npm - @ohif/extension-cornerstone-dicom-seg - Versions diffs - 3.14.0-beta.73 → 3.14.0-beta.74 - Mend

@ohif/extension-cornerstone-dicom-seg 3.14.0-beta.73 → 3.14.0-beta.74

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Files changed (2) hide show

package/dist/ohif-extension-cornerstone-dicom-seg.umd.js +1 -1
package/package.json +5 -5

package/dist/ohif-extension-cornerstone-dicom-seg.umd.js CHANGED Viewed

	@@ -1 +1 @@
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a[0]===Symbol.for("react.memo_cache_sentinel")?(n=(0,en.jsx)("div",{children:"Loading..."}),a[0]=n):n=a[0],a[1]!==e?(r=(0,en.jsx)(o.Suspense,{fallback:n,children:(0,en.jsx)(em,{...e})}),a[1]=e,a[2]=r):r=a[2],r},ef={id:n,getCommandsModule:({servicesManager:e,extensionManager:t,commandsManager:n})=>{let{segmentationService:r,displaySetService:o,viewportGridService:s,customizationService:i}=e.services,u={loadSegmentationsForViewport:async({segmentations:e,viewportId:t})=>{let n=(({viewportId:e,viewportGridService:t})=>{let{viewports:n,activeViewportId:r}=t.getState();return n.get(e\|\|r)})({viewportId:t,viewportGridService:s}),a=n.displaySetInstanceUIDs[0],i=e[0],l=i.segmentationId,c=i.config.label,u=i.config.segments,d=o.getDisplaySetByUID(a);return await r.createLabelmapForDisplaySet(d,{segmentationId:l,segments:u,label:c}),r.addOrUpdateSegmentation(i),await r.addSegmentationRepresentation(n.viewportId,{segmentationId:l}),l},generateSegmentation:({segmentationId:e,options:n={}})=>{let o,s,u,d,{dataSource:S,...y}=n,h=c.segmentation.state.getSegmentation(e),v=y.predecessorImageId??h.predecessorImageId,I=S?t.getDataSourceDefinition(S):t.getActiveDataSourceDefinition(),x=I?.configuration?.segmentation?.store,w=h.representationData.Labelmap,D=(t,n,r,o)=>{let a=t.map(e=>l.cache.getImage(e)),s=[],i=r?new Map(r.map((e,t)=>[e,t])):void 0,c=0,u=new Set;for(let e of a){let t=i?i.get(e.referencedImageId)??-1:c++;if(t<0)continue;let n=e.getPixelData(),r=function(e,t,n){let r=new Set;for(let t=0;t<e.length;t++){let n=e[t];0!==n&&r.add(n)}return t?Array.from(r).filter(e=>!!t[e]\|\|(n?.add(e),!1)):Array.from(r)}(n,o,u);if(!r.length)continue;let{rows:a,columns:l}=e;s[t]={segmentsOnLabelmap:r,pixelData:n,rows:a,columns:l}}return u.forEach(t=>console.warn(`Label value ${t} of segmentation ${e} has no segment. The SEG export does not include its voxels.`)),{segmentsOnLabelmap:Array.from(new Set(s.filter(Boolean).map(e=>e.segmentsOnLabelmap).flat())),metadata:n,labelmaps2D:s,labelToSegmentIndex:function(e,t){if(!e)return;let n={...e};return t.forEach(e=>{n[e]=0}),n}(o,u)}},j=r.getSegmentation(e),C=r.getRepresentationsForSegmentation(e),E=[];Object.entries(j.segments).forEach(([t,n])=>{if(!n)return;let{label:o}=n,a=C[0],s=r.getSegmentColor(a.viewportId,e,n.segmentIndex),i=m().data.Colors.rgb2DICOMLAB(s.slice(0,3).map(e=>e/255)).map(e=>Math.round(e));E[t]={SegmentNumber:t.toString(),SegmentLabel:o,SegmentAlgorithmType:n?.algorithmType\|\|"MANUAL",SegmentAlgorithmName:n?.algorithmName\|\|"OHIF Brush",RecommendedDisplayCIELabValue:i,SegmentedPropertyCategoryCodeSequence:{CodeValue:"T-D0050",CodingSchemeDesignator:"SRT",CodeMeaning:"Tissue"},SegmentedPropertyTypeCodeSequence:{CodeValue:"T-D0050",CodingSchemeDesignator:"SRT",CodeMeaning:"Tissue"}}});let O=w.labelmaps?Object.values(w.labelmaps):void 0,T=(e,t)=>{let n=l.cache.getImage(e);if(!n)throw Error(`Referenced source image not in cache for segmentation slice ${t} (referencedImageId: ${e}). 