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import {
triggerWorkerProgress,
getSegmentationDataForWorker,
prepareVolumeStrategyDataForWorker,
prepareStackDataForWorker,
getImageReferenceInfo,
} from './utilsForWorker';
import { getPixelValueUnitsImageId } from '../getPixelValueUnits';
import VolumetricCalculator from './VolumetricCalculator';
import { WorkerTypes } from '../../enums';
import type { NamedStatistics } from '../../types';
import { registerComputeWorker } from '../registerComputeWorker';
// Radius for a volume of 10, eg 1 cm^3 = 1000 mm^3
const radiusForVol1 = Math.pow((3 * 1000) / (4 * Math.PI), 1 / 3);
/**
* Get statistics for a segmentation.
*
* @param segmentationId - The segmentation ID.
* @param segmentIndices - The segment indices to get statistics for.
* - If a single number is provided, it retrieves statistics for that specific segment.
* - If an array is provided:
* - In `collective` mode (default), it retrieves statistics for all voxels that belong to any of the specified segment indices (OR operation).
* - In `individual` mode, it retrieves statistics separately for each segment index.
* @param mode - The computation mode (optional, defaults to `'collective'`).
* - `'collective'` (default): Treats the segment indices as a group, computing combined statistics.
* - `'individual'`: Treats each segment index separately, computing statistics for each one independently.
*
* @returns The statistics, either as a single aggregated result (if `collective` mode)
* or an object with segment indices as keys and statistics as values (if `individual` mode).
*/
async function getStatistics({
segmentationId,
segmentIndices,
mode = 'collective',
}: {
segmentationId: string;
segmentIndices: number[] | number;
mode?: 'collective' | 'individual';
}): Promise<NamedStatistics | { [segmentIndex: number]: NamedStatistics }> {
registerComputeWorker();
triggerWorkerProgress(WorkerTypes.COMPUTE_STATISTICS, 0);
const segData = getSegmentationDataForWorker(segmentationId, segmentIndices);
Iif (!segData) {
return;
}
const {
operationData,
segVolumeId,
segImageIds,
reconstructableVolume,
indices,
} = segData;
// Get reference image ID and modality unit options
const { refImageId, modalityUnitOptions } = getImageReferenceInfo(
segVolumeId,
segImageIds
);
const unit = getPixelValueUnitsImageId(refImageId, modalityUnitOptions);
const stats = reconstructableVolume
? await calculateVolumeStatistics({
operationData,
indices,
unit,
mode,
})
: await calculateStackStatistics({
segImageIds,
indices,
unit,
mode,
});
return stats;
}
/**
* Calculate statistics for a reconstructable volume
*/
async function calculateVolumeStatistics({
operationData,
indices,
unit,
mode,
}) {
// Get the strategy data
const strategyData = prepareVolumeStrategyDataForWorker(operationData);
const {
segmentationVoxelManager,
imageVoxelManager,
segmentationImageData,
imageData,
} = strategyData;
Iif (!segmentationVoxelManager || !segmentationImageData) {
return;
}
const spacing = segmentationImageData.getSpacing();
const { boundsIJK: boundsOrig } = segmentationVoxelManager;
Iif (!boundsOrig) {
return VolumetricCalculator.getStatistics({ spacing });
}
const segmentationScalarData =
segmentationVoxelManager.getCompleteScalarDataArray();
const segmentationInfo = {
scalarData: segmentationScalarData,
dimensions: segmentationImageData.getDimensions(),
spacing: segmentationImageData.getSpacing(),
origin: segmentationImageData.getOrigin(),
direction: segmentationImageData.getDirection(),
};
const imageInfo = {
scalarData: imageVoxelManager.getCompleteScalarDataArray(),
dimensions: imageData.getDimensions(),
spacing: imageData.getSpacing(),
origin: imageData.getOrigin(),
direction: imageData.getDirection(),
};
Iif (!imageInfo.scalarData?.length) {
return;
}
const stats = await getWebWorkerManager().executeTask(
'compute',
'calculateSegmentsStatisticsVolume',
{
segmentationInfo,
imageInfo,
indices,
unit,
mode,
}
);
triggerWorkerProgress(WorkerTypes.COMPUTE_STATISTICS, 100);
Iif (mode === 'collective') {
return processSegmentationStatistics({
stats,
unit,
spacing,
segmentationImageData,
imageVoxelManager,
});
} else {
const finalStats = {};
