copper3d 1.15.0

package/dist/Loader/convet.js

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+export function resize3dnrrd(pixels, dimOrigin, dimTarget) {
+    // Original dimensions
+    const width = dimOrigin[0];
+    const height = dimOrigin[1];
+    const depth = dimOrigin[2];
+    // New dimensions
+    const newWidth = dimTarget[0];
+    const newHeight = dimTarget[1];
+    const newDepth = dimTarget[2];
+    // Resampling factors
+    const scaleX = newWidth / width;
+    const scaleY = newHeight / height;
+    const scaleZ = newDepth / depth;
+    // Create new pixel array
+    const newPixels = new Float32Array(newWidth * newHeight * newDepth);
+    // Interpolate and resample pixel data
+    for (let z = 0; z < newDepth; z++) {
+        for (let y = 0; y < newHeight; y++) {
+            for (let x = 0; x < newWidth; x++) {
+                const srcX = x / scaleX;
+                const srcY = y / scaleY;
+                const srcZ = z / scaleZ;
+                const srcIdx = Math.floor(srcZ) * width * height +
+                    Math.floor(srcY) * width +
+                    Math.floor(srcX);
+                const x2 = Math.ceil(srcX);
+                const y2 = Math.ceil(srcY);
+                const z2 = Math.ceil(srcZ);
+                const muX = srcX - Math.floor(srcX);
+                const muY = srcY - Math.floor(srcY);
+                const muZ = srcZ - Math.floor(srcZ);
+                const srcVal000 = pixels[srcIdx];
+                const srcVal001 = z2 >= depth || y2 >= height || x2 >= width
+                    ? 0
+                    : pixels[Math.floor(srcZ) * width * height + y2 * width + x2];
+                const srcVal010 = z2 >= depth || y2 >= height
+                    ? 0
+                    : pixels[Math.floor(srcZ) * width * height +
+                        y2 * width +
+                        Math.floor(srcX)];
+                const srcVal011 = z2 >= depth || y2 >= height || x2 >= width
+                    ? 0
+                    : pixels[Math.floor(srcZ) * width * height + y2 * width + x2];
+                const srcVal100 = z2 >= depth || x2 >= width
+                    ? 0
+                    : pixels[Math.floor(srcZ) * width * height +
+                        Math.floor(srcY) * width +
+                        x2];
+                const srcVal101 = z2 >= depth || x2 >= width
+                    ? 0
+                    : pixels[Math.floor(srcZ) * width * height +
+                        Math.floor(srcY) * width +
+                        Math.ceil(srcX)];
+                const srcVal110 = z2 >= depth
+                    ? 0
+                    : pixels[Math.floor(srcZ) * width * height +
+                        Math.floor(srcY) * width +
+                        Math.floor(srcX)];
+                const srcVal111 = z2 >= depth || x2 >= width
+                    ? 0
+                    : pixels[Math.floor(srcZ) * width * height +
+                        Math.floor(srcY) * width +
+                        x2];
+                const val = (1 - muX) * (1 - muY) * (1 - muZ) * srcVal000 +
+                    (1 - muX) * (1 - muY) * muZ * srcVal001 +
+                    (1 - muX) * muY * (1 - muZ) * srcVal010 +
+                    (1 - muX) * muY * muZ * srcVal011 +
+                    muX * (1 - muY) * (1 - muZ) * srcVal100 +
+                    muX * (1 - muY) * muZ * srcVal101 +
+                    muX * muY * (1 - muZ) * srcVal110 +
+                    muX * muY * muZ * srcVal111;
+                const dstIdx = z * newWidth * newHeight + y * newWidth + x;
+                newPixels[dstIdx] = val;
+            }
+        }
+    }
+    // Use the newPixels array for your calculations
+    return newPixels;
+}
+//# sourceMappingURL=convet.js.map

package/dist/Loader/convet.js.map

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package/dist/Loader/copperDicomLoader.d.ts