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The SEG export uses the segmentation image ids with the label map of that layer.`),o=e.map(e=>l.cache.getImage(e)).map((e,t)=>T(e.referencedImageId,t)),s=D(e,E,void 0,t)}let R="predecessorImageId"in y?y.predecessorImageId:v,{date:P,time:A}=a.utils.getCurrentDicomDateTime(),L={predecessorImageId:v,ContentDate:P,ContentTime:A,...R?{}:{SeriesDate:P,SeriesTime:A},...(u="bitmap"===b(i,x)?f:g,{sopClassUID:u,transferSyntaxUID:d=x?.transferSyntaxUID??i?.getCustomization("segmentation.store.transferSyntaxUID")??p,transferSyntaxUid:d}),...y,...a.utils.getOhifWriterHeader("@cornerstonejs/adapters","CS3D",N.version,y)};return O&&O.length>1&&L.sopClassUID===g&&(console.warn("generateSegmentation: overlapping segments cannot be stored as a LABELMAP SEG; switching to the binary SEG encoding for this store."),L.sopClassUID=f),_(o,s,l.metaData,L)},downloadSegmentation:({segmentationId:e})=>{let t=r.getSegmentation(e),o=u.generateSegmentation({segmentationId:e});n.runCommand("createStoreFunction",{dataSource:"download",defaultFileName:`${t.label}.dcm`})(o.dataset)},storeSegmentation:async({segmentationId:o,dataSource:s,modality:i="SEG"})=>{let l=r.getSegmentation(o);if(!l)throw Error("No segmentation found");let{label:c,predecessorImageId:d,labelIsGenerated:m}=l,g=m&&c\|\|("RTSTRUCT"===i?"Contours":"Segmentation"),{value:f,dataSourceName:p,series:S,seriesNumber:y,action:h}=await (0,T.createReportDialogPrompt)({servicesManager:e,extensionManager:t,predecessorImageId:d,title:"RTSTRUCT"===i?"Save Contours":"Save Segmentation",modality:i,itemName:m?"":c\|\|"",defaultSeriesDescription:g,enableDownload:!0});if(1!==h)return;let b="RTSTRUCT"===i?`rtss-${o}.dcm`:`${c\|\|"segmentation"}.dcm`,v=n.runCommand("createStoreFunction",{dataSource:p,defaultFileName:b});if(!v)throw Error(`No valid store for dataSource: ${p}`);try{let e={segmentationId:o,options:{dataSource:p,SeriesDescription:S?void 0:f\|\|c\|\|g,SeriesNumber:S?void 0:y,predecessorImageId:S}},t="SEG"===i&&u.generateSegmentation(e)\|\|"RTSTRUCT"===i&&u.generateContour(e),n=await t;if(!n?.dataset)throw Error("Error during segmentation generation");let{dataset:r}=n;return a.utils.updateNewInstanceMetadata(r),"No Study ID"===r.StudyID&&(r.StudyID=""),await v(r,{}),r}catch(e){throw console.debug("Error storing segmentation:",e),e}},generateContour:async e=>{let{segmentationId:t,options:n}=e,{dataSource:o,...s}=n??