholdSegmentationByRange.ts

@@ -64,7 +64,7 @@ function thresholdSegmentationByRange(
 }
 
 function _handleDifferentSizeVolume(
-  scalarData: Types.VolumeScalarData,
+  scalarData: Types.PixelDataTypedArray,
   segmentationIndex: number,
   volumeInfo: any,
   volumeInfoList: any,
@@ -112,7 +112,7 @@ function _handleDifferentSizeVolume(
 }
 
 function _handleSameSizeVolume(
-  scalarData: Types.VolumeScalarData,
+  scalarData: Types.PixelDataTypedArray,
   segmentationIndex: number,
   volumeInfo: any
 ) {

package/src/utilities/segmentation/triggerSegmentationRender.ts

@@ -113,18 +113,23 @@ class SegmentationRenderingEngine {
     }
 
     const { viewportsInfo } = toolGroup;
-    const viewports = [];
 
-    viewportsInfo.forEach(({ viewportId, renderingEngineId }) => {
-      const renderingEngine = getRenderingEngine(renderingEngineId);
+    const viewports = viewportsInfo
+      .map(({ viewportId, renderingEngineId }) => {
+        const renderingEngine = getRenderingEngine(renderingEngineId);
 
-      if (!renderingEngine) {
-        console.warn('rendering Engine has been destroyed');
-        return;
-      }
+        if (!renderingEngine) {
+          console.warn('rendering Engine has been destroyed');
+          return;
+        }
 
-      viewports.push(renderingEngine.getViewport(viewportId));
-    });
+        const viewport = renderingEngine.getViewport(viewportId);
+
+        if (viewport) {
+          return viewport;
+        }
+      })
+      .filter(Boolean);
 
     const segmentationDisplayToolInstance = toolGroup.getToolInstance(
       SegmentationDisplayTool.toolName
@@ -173,7 +178,7 @@ class SegmentationRenderingEngine {
     viewports.forEach(({ element }) => {
       element.addEventListener(
         Enums.Events.IMAGE_RENDERED,
-        onSegmentationRender
+        onSegmentationRender as EventListener
       );
     });
 

package/src/utilities/segmentation/utilities.ts

@@ -2,7 +2,7 @@ import { Types } from '@cornerstonejs/core';
 import { utilities as csUtils } from '@cornerstonejs/core';
 import { getToolGroup } from '../../store/ToolGroupManager';
 import BrushTool from '../../tools/segmentation/BrushTool';
-import getBoundingBoxAroundShape from '../boundingBox/getBoundingBoxAroundShape';
+import { getBoundingBoxAroundShapeIJK } from '../boundingBox/getBoundingBoxAroundShape';
 
 export type ThresholdInformation = {
   volume: Types.IImageVolume;
@@ -67,7 +67,10 @@ export function getVoxelOverlap(
   const voxelCornersIJK = voxelCornersWorld.map(
     (world) => csUtils.transformWorldToIndex(imageData, world) as Types.Point3
   );
-  const overlapBounds = getBoundingBoxAroundShape(voxelCornersIJK, dimensions);
+  const overlapBounds = getBoundingBoxAroundShapeIJK(
+    voxelCornersIJK,
+    dimensions
+  );
 
   return overlapBounds;
 }

package/src/utilities/stackPrefetch/stackContextPrefetch.ts

@@ -14,7 +14,7 @@ import {
   clearFromImageIds,
   getPromiseRemovedHandler,
 } from './stackPrefetchUtils';
-import roundNumber from '../roundNumber';
+import { roundNumber } from '../../utilities';
 
 let configuration = {
   maxImagesToPrefetch: Infinity,

package/src/utilities/stackPrefetch/stackPrefetchUtils.ts

@@ -52,9 +52,13 @@ export function getStackData(element) {
   const { viewport } = enabledElement;
 
   if (!(viewport instanceof StackViewport)) {
-    throw new Error(
+    // we shouldn't throw error here, since the viewport might have
+    // changed from stack to volume during prefetch
+    console.warn(
       'stackPrefetch: element must be a StackViewport, VolumeViewport stackPrefetch not yet implemented'
     );
+
+    return null;
   }
 
   return {

package/dist/cjs/utilities/pointInSurroundingSphereCallback.d.ts

@@ -1,4 +0,0 @@
-import type { Types } from '@cornerstonejs/core';
-import type { vtkImageData } from '@kitware/vtk.js/Common/DataModel/ImageData';
-import { PointInShapeCallback } from './pointInShapeCallback';
-export default function pointInSurroundingSphereCallback(imageData: vtkImageData, circlePoints: [Types.Point3, Types.Point3], callback: PointInShapeCallback, viewport?: Types.IVolumeViewport): void;