@@ -0,0 +1,7 @@
+import { copperVolumeType } from "../types/types";
+export declare function copperDicomLoader(url: string, callback?: (copperVolume: copperVolumeType) => void): void;
+export declare function getLut(data: Uint16Array, windowWidth: number, windowCenter: number, invert: boolean, voiLUT: any): {
+    minPixelValue: number;
+    maxPixelValue: number;
+    lutArray: Uint8ClampedArray;
+};

package/dist/Loader/copperDicomLoader.js

@@ -0,0 +1,113 @@
+import * as THREE from "three";
+import getVOILUT from "../Utils/getVOILUT";
+import dicomParser from "dicom-parser";
+// import { TAG_DICT } from "../lib/dicom_pharser_dictionary";
+const loader = new THREE.FileLoader().setResponseType("arraybuffer");
+export function copperDicomLoader(url, callback) {
+    loader.load(url, (arrayBuffer) => {
+        var dicomFileAsBuffer = new Uint8Array(arrayBuffer);
+        const dataSet = dicomParser.parseDicom(dicomFileAsBuffer);
+        // console.log(dataSet1);
+        // const dataSet = dicomParser.parseDicom(dicomFileAsBuffer, {
+        //   vrCallback(tag) {
+        //     const formatted = `(${tag.substring(1, 5)},${tag.substring(5, 9)})`;
+        //     // console.log(!!TAG_DICT[formatted] ? TAG_DICT[formatted].vr : undefined);
+        //     return !!TAG_DICT[formatted] ? TAG_DICT[formatted].vr : undefined;
+        //   },
+        // });
+        let tags = null;
+        let w;
+        let h;
+        let invert;
+        let windowCenter;
+        let windowWidth;
+        let order = 0;
+        try {
+            tags = dicomParser.explicitDataSetToJS(dataSet);
+            if (dataSet.elements.x00181060) {
+                order = parseInt(tags["x00181060"]);
+            }
+            else if (dataSet.elements.x00201041) {
+                order = parseInt(tags["x00201041"]);
+            }
+            w = parseInt(tags["x00280011"]); //width
+            h = parseInt(tags["x00280010"]); //height
+            invert = tags["x00280004"] === "MONOCHROME1" ? true : false; //is invert?
+            windowCenter = parseInt(tags["x00281050"]); //window center
+            windowWidth = parseInt(tags["x00281051"]); //window width
+        }
+        catch (_a) {
+            w = dataSet.uint16("x00280011");
+            h = dataSet.uint16("x00280010");
+            invert = dataSet.string("x00280004") === "MONOCHROME1" ? true : false;
+            windowCenter = parseInt(dataSet.string("x00281050"));
+            windowWidth = parseInt(dataSet.string("x00281051"));
+            if (dataSet.elements.x00181060) {
+                order = parseInt(dataSet.string("x00181060"));
+            }
+            else if (dataSet.elements.x00201041) {
+                order = parseInt(dataSet.string("x00201041"));
+            }
+        }
+        if (windowCenter == 0 || windowWidth == 0) {
+            windowCenter = 226;
+            windowWidth = 537;
+        }
+        let pixelData = dataSet.elements.x7fe00010;
+        let uint16 = convertImplicitElement(pixelData, dicomFileAsBuffer);
+        let voiLUT;
+        let lut = getLut(uint16, windowWidth, windowCenter, invert, voiLUT);
+        let uint8 = new Uint8ClampedArray(uint16.length);
+        for (let i = 0, len = uint16.length; i < len; i++) {
+            uint8[i] = lut.lutArray[uint16[i]];
+        }
+        const copperVolume = {
+            tags,
+            width: w,
+            height: h,
+            windowCenter,
+            windowWidth,
+            invert,
+            uint16,
+            uint8,
+            order,
+        };
+        callback && callback(copperVolume);
+    });
+}
+function convertImplicitElement(elementData, dicomFileAsBuffer) {
+    let w1Buffer = dicomParser.sharedCopy(dicomFileAsBuffer, elementData.dataOffset, elementData.length);
+    let unit16 = new Uint16Array(w1Buffer.buffer, w1Buffer.byteOffset, w1Buffer.byteLength / Uint16Array.BYTES_PER_ELEMENT);
+    return unit16;
+}
+export function getLut(data, windowWidth, windowCenter, invert, voiLUT) {
+    let minPixelValue = 0;
+    let maxPixelValue = 0;
+    for (let i = 0, len = data.length; i < len; i++) {
+        if (minPixelValue > data[i]) {
+            minPixelValue = data[i];
+        }
+        if (maxPixelValue < data[i]) {
+            maxPixelValue = data[i];
+        }
+    }
+    let offset = Math.min(minPixelValue, 0);
+    let lutArray = new Uint8ClampedArray(maxPixelValue - offset + 1);
+    const vlutfn = getVOILUT(windowWidth, windowCenter, voiLUT, true);
+    if (invert === true) {
+        for (let storedValue = minPixelValue; storedValue <= maxPixelValue; storedValue++) {
+            lutArray[storedValue + -offset] = 255 - vlutfn(storedValue);
+        }
+    }
+    else {
+        for (let storedValue = minPixelValue; storedValue <= maxPixelValue; storedValue++) {
+            lutArray[storedValue + -offset] = vlutfn(storedValue);
+        }
+    }
+    return {
+        minPixelValue: minPixelValue,
+        maxPixelValue: maxPixelValue,
+        lutArray: lutArray,
+    };
+}
+//# sourceMappingURL=copperDicomLoader.js.map

