ohif-viewer/extensions/cornerstone/src/index.tsx
Bill Wallace dbb8b1526e
feat: Add support for labelmap seg images in any supported tsuid (also for compressed bitmap) (#5806)
* feat: Update to use pnpm (#6031) [simulated squash-merge]

* feat: load DICOM SEG images via imageLoader

* feat: load DICOM SEG images via imageLoader

* PR review fixes

* Test fragment of compressed multiframes

* fix: Removed dependencies incorrectly

* Update frame as a targetted change to avoid stripping remaining params

* lock

* Update test to agree with the missing representation branch

* test(contour): contour color change coverage (#6042)

* test(contour): contour interactions delete segment (#6069)

---------

Co-authored-by: Bill Wallace <wayfarer3130@gmail.com>

* chore(version): Update package versions to 3.13.0-beta.98 [skip ci]

* feat(testing): OHIF Test Agent Skills (#5993)

* chore(version): Update package versions to 3.13.0-beta.99 [skip ci]

* test(contour): Add the ContourSegmentToggleLock.spec.ts test file to test contour locking (#6072)

* chore(version): Update package versions to 3.13.0-beta.100 [skip ci]

* chore(testing): Flock lock for playwright tests; Pin node version for OHIF; add more workers (#6099)

* update Cypress apt deps for Ubuntu Noble (drop libgconf-2-4, libasound2→libasound2t64)

* chore(version): Update package versions to 3.13.0-beta.101 [skip ci]

* Debug fixes

* perf(seg): pass explicit frame decode concurrency (16) to SEG loader

Pass an explicit concurrency value (SEG_FRAME_DECODE_CONCURRENCY = 16) into
createFromDicomSegImageId rather than relying on the adapter default, so the
SEG frame fetch/decode parallelism is set at the call site and is ready to
become configurable.

Co-Authored-By: Claude Opus 4.8 (1M context) <noreply@anthropic.com>

* docs(behaviours): add behaviours section + multiframe Part 10 prefetch proposal

Start a "Behaviours" docs section for documenting how the system and UI behave
end-to-end (observed behaviours, design proposals, and failure modes), with an
index README and a Docusaurus category.

First entry is the proposal for loading a multiframe SEG as a single Part 10
instance: prefetch the whole instance (gated by loadMultiframeAsPart10RaceTimeMs),
parse it with dcmjs (handling multipart/related vs raw DICOM), and register the
per-frame compressed pixels into the Cornerstone3D core image cache (the single
uniform frame registry) so the per-frame load path is served locally while the
standard decode path is unchanged. Best-effort: falls back to per-frame fetches
on any failure.

Co-Authored-By: Claude Opus 4.8 (1M context) <noreply@anthropic.com>

* Pre-cache the image data using a full part10 file for performance

* Add customizations to specify type of segmentation save

* Add clearcache of the cacheData

* Bump @cornerstonejs/* pins 5.1.3 -> 5.4.10 to match libs/@cornerstonejs base

libs/@cornerstonejs (fix/use-imageLoader-for-seg) is based on the released
cs3d 5.4.10 (merge-base with origin/main is the 5.4.10 version bump), so pin
OHIF to that release. The local branch changes still reach the app via the
cs3d:link symlinks; these pins keep the lockfile/npm fallback aligned.

Co-Authored-By: Claude Fable 5 <noreply@anthropic.com>

* Fix seg OOM

* fix: file meta garbage element, bogus NumberOfFrames, unguarded source-map-loader

- dicomWriter: drop the naturalized meta.TransferSyntaxUID assignment that
  dcmjs wrote as a garbage (0000,0000) element into every saved file's meta
  group (download / clipboard / local wadouri blob / local store); keep the
  hex 00020010 assignment, which is required for string-form _meta fallbacks.
- registerNaturalizedDatasetForLocalWadouri: keep the computed frame count
  local so single-frame IODs (SR, RTSTRUCT) no longer gain a bogus
  NumberOfFrames element in their serialized form.
- rsbuild.config: resolve source-map-loader opportunistically (it is not a
  project dependency; the rule only serves the gitignored cs3d-link
  workflow) so fresh clones no longer crash at config load.
- Regression tests for both writer fixes (mutation-checked).