package/dist/cjs/utilities/pointInSurroundingSphereCallback.js

@@ -1,70 +0,0 @@
-"use strict";
-var __importDefault = (this && this.__importDefault) || function (mod) {
-    return (mod && mod.__esModule) ? mod : { "default": mod };
-};
-Object.defineProperty(exports, "__esModule", { value: true });
-const core_1 = require("@cornerstonejs/core");
-const gl_matrix_1 = require("gl-matrix");
-const sphere_1 = require("./math/sphere");
-const pointInShapeCallback_1 = __importDefault(require("./pointInShapeCallback"));
-const boundingBox_1 = require("./boundingBox");
-const { transformWorldToIndex } = core_1.utilities;
-function pointInSurroundingSphereCallback(imageData, circlePoints, callback, viewport) {
-    const { boundsIJK, centerWorld, radiusWorld } = _getBounds(circlePoints, imageData, viewport);
-    const sphereObj = {
-        center: centerWorld,
-        radius: radiusWorld,
-    };
-    (0, pointInShapeCallback_1.default)(imageData, (pointLPS) => (0, sphere_1.pointInSphere)(sphereObj, pointLPS), callback, boundsIJK);
-}
-exports.default = pointInSurroundingSphereCallback;
-function _getBounds(circlePoints, imageData, viewport) {
-    const [bottom, top] = circlePoints;
-    const centerWorld = gl_matrix_1.vec3.fromValues((bottom[0] + top[0]) / 2, (bottom[1] + top[1]) / 2, (bottom[2] + top[2]) / 2);
-    const radiusWorld = gl_matrix_1.vec3.distance(bottom, top) / 2;
-    let boundsIJK;
-    if (!viewport) {
-        const centerIJK = transformWorldToIndex(imageData, centerWorld);
-        const spacings = imageData.getSpacing();
-        const minSpacing = Math.min(...spacings);
-        const maxRadiusIJK = Math.ceil(radiusWorld / minSpacing);
-        boundsIJK = [
-            [centerIJK[0] - maxRadiusIJK, centerIJK[0] + maxRadiusIJK],
-            [centerIJK[1] - maxRadiusIJK, centerIJK[1] + maxRadiusIJK],
-            [centerIJK[2] - maxRadiusIJK, centerIJK[2] + maxRadiusIJK],
-        ];
-        return {
-            boundsIJK,
-            centerWorld: centerWorld,
-            radiusWorld,
-        };
-    }
-    boundsIJK = _computeBoundsIJKWithCamera(imageData, viewport, circlePoints, centerWorld, radiusWorld);
-    return {
-        boundsIJK,
-        centerWorld: centerWorld,
-        radiusWorld,
-    };
-}
-function _computeBoundsIJKWithCamera(imageData, viewport, circlePoints, centerWorld, radiusWorld) {
-    const [bottom, top] = circlePoints;
-    const dimensions = imageData.getDimensions();
-    const camera = viewport.getCamera();
-    const viewUp = gl_matrix_1.vec3.fromValues(camera.viewUp[0], camera.viewUp[1], camera.viewUp[2]);
-    const viewPlaneNormal = gl_matrix_1.vec3.fromValues(camera.viewPlaneNormal[0], camera.viewPlaneNormal[1], camera.viewPlaneNormal[2]);
-    const viewRight = gl_matrix_1.vec3.create();
-    gl_matrix_1.vec3.cross(viewRight, viewUp, viewPlaneNormal);
-    const topLeftWorld = gl_matrix_1.vec3.create();
-    const bottomRightWorld = gl_matrix_1.vec3.create();
-    gl_matrix_1.vec3.scaleAndAdd(topLeftWorld, top, viewPlaneNormal, radiusWorld);
-    gl_matrix_1.vec3.scaleAndAdd(bottomRightWorld, bottom, viewPlaneNormal, -radiusWorld);
-    gl_matrix_1.vec3.scaleAndAdd(topLeftWorld, topLeftWorld, viewRight, -radiusWorld);
-    gl_matrix_1.vec3.scaleAndAdd(bottomRightWorld, bottomRightWorld, viewRight, radiusWorld);
-    const sphereCornersIJK = [
-        transformWorldToIndex(imageData, topLeftWorld),
-        (transformWorldToIndex(imageData, bottomRightWorld)),
-    ];
-    const boundsIJK = (0, boundingBox_1.getBoundingBoxAroundShape)(sphereCornersIJK, dimensions);
-    return boundsIJK;
-}
-//# sourceMappingURL=pointInSurroundingSphereCallback.js.map