{},i=r.getSegmentation(t),l=r.getRepresentationsForSegmentation(t)[0];Object.entries(i.segments).forEach(([e,n])=>{n.color=r.getSegmentColor(l.viewportId,t,Number(e))});let c=s.predecessorImageId??i.predecessorImageId,{date:u,time:d}=a.utils.getCurrentDicomDateTime();return{dataset:await R(i,{predecessorImageId:c,StructureSetDate:u,StructureSetTime:d,...s,...a.utils.getOhifWriterHeader("@cornerstonejs/adapters","CS3D",N.version,s)})}},downloadRTSS:async e=>{let{dataset:t}=await u.generateContour(e),{InstanceNumber:r=1,SeriesInstanceUID:o}=t,a=n.runCommand("createStoreFunction",{dataSource:"download",defaultFileName:`rtss-${o}-${r}.dcm`});await a(t)},toggleActiveSegmentationUtility:({itemId:e})=>{let{uiState:t,setUIState:n}=T.useUIStateStore.getState(),r=t.activeSegmentationUtility===e;console.log("toggleActiveSegmentationUtility",r,e),n("activeSegmentationUtility",r?null:e)}},d={loadSegmentationsForViewport:u.loadSegmentationsForViewport,generateSegmentation:u.generateSegmentation,downloadSegmentation:u.downloadSegmentation,storeSegmentation:u.storeSegmentation,downloadRTSS:u.downloadRTSS,toggleActiveSegmentationUtility:u.toggleActiveSegmentationUtility};return{actions:u,definitions:d,defaultContext:"SEGMENTATION"}},getCustomizationModule:function(){return[{name:"default",value:P}]},getToolbarModule:function({servicesManager:e}){let{segmentationService:t,toolbarService:n,toolGroupService:r}=e.services;return[{name:"cornerstone.SimplifyContourOptions",defaultComponent:eu},{name:"cornerstone.LogicalContourOperationsOptions",defaultComponent:ec},{name:"cornerstone.SmoothContoursOptions",defaultComponent:ed},{name:"cornerstone.isActiveSegmentationUtility",evaluate:({button:e})=>{let{uiState:t}=T.useUIStateStore.getState();return{isActive:t.activeSegmentationUtility===e.id}}},{name:"evaluate.cornerstone.hasSegmentation",evaluate:({viewportId:e})=>{let 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u=n.getToolNameForButton(o);return c.hasTool(u)\|\|a?{disabled:!1,isActive:a?a.includes(c.getActivePrimaryMouseButtonTool()):c.getActivePrimaryMouseButtonTool()===u}:{disabled:!0,disabledText:s??i().t("SegmentationPanel:Not available on the current viewport")}}},{name:"evaluate.cornerstone.segmentation.synchronizeDrawingRadius",evaluate:({button:e,radiusOptionId:t})=>{let o=r.getToolGroupIds();if(o?.length)for(let r of o){let o=c.utilities.segmentation.getBrushSizeForToolGroup(r);o&&(n.getOptionById(e,t).value=o)}}}]},getViewportModule:({servicesManager:e,extensionManager:n,commandsManager:r})=>[{name:"dicom-seg",component:o=>{let a,s=(0,t.c)(2);return s[0]!==o?(a=(0,en.jsx)(eg,{servicesManager:e,extensionManager:n,commandsManager:r,...o}),s[0]=o,s[1]=a):a=s[1],a}}],getSopClassHandlerModule:function(e){let{servicesManager:t,extensionManager:n}=e;return[{name:"dicom-seg",sopClassUids:I,getDisplaySetsFromSeries:e=>(function(e,t,n){a.utils.sortStudyInstances(e);let