package/dist/Loader/copperDicomLoader.js.map

@@ -0,0 +1 @@
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package/dist/Loader/copperGltfLoader.d.ts

@@ -0,0 +1,3 @@
+import * as THREE from "three";
+import { GLTFLoader } from "three/examples/jsm/loaders/GLTFLoader";
+export declare function copperGltfLoader(renderer: THREE.WebGLRenderer): GLTFLoader;

package/dist/Loader/copperGltfLoader.js

@@ -0,0 +1,16 @@
+import * as THREE from "three";
+import { GLTFLoader } from "three/examples/jsm/loaders/GLTFLoader";
+import { KTX2Loader } from "three/examples/jsm/loaders/KTX2Loader.js";
+import { DRACOLoader } from "three/examples/jsm/loaders/DRACOLoader.js";
+const THREE_PATH = `https://unpkg.com/three@0.${THREE.REVISION}.x`;
+const MANAGER = new THREE.LoadingManager();
+const DRACO_LOADER = new DRACOLoader(MANAGER).setDecoderPath(`${THREE_PATH}/examples/js/libs/draco/gltf/`);
+const KTX2_LOADER = new KTX2Loader(MANAGER).setTranscoderPath(`${THREE_PATH}/examples/js/libs/basis`);
+export function copperGltfLoader(renderer) {
+    const loader = new GLTFLoader(MANAGER)
+        .setCrossOrigin("anonymous")
+        .setDRACOLoader(DRACO_LOADER)
+        .setKTX2Loader(KTX2_LOADER.detectSupport(renderer));
+    return loader;
+}
+//# sourceMappingURL=copperGltfLoader.js.map

package/dist/Loader/copperGltfLoader.js.map

@@ -0,0 +1 @@
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package/dist/Loader/copperNrrdLoader.d.ts

@@ -0,0 +1,13 @@
+import * as THREE from "three";
+import copperScene from "../Scene/copperScene";
+import { GUI } from "dat.gui";
+import { nrrdMeshesType, nrrdSliceType, loadingBarType } from "../types/types";
+import { Copper3dTrackballControls } from "../Controls/Copper3dTrackballControls";
+export interface optsType {
+    openGui: boolean;
+    container?: HTMLDivElement;
+}
+export declare function copperNrrdLoader(url: string, loadingBar: loadingBarType, segmentation: boolean, callback?: (volume: any, nrrdMeshes: nrrdMeshesType, nrrdSlices: nrrdSliceType, gui?: GUI) => void, opts?: optsType): void;
+export declare function copperNrrdTexture3dLoader(url: string, scene: THREE.Scene, container: HTMLDivElement, callback?: (volume: any, gui?: GUI) => void): void;
+export declare function getWholeSlices(nrrdSlices: nrrdSliceType, scene: THREE.Scene, gui: GUI, controls: Copper3dTrackballControls): void;
+export declare function addBoxHelper(scene: copperScene, volume: any, boxCube?: THREE.Object3D<THREE.Event>): void;