Object.entries(stats).forEach(([segmentIndex, stat]) => {
finalStats[segmentIndex] = processSegmentationStatistics({
stats: stat,
unit,
spacing,
segmentationImageData,
imageVoxelManager,
});
});
return finalStats;
}
}
const updateStatsArray = (stats, newStat) => {
Iif (!stats.array) {
return;
}
const existingIndex = stats.array.findIndex(
(stat) => stat.name === newStat.name
);
if (existingIndex !== -1) {
stats.array[existingIndex] = newStat;
} else {
stats.array.push(newStat);
}
};
const processSegmentationStatistics = ({
stats,
unit,
spacing,
segmentationImageData,
imageVoxelManager,
}) => {
stats.mean.unit = unit;
stats.max.unit = unit;
stats.min.unit = unit;
Iif (unit !== 'SUV') {
return stats;
}
// Get the IJK rounded radius, not using less than 1, and using the
// radius for the spacing given the desired mm spacing of 10
// Add 10% to the radius to account for whole pixel in/out issues
const radiusIJK = spacing.map((s) =>
Math.max(1, Math.round((1.1 * radiusForVol1) / s))
);
for (const testMax of stats.maxIJKs) {
const testStats = getSphereStats(
testMax,
radiusIJK,
segmentationImageData,
imageVoxelManager,
spacing
);
Iif (!testStats) {
continue;
}
const { mean } = testStats;
if (!stats.peakValue || stats.peakValue.value <= mean.value) {
stats.peakValue = {
name: 'peakValue',
label: 'Peak Value',
value: mean.value,
unit,
};
// Store the LPS point coordinates for peak SUV
stats.peakPoint = {
name: 'peakLPS',
label: 'Peak SUV Point',
value: testMax.pointLPS ? [...testMax.pointLPS] : null,
unit: null,
};
updateStatsArray(stats, stats.peakValue);
updateStatsArray(stats, stats.peakPoint);
}
}
Eif (stats.volume && stats.mean) {
const mtv = stats.volume.value;
const suvMean = stats.mean.value;
stats.lesionGlycolysis = {
name: 'lesionGlycolysis',
label: 'Lesion Glycolysis',
value: mtv * suvMean,
unit: `${stats.volume.unit}ยท${unit}`,
};
updateStatsArray(stats, stats.lesionGlycolysis);
}
return stats;
};
/**
* Calculate statistics for a stack of images
*/
async function calculateStackStatistics({ segImageIds, indices, unit, mode }) {
triggerWorkerProgress(WorkerTypes.COMPUTE_STATISTICS, 0);
// Get segmentation and image info for each image in the stack
const { segmentationInfo, imageInfo } =
prepareStackDataForWorker(segImageIds);
const stats = await getWebWorkerManager().executeTask(
'compute',
'calculateSegmentsStatisticsStack',
{
segmentationInfo,
imageInfo,
indices,
mode,
}
);
triggerWorkerProgress(WorkerTypes.COMPUTE_STATISTICS, 100);
const spacing = segmentationInfo[0].spacing;
const segmentationImageData = segmentationInfo[0];
const imageVoxelManager = imageInfo[0].voxelManager;
if (mode === 'collective') {
return processSegmentationStatistics({
stats,
unit,
spacing,
segmentationImageData,
imageVoxelManager,
});
} else {
const finalStats = {};
Object.entries(stats).forEach(([segmentIndex, stat]) => {
finalStats[segmentIndex] = processSegmentationStatistics({
stats: stat,
unit,
spacing,
segmentationImageData,
imageVoxelManager,
});
});
return finalStats;
}
}
/**
* Gets the statistics for a 1 cm^3 sphere centered on radiusIJK.
* Assumes the segmentation and pixel data are co-incident.
*/
function getSphereStats(testMax, radiusIJK, segData, imageVoxels, spacing) {
const { pointIJK: centerIJK, pointLPS: centerLPS } = testMax;
Iif (!centerIJK) {
return;
}
const boundsIJK = centerIJK.map((ijk, idx) => [
ijk - radiusIJK[idx],
ijk + radiusIJK[idx],
]);
const testFunction = (_pointLPS, pointIJK) => {
const i = (pointIJK[0] - centerIJK[0]) / radiusIJK[0];
const j = (pointIJK[1] - centerIJK[1]) / radiusIJK[1];
const k = (pointIJK[2] - centerIJK[2]) / radiusIJK[2];
const radius = i * i + j * j + k * k;
return radius <= 1;
};
const statsFunction = ({ pointIJK, pointLPS }) => {
const value = imageVoxels.getAtIJKPoint(pointIJK);
Iif (value === undefined) {
return;
}
VolumetricCalculator.statsCallback({ value, pointLPS, pointIJK });
};
VolumetricCalculator.statsInit({ storePointData: false });
utilities.pointInShapeCallback(segData, {
pointInShapeFn: testFunction,
callback: statsFunction,
boundsIJK,
});
return VolumetricCalculator.getStatistics({ spacing });
}
export default getStatistics;
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