Co-Authored-By: Claude Fable 5 <noreply@anthropic.com>

* PR review comment fixes

* Update versions

---------

Co-authored-by: Claude Opus 4.8 (1M context) <noreply@anthropic.com>
Co-authored-by: diattamo <mmddiatta@gmail.com>
Co-authored-by: ohif-bot <danny.ri.brown+ohif-bot@gmail.com>
Co-authored-by: Joe Boccanfuso <109477394+jbocce@users.noreply.github.com>
2026-07-09 20:54:23 -04:00

312 lines
11 KiB
TypeScript

import React from 'react';
import * as cornerstone from '@cornerstonejs/core';
import * as cornerstoneTools from '@cornerstonejs/tools';
import {
Enums as cs3DEnums,
imageLoadPoolManager,
imageRetrievalPoolManager,
} from '@cornerstonejs/core';
import { Enums as cs3DToolsEnums } from '@cornerstonejs/tools';
import { utilities as csMetadataUtilities } from '@cornerstonejs/metadata';
import { Types } from '@ohif/core';
import Enums from './enums';
import init from './init';
import getCustomizationModule from './getCustomizationModule';
import getCommandsModule from './commandsModule';
import getHangingProtocolModule from './getHangingProtocolModule';
import getToolbarModule from './getToolbarModule';
import ToolGroupService from './services/ToolGroupService';
import SyncGroupService from './services/SyncGroupService';
import SegmentationService from './services/SegmentationService';
import CornerstoneCacheService from './services/CornerstoneCacheService';
import CornerstoneViewportService from './services/ViewportService/CornerstoneViewportService';
import ColorbarService from './services/ColorbarService';
import ViewedDataService from './services/ViewedDataService';
import * as CornerstoneExtensionTypes from './types';
import { toolNames } from './initCornerstoneTools';
import { getEnabledElement, reset as enabledElementReset, setEnabledElement } from './state';
import dicomLoaderService from './utils/dicomLoaderService';
import getActiveViewportEnabledElement from './utils/getActiveViewportEnabledElement';
import { id } from './id';
import { measurementMappingUtils } from './utils/measurementServiceMappings';
import PlanarFreehandROI from './utils/measurementServiceMappings/PlanarFreehandROI';
import RectangleROI from './utils/measurementServiceMappings/RectangleROI';
import type { PublicViewportOptions } from './services/ViewportService/Viewport';
import ImageOverlayViewerTool from './tools/ImageOverlayViewerTool';
import getSOPInstanceAttributes from './utils/measurementServiceMappings/utils/getSOPInstanceAttributes';
import { findNearbyToolData } from './utils/findNearbyToolData';
import { createFrameViewSynchronizer } from './synchronizers/frameViewSynchronizer';
import { getSopClassHandlerModule } from './getSopClassHandlerModule';
import { getDynamicVolumeInfo } from '@cornerstonejs/core/utilities';
import {
useLutPresentationStore,
usePositionPresentationStore,
useSegmentationPresentationStore,
useSynchronizersStore,
useSelectedSegmentationsForViewportStore,
} from './stores';
import { useToggleOneUpViewportGridStore } from '@ohif/extension-default';
import { useActiveViewportSegmentationRepresentations } from './hooks/useActiveViewportSegmentationRepresentations';
import { useMeasurements } from './hooks/useMeasurements';
import getPanelModule from './getPanelModule';
import PanelSegmentation from './panels/PanelSegmentation';
import PanelMeasurement from './panels/PanelMeasurement';
import { useSegmentations } from './hooks/useSegmentations';
import { StudySummaryFromMetadata } from './components/StudySummaryFromMetadata';
import CornerstoneViewportDownloadForm from './utils/CornerstoneViewportDownloadForm';
import utils from './utils';
import { useMeasurementTracking } from './hooks/useMeasurementTracking';
