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import * as cs from '@cornerstonejs/core';
import * as csTools from '@cornerstonejs/tools';
const CHART_MODALITY = 'CHT';
const SEG_CHART_INSTANCE_UID = utils.guid();
// Private SOPClassUid for chart data
const ChartDataSOPClassUid = '1.9.451.13215.7.3.2.7.6.1';
const { utilities: csToolsUtils } = csTools;
function _getDateTimeStr() {
const now = new Date();
const date =
now.getFullYear() + ('0' + now.getUTCMonth()).slice(-2) + ('0' + now.getUTCDate()).slice(-2);
const time =
('0' + now.getUTCHours()).slice(-2) +
('0' + now.getUTCMinutes()).slice(-2) +
('0' + now.getUTCSeconds()).slice(-2);
return { date, time };
}
function _getTimePointsDataByTagName(volume, timePointsTag) {
const uniqueTimePoints = volume.imageIds.reduce((timePoints, imageId) => {
const instance = DicomMetadataStore.getInstanceByImageId(imageId);
const timePointValue = instance[timePointsTag];
if (timePointValue !== undefined) {
timePoints.add(timePointValue);
}
return timePoints;
}, new Set());
return Array.from(uniqueTimePoints).sort((a: number, b: number) => a - b);
}
function _convertTimePointsUnit(timePoints, timePointsUnit) {
const validUnits = ['ms', 's', 'm', 'h'];
const divisors = [1000, 60, 60];
const currentUnitIndex = validUnits.indexOf(timePointsUnit);
let divisor = 1;
if (currentUnitIndex !== -1) {
for (let i = currentUnitIndex; i < validUnits.length - 1; i++) {
const newDivisor = divisor * divisors[i];
const greaterThanDivisorCount = timePoints.filter(timePoint => timePoint > newDivisor).length;
// Change the scale only if more than 50% of the time points are
// greater than the new divisor.
if (greaterThanDivisorCount <= timePoints.length / 2) {
break;
}
divisor = newDivisor;
timePointsUnit = validUnits[i + 1];
}
if (divisor > 1) {
timePoints = timePoints.map(timePoint => timePoint / divisor);
}
}
return { timePoints, timePointsUnit };
}
// It currently supports only one tag but a few other will be added soon
// Supported 4D Tags
// (0018,1060) Trigger Time [NOK]
// (0018,0081) Echo Time [NOK]
// (0018,0086) Echo Number [NOK]
// (0020,0100) Temporal Position Identifier [NOK]
// (0054,1300) FrameReferenceTime [OK]
function _getTimePointsData(volume) {
const timePointsTags = {
FrameReferenceTime: {
unit: 'ms',
},
};
const timePointsTagNames = Object.keys(timePointsTags);
let timePoints;
let timePointsUnit;
for (let i = 0; i < timePointsTagNames.length; i++) {
const tagName = timePointsTagNames[i];
const curTimePoints = _getTimePointsDataByTagName(volume, tagName);
if (curTimePoints.length) {
timePoints = curTimePoints;
timePointsUnit = timePointsTags[tagName].unit;
break;
}
}
if (!timePoints.length) {
const concatTagNames = timePointsTagNames.join(', ');
throw new Error(`Could not extract time points data for the following tags: ${concatTagNames}`);
}
const convertedTimePoints = _convertTimePointsUnit(timePoints, timePointsUnit);
timePoints = convertedTimePoints.timePoints;
timePointsUnit = convertedTimePoints.timePointsUnit;
return { timePoints, timePointsUnit };
}
function _getSegmentationData(
segmentation,
volumesTimePointsCache,
{ servicesManager }: { servicesManager: AppTypes.ServicesManager }
) {
const { displaySetService, segmentationService, viewportGridService } = servicesManager.services;
const displaySets = displaySetService.getActiveDisplaySets();
const dynamic4DDisplaySet = displaySets.find(displaySet => {
const anInstance = displaySet.instances?.[0];
if (anInstance) {
return (
anInstance.FrameReferenceTime !== undefined || anInstance.NumberOfTimeSlices !== undefined
);
}
return false;
});
// const referencedDynamicVolume = cs.cache.getVolume(dynamic4DDisplaySet.displaySetInstanceUID);
let volumeCacheKey: string | undefined;
const volumeId = dynamic4DDisplaySet.displaySetInstanceUID;
for (const [key] of cs.cache._volumeCache) {
if (key.includes(volumeId)) {
volumeCacheKey = key;
break;
}
}
let referencedDynamicVolume;