o=e[e.length-1],{StudyInstanceUID:s,SeriesInstanceUID:l,SOPInstanceUID:u,SeriesDescription:d="",SeriesNumber:m,SOPClassUID:g,FrameOfReferenceUID:f,wadoRoot:p,wadoUri:S,wadoUriRoot:y,imageId:h}=o,{SeriesDate:b,SeriesTime:v}=a.utils.getLatestInstanceDateTime(o),w={Modality:"SEG",loading:!1,isReconstructable:!1,displaySetInstanceUID:a.utils.guid(),SeriesDescription:d,SeriesNumber:m,SeriesDate:b,SeriesTime:v,SOPInstanceUID:u,SeriesInstanceUID:l,StudyInstanceUID:s,SOPClassHandlerId:r,SOPClassUID:g,FrameOfReferenceUID:f,referencedImages:null,referencedSeriesInstanceUID:null,referencedDisplaySetInstanceUID:null,isDerivedDisplaySet:!0,isLoaded:!1,isHydrated:!1,segments:{},sopClassUids:I,instance:o,predecessorImageId:h,instances:[o],wadoRoot:p,wadoUriRoot:y,wadoUri:S,isOverlayDisplaySet:!0,label:d\|\|`${i().t("Series")} ${m} - ${i().t("SEG")}`},D=o.ReferencedSeriesSequence;if(!D)return void console.error("ReferencedSeriesSequence is missing for the SEG");let j=D[0]\|\|D;w.referencedImages=o.ReferencedSeriesSequence.ReferencedInstanceSequence,w.referencedSeriesInstanceUID=j.SeriesInstanceUID;let{displaySetService:C}=t.services,O=C.getDisplaySetsForReferences(o.ReferencedSeriesSequence);O?.length>1&&console.warn("Segmentation does not currently handle references to multiple series, defaulting to first series");let N=O[0];if(N)w.referencedDisplaySetInstanceUID=N.displaySetInstanceUID,w.isReconstructable=N.isReconstructable,w.FrameOfReferenceUID=N.FrameOfReferenceUID;else{let{unsubscribe:e}=C.subscribe(C.EVENTS.DISPLAY_SETS_ADDED,({displaySetsAdded:t})=>{let n=t[0];n.SeriesInstanceUID===w.referencedSeriesInstanceUID&&(w.referencedDisplaySetInstanceUID=n.displaySetInstanceUID,w.isReconstructable=n.isReconstructable,w.FrameOfReferenceUID=n.FrameOfReferenceUID,e())})}return w.load=async({headers:e})=>await function(e,t,n,r){var o;let{SOPInstanceUID:a}=e,{segmentationService:s}=t.services;return(e.loading\|\|e.isLoaded)&&x[a]&&(o=e,c.segmentation.state.getSegmentation(o.displaySetInstanceUID))\|\|(e.loading=!0,x[a]=new Promise(async(o,a)=>{if(!e.segments\|\|0===Object.keys(e.segments).length)try{await E({extensionManager:n,servicesManager:t,segDisplaySet:e,headers:r})}catch(t){return e.loading=!1,a(t)}s.createSegmentationForSEGDisplaySet(e).then(()=>{e.loading=!1,o()}).catch(t=>{e.loading=!1,a(t)})}),e.loadingPromise=x[a]),x[a]}(w,t,n,e),[w]})(e,t,n)}]},getHangingProtocolModule:function(){return[{name:O.id,protocol:O}]}}})(),h=y.O(h)})());

package/package.json CHANGED Viewed

@@ -1,6 +1,6 @@
 {
   "name": "@ohif/extension-cornerstone-dicom-seg",
-  "version": "3.14.0-beta.73",
+  "version": "3.14.0-beta.74",
   "description": "DICOM SEG read workflow",
   "author": "OHIF",
   "license": "MIT",
@@ -22,10 +22,10 @@
     "access": "public"
   },
   "peerDependencies": {
-    "@ohif/core": "3.14.0-beta.73",
-    "@ohif/extension-cornerstone": "3.14.0-beta.73",
-    "@ohif/extension-default": "3.14.0-beta.73",
-    "@ohif/i18n": "3.14.0-beta.73",
+    "@ohif/core": "3.14.0-beta.74",
+    "@ohif/extension-cornerstone": "3.14.0-beta.74",
+    "@ohif/extension-default": "3.14.0-beta.74",
+    "@ohif/i18n": "3.14.0-beta.74",
     "react": "19.2.7",
     "react-dom": "19.2.7",
     "react-i18next": "12.3.1",