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package/dist/cjs/utilities/roundNumber.d.ts

@@ -1,2 +0,0 @@
-declare function roundNumber(value: string | number | (string | number)[], precision?: number): string;
-export default roundNumber;

package/dist/cjs/utilities/roundNumber.js

@@ -1,30 +0,0 @@
-"use strict";
-Object.defineProperty(exports, "__esModule", { value: true });
-function roundNumber(value, precision = 2) {
-    if (Array.isArray(value)) {
-        return value.map((v) => roundNumber(v, precision)).join(', ');
-    }
-    if (value === undefined || value === null || value === '') {
-        return 'NaN';
-    }
-    value = Number(value);
-    if (value < 0.0001) {
-        return `${value}`;
-    }
-    const fixedPrecision = value >= 100
-        ? precision - 2
-        : value >= 10
-            ? precision - 1
-            : value >= 1
-                ? precision
-                : value >= 0.1
-                    ? precision + 1
-                    : value >= 0.01
-                        ? precision + 2
-                        : value >= 0.001
-                            ? precision + 3
-                            : precision + 4;
-    return value.toFixed(fixedPrecision);
-}
-exports.default = roundNumber;
-//# sourceMappingURL=roundNumber.js.map

package/dist/cjs/utilities/roundNumber.js.map

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package/dist/esm/utilities/pointInSurroundingSphereCallback.js

@@ -1,64 +0,0 @@
-import { utilities as csUtils } from '@cornerstonejs/core';
-import { vec3 } from 'gl-matrix';
-import { pointInSphere } from './math/sphere';
-import pointInShapeCallback from './pointInShapeCallback';
-import { getBoundingBoxAroundShape } from './boundingBox';
-const { transformWorldToIndex } = csUtils;
-export default function pointInSurroundingSphereCallback(imageData, circlePoints, callback, viewport) {
-    const { boundsIJK, centerWorld, radiusWorld } = _getBounds(circlePoints, imageData, viewport);
-    const sphereObj = {
-        center: centerWorld,
-        radius: radiusWorld,
-    };
-    pointInShapeCallback(imageData, (pointLPS) => pointInSphere(sphereObj, pointLPS), callback, boundsIJK);
-}
-function _getBounds(circlePoints, imageData, viewport) {
-    const [bottom, top] = circlePoints;
-    const centerWorld = vec3.fromValues((bottom[0] + top[0]) / 2, (bottom[1] + top[1]) / 2, (bottom[2] + top[2]) / 2);
-    const radiusWorld = vec3.distance(bottom, top) / 2;
-    let boundsIJK;
-    if (!viewport) {
-        const centerIJK = transformWorldToIndex(imageData, centerWorld);
-        const spacings = imageData.getSpacing();
-        const minSpacing = Math.min(...spacings);
-        const maxRadiusIJK = Math.ceil(radiusWorld / minSpacing);
-        boundsIJK = [
-            [centerIJK[0] - maxRadiusIJK, centerIJK[0] + maxRadiusIJK],
-            [centerIJK[1] - maxRadiusIJK, centerIJK[1] + maxRadiusIJK],
-            [centerIJK[2] - maxRadiusIJK, centerIJK[2] + maxRadiusIJK],
-        ];
-        return {
-            boundsIJK,
-            centerWorld: centerWorld,
-            radiusWorld,
-        };
-    }
-    boundsIJK = _computeBoundsIJKWithCamera(imageData, viewport, circlePoints, centerWorld, radiusWorld);
-    return {
-        boundsIJK,
-        centerWorld: centerWorld,
-        radiusWorld,
-    };
-}
-function _computeBoundsIJKWithCamera(imageData, viewport, circlePoints, centerWorld, radiusWorld) {
-    const [bottom, top] = circlePoints;
-    const dimensions = imageData.getDimensions();
-    const camera = viewport.getCamera();
-    const viewUp = vec3.fromValues(camera.viewUp[0], camera.viewUp[1], camera.viewUp[2]);
-    const viewPlaneNormal = vec3.fromValues(camera.viewPlaneNormal[0], camera.viewPlaneNormal[1], camera.viewPlaneNormal[2]);
-    const viewRight = vec3.create();
-    vec3.cross(viewRight, viewUp, viewPlaneNormal);
-    const topLeftWorld = vec3.create();
-    const bottomRightWorld = vec3.create();
-    vec3.scaleAndAdd(topLeftWorld, top, viewPlaneNormal, radiusWorld);
-    vec3.scaleAndAdd(bottomRightWorld, bottom, viewPlaneNormal, -radiusWorld);
-    vec3.scaleAndAdd(topLeftWorld, topLeftWorld, viewRight, -radiusWorld);
-    vec3.scaleAndAdd(bottomRightWorld, bottomRightWorld, viewRight, radiusWorld);
-    const sphereCornersIJK = [
-        transformWorldToIndex(imageData, topLeftWorld),
-        (transformWorldToIndex(imageData, bottomRightWorld)),
-    ];
-    const boundsIJK = getBoundingBoxAroundShape(sphereCornersIJK, dimensions);
-    return boundsIJK;
-}
-//# sourceMappingURL=pointInSurroundingSphereCallback.js.map