import { setUpSegmentationEventHandlers } from './utils/setUpSegmentationEventHandlers';
import { setUpAnnotationEventHandlers } from './utils/setUpAnnotationEventHandlers';
import update from 'immutability-helper';
export * from './components';
const { imageRetrieveMetadataProvider } = cornerstone.utilities;
const Component = React.lazy(() => {
return import(/* webpackPrefetch: true */ './Viewport/OHIFCornerstoneViewport');
});
const OHIFCornerstoneViewport = props => {
return (
<React.Suspense fallback={<div>Loading...</div>}>
<Component {...props} />
</React.Suspense>
);
};
const DEFAULT_STACK_RETRIEVE_OPTIONS = {
retrieveOptions: {
single: {
streaming: true,
decodeLevel: 1,
},
},
};
/** Normalize to immutability-helper spec: plain object → $merge, otherwise use as-is. */
const toUpdateSpec = (obj: object) =>
obj != null && typeof obj === 'object' && Object.keys(obj).some(k => k.startsWith('$'))
? obj
: { $merge: (obj ?? {}) as object };
const unsubscriptions = [];
/**
*
*/
const cornerstoneExtension: Types.Extensions.Extension = {
/**
* Only required property. Should be a unique value across all extensions.
*/
id,
onModeEnter: ({
servicesManager,
commandsManager,
extensionManager,
}: withAppTypes): void => {
const { cornerstoneViewportService, toolbarService, segmentationService } =
servicesManager.services;
const { unsubscriptions: segmentationUnsubscriptions } = setUpSegmentationEventHandlers({
servicesManager,
commandsManager,
});
unsubscriptions.push(...segmentationUnsubscriptions);
const annotationUnsubscriptions = setUpAnnotationEventHandlers();
unsubscriptions.push(...annotationUnsubscriptions);
toolbarService.registerEventForToolbarUpdate(cornerstoneViewportService, [
cornerstoneViewportService.EVENTS.VIEWPORT_DATA_CHANGED,
]);
toolbarService.registerEventForToolbarUpdate(segmentationService, [
segmentationService.EVENTS.SEGMENTATION_REMOVED,
segmentationService.EVENTS.SEGMENTATION_MODIFIED,
segmentationService.EVENTS.SEGMENTATION_ANNOTATION_CUT_MERGE_PROCESS_COMPLETED,
]);
toolbarService.registerEventForToolbarUpdate(cornerstone.eventTarget, [
cornerstoneTools.Enums.Events.TOOL_ACTIVATED,
]);
// Configure the interleaved/HTJ2K loader
imageRetrieveMetadataProvider.clear();
// The default volume interleaved options are to interleave the
// image retrieve, but don't perform progressive loading per image
// This interleaves images and replicates them for low-resolution depth volume
// reconstruction, which progressively improves
imageRetrieveMetadataProvider.add(
'volume',
cornerstone.ProgressiveRetrieveImages.interleavedRetrieveStages
);
/**
* Stack retrieve options: read from active data source configuration.
* Pass an immutability-helper spec (e.g. { $merge: {...} } or { $set: {...} }) in
* stackRetrieveOptions to customize. Plain object is treated as $merge for backward compat.
* Set streaming: false for uncompressed DICOM that requires full file before decode.
*/
const sourceConfig = extensionManager?.getActiveDataSource?.()?.[0]?.getConfig?.() ?? {};
const config = sourceConfig.stackRetrieveOptions ?? {};
const stackOptions = update(DEFAULT_STACK_RETRIEVE_OPTIONS, toUpdateSpec(config)) as typeof DEFAULT_STACK_RETRIEVE_OPTIONS;
imageRetrieveMetadataProvider.add('stack', stackOptions);
},
getPanelModule,
onModeExit: ({ servicesManager }: withAppTypes): void => {
unsubscriptions.forEach(unsubscribe => unsubscribe());
// Clear the unsubscriptions
unsubscriptions.length = 0;
const { cineService, segmentationService } = servicesManager.services;
// Empty out the image load and retrieval pools to prevent memory leaks
// on the mode exits
Object.values(cs3DEnums.RequestType).forEach(type => {
imageLoadPoolManager.clearRequestStack(type);