if (volumeCacheKey) {
referencedDynamicVolume = cs.cache.getVolume(volumeCacheKey);
}
const { StudyInstanceUID, StudyDescription } = DicomMetadataStore.getInstanceByImageId(
referencedDynamicVolume.imageIds[0]
);
const segmentationVolume = segmentationService.getLabelmapVolume(segmentation.segmentationId);
const maskVolumeId = segmentationVolume?.volumeId;
const [timeData, _] = csToolsUtils.dynamicVolume.getDataInTime(referencedDynamicVolume, {
maskVolumeId,
}) as number[][];
const pixelCount = timeData.length;
if (pixelCount === 0) {
return [];
}
// Todo: this is useless we should be able to grab color with just segRepUID and segmentIndex
// const color = csTools.segmentation.config.color.getSegmentIndexColor(
// segmentationRepresentationUID,
// 1 // segmentIndex
// );
const viewportId = viewportGridService.getActiveViewportId();
const color = segmentationService.getSegmentColor(viewportId, segmentation.segmentationId, 1);
const hexColor = cs.utilities.color.rgbToHex(color[0], color[1], color[2]);
let timePointsData = volumesTimePointsCache.get(referencedDynamicVolume);
if (!timePointsData) {
timePointsData = _getTimePointsData(referencedDynamicVolume);
volumesTimePointsCache.set(referencedDynamicVolume, timePointsData);
}
const { timePoints, timePointsUnit } = timePointsData;
if (timePoints.length !== timeData[0].length) {
throw new Error('Invalid number of time points returned');
}
const timepointsCount = timePoints.length;
const chartSeriesData = new Array(timepointsCount);
for (let i = 0; i < timepointsCount; i++) {
const average = timeData.reduce((acc, cur) => acc + cur[i] / pixelCount, 0);
chartSeriesData[i] = [timePoints[i], average];
}
return {
StudyInstanceUID,
StudyDescription,
chartData: {
series: {
label: segmentation.label,
points: chartSeriesData,
color: hexColor,
},
axis: {
x: {
label: `Time (${timePointsUnit})`,
},
y: {
label: `Vl (Bq/ml)`,
},
},
},
};
}
function _getInstanceFromSegmentations(segmentations, { servicesManager }) {
if (!segmentations.length) {
return;
}
const volumesTimePointsCache = new WeakMap();
const segmentationsData = segmentations.map(segmentation =>
_getSegmentationData(segmentation, volumesTimePointsCache, { servicesManager })
);
const { date: seriesDate, time: seriesTime } = _getDateTimeStr();
const series = segmentationsData.reduce((allSeries, curSegData) => {
return [...allSeries, curSegData.chartData.series];
}, []);
const instance = {
SOPClassUID: ChartDataSOPClassUid,
Modality: CHART_MODALITY,
SOPInstanceUID: utils.guid(),
SeriesDate: seriesDate,
SeriesTime: seriesTime,
SeriesInstanceUID: SEG_CHART_INSTANCE_UID,
StudyInstanceUID: segmentationsData[0].StudyInstanceUID,
StudyDescription: segmentationsData[0].StudyDescription,
SeriesNumber: 100,
SeriesDescription: 'Segmentation chart series data',
chartData: {
series,
axis: { ...segmentationsData[0].chartData.axis },
},
};
const seriesMetadata = {
StudyInstanceUID: instance.StudyInstanceUID,
StudyDescription: instance.StudyDescription,
SeriesInstanceUID: instance.SeriesInstanceUID,
SeriesDescription: instance.SeriesDescription,
SeriesNumber: instance.SeriesNumber,
SeriesTime: instance.SeriesTime,
SOPClassUID: instance.SOPClassUID,
Modality: instance.Modality,
};
return { seriesMetadata, instance };
}
function updateSegmentationsChartDisplaySet({ servicesManager }: withAppTypes): void {
const { segmentationService } = servicesManager.services;
const segmentations = segmentationService.getSegmentations();
const { seriesMetadata, instance } =
_getInstanceFromSegmentations(segmentations, { servicesManager }) ?? {};
if (seriesMetadata && instance) {
// An event is triggered after adding the instance and the displaySet is created
DicomMetadataStore.addSeriesMetadata([seriesMetadata], true);
DicomMetadataStore.addInstances([instance], true);
}
}
export { updateSegmentationsChartDisplaySet as default };
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