feat(microscopy): add dicom microscopy extension and mode (#3247)

* skeleton for dicom-microscopy extension * skeleton for microscopy mode * [feat] ported @radicalimaging/microscopy-dicom to OHIF's default extension * [feat] ported microscopy mode from private repo * added new definitions to the package.json * webpack configuration update for microscopy extension * register new icons for microscopy tools * fixes to the microscopy extension and mode * trivial error fix - typescript type import error * link microscopy extension with default OHIF app plugin config * demo config fix * fix logs * remove unsed imports * [fix] loading of microscopy * [fix] webworker script loading, normalizing denaturalized dataset * found the latest version of dicom-microscopy-viewer that works with current OHIF extension : 0.35.2 * hide thumbnail pane by default, as we have issues with * comments * remove unused code * [feat] microscopy - annotation selection * [feat] microscopy - edit annotation label * wip * [bugfix] dicom-microscopy tool * [bugfix] dicom microscopy annotations * [fix] mixed-content blocking caused by BulkDataURI * [fix] microscopy measurements panel - center button * [fix] microscopy measurements panel - styling * [fix] microscopy - controls * fix local loading of microscopy * fix local loading of dicom microscopy * fix typo - indexof to indexOf * [fix] remove unused icons * remove commented out lines from webpack configuration * platform/viewer/public/config/default.js - revert accidental changes * [refactor] redirecting to microscopy mode on Local mode * attribution to DMV and SLIM viewer * [fix] code review feedbacks * fix thumbnails * [fix] microscopy - fix old publisher.publish() to PubSubService._broadcastEvent() * [fix] interactions, webpack config, roi selection * [feat] microscopy - remove select tool from UI * microscopy author * [fix] saving and loading SR * [bugfix] - missing publish() function in MicroscopyService, replace with _broadcastEvent * remove author section from readme * refactor SR saving feature * fix webpack config after merge * [bugfix] repeated import * fix e2e * webpack configuration * hide "Create report" button for microscopy
2023-04-27 20:53:52 -04:00
1 parent dd3944a87c
commit 075008c674
@@ -0,0 +1,198 @@
+import { ServicesManager, CommandsManager, ExtensionManager } from '@ohif/core';
+import styles from './utils/styles';
+import callInputDialog from './utils/callInputDialog';
+
+export default function getCommandsModule({
+  servicesManager,
+  commandsManager,
+  extensionManager,
+}: {
+  servicesManager: ServicesManager;
+  commandsManager: CommandsManager;
+  extensionManager: ExtensionManager;
+}) {
+  const {
+    viewportGridService,
+    uiDialogService,
+    microscopyService,
+  } = servicesManager.services;
+
+  const actions = {
+    // Measurement tool commands:
+    deleteMeasurement: ({ uid }) => {
+      if (uid) {
+        const roiAnnotation = microscopyService.getAnnotation(uid);
+        if (roiAnnotation) microscopyService.removeAnnotation(roiAnnotation);
+      }
+    },
+
+    setLabel: ({ uid }) => {
+      const roiAnnotation = microscopyService.getAnnotation(uid);
+
+      callInputDialog({
+        uiDialogService,
+        title: 'Enter your annotation',
+        defaultValue: '',
+        callback: (value: string, action: string) => {
+          switch (action) {
+            case 'save': {
+              roiAnnotation.setLabel(value);
+              microscopyService.triggerRelabel(roiAnnotation);
+            }
+          }
+        },
+      });
+    },
+
+    setToolActive: ({ toolName, toolGroupId = 'MICROSCOPY' }) => {
+      const dragPanOnMiddle = [
+        'dragPan',
+        {
+          bindings: {
+            mouseButtons: ['middle'],
+          },
+        },
+      ];
+      const dragZoomOnRight = [
+        'dragZoom',
+        {
+          bindings: {
+            mouseButtons: ['right'],
+          },
+        },
+      ];
+      if (
+        [
+          'line',
+          'box',
+          'circle',
+          'point',
+          'polygon',
+          'freehandpolygon',
+          'freehandline',
+        ].indexOf(toolName) >= 0
+      ) {
+        // TODO: read from configuration
+        let options = {
+          geometryType: toolName,
+          vertexEnabled: true,
+          styleOptions: styles.default,
+          bindings: {
+            mouseButtons: ['left'],
+          },
+        } as any;
+        if ('line' === toolName) {
+          options.minPoints = 2;
+          options.maxPoints = 2;
+        } else if ('point' === toolName) {
+          delete options.styleOptions;
+          delete options.vertexEnabled;
+        }
+
+        microscopyService.activateInteractions([
+          ['draw', options],
+          dragPanOnMiddle,
+          dragZoomOnRight,
+        ]);
+      } else if (toolName == 'dragPan') {
+        microscopyService.activateInteractions([
+          [
+            'dragPan',
+            {
+              bindings: {
+                mouseButtons: ['left', 'middle'],
+              },
+            },
+          ],
+          dragZoomOnRight,
+        ]);
+      } else {
+        microscopyService.activateInteractions([
+          [
+            toolName,
+            {
+              bindings: {
+                mouseButtons: ['left'],
+              },
+            },
+          ],
+          dragPanOnMiddle,
+          dragZoomOnRight,
+        ]);
+      }
+    },
+
+    incrementActiveViewport: () => {
+      const { activeViewportIndex, viewports } = viewportGridService.getState();
+      const nextViewportIndex = (activeViewportIndex + 1) % viewports.length;
+      viewportGridService.setActiveViewportIndex(nextViewportIndex);
+    },
+    decrementActiveViewport: () => {
+      const { activeViewportIndex, viewports } = viewportGridService.getState();
+      const nextViewportIndex =
+        (activeViewportIndex - 1 + viewports.length) % viewports.length;
+      viewportGridService.setActiveViewportIndex(nextViewportIndex);
+    },
+
+    toggleOverlays: () => {
+      // overlay
+      const overlays = document.getElementsByClassName(
+        'microscopy-viewport-overlay'
+      );
+      let onoff = false; // true if this will toggle on
+      for (let i = 0; i < overlays.length; i++) {
+        if (i === 0) onoff = overlays.item(0).classList.contains('hidden');
+        overlays.item(i).classList.toggle('hidden');
+      }
+
+      // overview
+      const { activeViewportIndex, viewports } = viewportGridService.getState();
+      microscopyService.toggleOverviewMap(activeViewportIndex);
+    },
+    toggleAnnotations: () => {
+      microscopyService.toggleROIsVisibility();
+    },
+  };
+
+  const definitions = {
+    deleteMeasurement: {
+      commandFn: actions.deleteMeasurement,
+      storeContexts: [] as any[],
+      options: {},
+    },
+    setLabel: {
+      commandFn: actions.setLabel,
+      storeContexts: [] as any[],
+      options: {},
+    },
+    setToolActive: {
+      commandFn: actions.setToolActive,
+      storeContexts: [] as any[],
+      options: {},
+    },
+    incrementActiveViewport: {
+      commandFn: actions.incrementActiveViewport,
+      storeContexts: [] as any[],
+    },
+    decrementActiveViewport: {
+      commandFn: actions.decrementActiveViewport,
+      storeContexts: [] as any[],
+    },
+    toggleOverlays: {
+      commandFn: actions.toggleOverlays,
+      storeContexts: [] as any[],
+      options: {},
+    },
+    toggleAnnotations: {
+      commandFn: actions.toggleAnnotations,
+      storeContexts: [] as any[],
+      options: {},
+    },
+  };
+
+  return {
+    actions,
+    definitions,
+    defaultContext: 'MICROSCOPY',
+  };
+}