imageRetrievalPoolManager.clearRequestStack(type);
});
// Release the typed metadata registry (NATURALIZED instances registered via
// prefetchPart10Instance hold full compressed Part 10 buffers that live
// outside the size-capped cornerstone image cache)
csMetadataUtilities.clearCacheData();
cineService.setIsCineEnabled(false);
enabledElementReset();
useLutPresentationStore.getState().clearLutPresentationStore();
usePositionPresentationStore.getState().clearPositionPresentationStore();
useSynchronizersStore.getState().clearSynchronizersStore();
useToggleOneUpViewportGridStore.getState().clearToggleOneUpViewportGridStore();
useSegmentationPresentationStore.getState().clearSegmentationPresentationStore();
useSelectedSegmentationsForViewportStore
.getState()
.clearSelectedSegmentationsForViewportStore();
servicesManager.services.viewedDataService?.clearViewedData();
segmentationService.removeAllSegmentations();
},
/**
* Register the Cornerstone 3D services and set them up for use.
*
* @param configuration.csToolsConfig - Passed directly to `initCornerstoneTools`
*/
preRegistration: async function (props: Types.Extensions.ExtensionParams): Promise<void> {
const { servicesManager } = props;
servicesManager.registerService(CornerstoneViewportService.REGISTRATION);
servicesManager.registerService(ToolGroupService.REGISTRATION);
servicesManager.registerService(SyncGroupService.REGISTRATION);
servicesManager.registerService(SegmentationService.REGISTRATION);
servicesManager.registerService(CornerstoneCacheService.REGISTRATION);
servicesManager.registerService(ColorbarService.REGISTRATION);
servicesManager.registerService(ViewedDataService.REGISTRATION);
const { syncGroupService } = servicesManager.services;
syncGroupService.registerCustomSynchronizer('frameview', createFrameViewSynchronizer);
await init.call(this, props);
},
getToolbarModule,
getHangingProtocolModule,
getViewportModule({ servicesManager, commandsManager }) {
const ExtendedOHIFCornerstoneViewport = props => {
const { toolbarService } = servicesManager.services;
return (
<OHIFCornerstoneViewport
{...props}
toolbarService={toolbarService}
servicesManager={servicesManager}
commandsManager={commandsManager}
/>
);
};
return [
{
name: 'cornerstone',
component: ExtendedOHIFCornerstoneViewport,
isReferenceViewable: utils.isReferenceViewable.bind(null, servicesManager),
},
];
},
getCommandsModule,
getCustomizationModule,
getUtilityModule({ servicesManager }) {
return [
{
name: 'common',
exports: {
getCornerstoneLibraries: () => {
return { cornerstone, cornerstoneTools };
},
getEnabledElement,
dicomLoaderService,
},
},
{
name: 'core',
exports: {
Enums: cs3DEnums,
},
},
{
name: 'tools',
exports: {
toolNames,
Enums: cs3DToolsEnums,
},
},
{
name: 'volumeLoader',
exports: {
getDynamicVolumeInfo,
},
},
];
},
getSopClassHandlerModule,
};
export type { PublicViewportOptions };
export {
measurementMappingUtils,
PlanarFreehandROI,
RectangleROI,
CornerstoneExtensionTypes as Types,
toolNames,
getActiveViewportEnabledElement,
setEnabledElement,
findNearbyToolData,
getEnabledElement,
ImageOverlayViewerTool,
getSOPInstanceAttributes,
dicomLoaderService,
// Export all stores
useLutPresentationStore,
usePositionPresentationStore,
useSegmentationPresentationStore,
useSynchronizersStore,
useSelectedSegmentationsForViewportStore,
Enums,
useMeasurements,
useActiveViewportSegmentationRepresentations,
useSegmentations,
PanelSegmentation,
PanelMeasurement,
StudySummaryFromMetadata,
CornerstoneViewportDownloadForm,
utils,
OHIFCornerstoneViewport,
useMeasurementTracking,
};
// Export constants
export { VOLUME_LOADER_SCHEME, DYNAMIC_VOLUME_LOADER_SCHEME } from './constants';
export default cornerstoneExtension;