package/dist/esm/utilities/pointInSurroundingSphereCallback.js.map

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package/dist/esm/utilities/roundNumber.js

@@ -1,28 +0,0 @@
-function roundNumber(value, precision = 2) {
-    if (Array.isArray(value)) {
-        return value.map((v) => roundNumber(v, precision)).join(', ');
-    }
-    if (value === undefined || value === null || value === '') {
-        return 'NaN';
-    }
-    value = Number(value);
-    if (value < 0.0001) {
-        return `${value}`;
-    }
-    const fixedPrecision = value >= 100
-        ? precision - 2
-        : value >= 10
-            ? precision - 1
-            : value >= 1
-                ? precision
-                : value >= 0.1
-                    ? precision + 1
-                    : value >= 0.01
-                        ? precision + 2
-                        : value >= 0.001
-                            ? precision + 3
-                            : precision + 4;
-    return value.toFixed(fixedPrecision);
-}
-export default roundNumber;
-//# sourceMappingURL=roundNumber.js.map

package/dist/esm/utilities/roundNumber.js.map

@@ -1 +0,0 @@
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package/dist/types/utilities/pointInSurroundingSphereCallback.d.ts

@@ -1,5 +0,0 @@
-import type { Types } from '@cornerstonejs/core';
-import type { vtkImageData } from '@kitware/vtk.js/Common/DataModel/ImageData';
-import { PointInShapeCallback } from './pointInShapeCallback';
-export default function pointInSurroundingSphereCallback(imageData: vtkImageData, circlePoints: [Types.Point3, Types.Point3], callback: PointInShapeCallback, viewport?: Types.IVolumeViewport): void;
-//# sourceMappingURL=pointInSurroundingSphereCallback.d.ts.map

package/dist/types/utilities/pointInSurroundingSphereCallback.d.ts.map

@@ -1 +0,0 @@
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package/dist/types/utilities/roundNumber.d.ts

@@ -1,3 +0,0 @@
-declare function roundNumber(value: string | number | (string | number)[], precision?: number): string;
-export default roundNumber;
-//# sourceMappingURL=roundNumber.d.ts.map

package/dist/types/utilities/roundNumber.d.ts.map

@@ -1 +0,0 @@
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package/src/utilities/roundNumber.ts

@@ -1,44 +0,0 @@
-/**
- * Truncates decimal points to that there is at least 1+precision significant
- * digits.
- *
- * For example, with the default precision 2 (3 significant digits)
- * * Values larger than 100 show no information after the decimal point
- * * Values between 10 and 99 show 1 decimal point
- * * Values between 1 and 9 show 2 decimal points
- *
- * @param value - to return a fixed measurement value from
- * @param precision - defining how many digits after 1..9 are desired
- */
-function roundNumber(
-  value: string | number | (string | number)[],
-  precision = 2
-): string {
-  if (Array.isArray(value)) {
-    return value.map((v) => roundNumber(v, precision)).join(', ');
-  }
-  if (value === undefined || value === null || value === '') {
-    return 'NaN';
-  }
-  value = Number(value);
-  if (value < 0.0001) {
-    return `${value}`;
-  }
-  const fixedPrecision =
-    value >= 100
-      ? precision - 2
-      : value >= 10
-      ? precision - 1
-      : value >= 1
-      ? precision
-      : value >= 0.1
-      ? precision + 1
-      : value >= 0.01
-      ? precision + 2
-      : value >= 0.001
-      ? precision + 3
-      : precision + 4;
-  return value.toFixed(fixedPrecision);
-}
-
-export default roundNumber;