@ohif/extension-tmtv 3.13.0-beta.13 → 3.13.0-beta.15

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Files changed (2) hide show
  1. package/dist/ohif-extension-tmtv.umd.js +1 -1
  2. package/package.json +3 -3
package/dist/ohif-extension-tmtv.umd.js CHANGED
@@ -1,2 +1,2 @@
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  /*! For license information please see ohif-extension-tmtv.umd.js.LICENSE.txt */
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Q(){const{commandsManager:e,servicesManager:t}=(0,B.useSystem)(),{segmentationService:n}=t.services,{segmentationsWithRepresentations:o}=(0,K.useActiveViewportSegmentationRepresentations)(),a=o?.map(e=>e.segmentation.segmentationId)||[],r=o?.map(e=>e.segmentation)||[];(0,h.useEffect)(()=>{(async()=>{for(const t of a)await X({segmentationId:t,commandsManager:e,segmentationService:n})})()},[]),(0,h.useEffect)(()=>{const t=(0,Z.debounce)(async t=>{const{segmentationId:o}=t;await X({segmentationId:o,commandsManager:e,segmentationService:n})},100),o=n.subscribe(n.EVENTS.SEGMENTATION_DATA_MODIFIED,e=>{t(e)});return()=>{o.unsubscribe()}},[e,n]);const i=n.getSegmentationGroupStats(a),s=i?.tmtv;return h.createElement("div",{className:"mb-1 flex flex-col"},h.createElement("div",{className:"invisible-scrollbar overflow-y-auto overflow-x-hidden"},h.createElement("div",{className:"bg-popover flex items-baseline justify-between px-2 py-1"},h.createElement("div",{className:"py-1"},h.createElement("span",{className:"text-muted-foreground text-base font-bold uppercase"},"TMTV: "),h.createElement("span",{className:"text-foreground"},s?`${s.toFixed(3)} mL`:"")),h.createElement("div",{className:"flex items-center"},h.createElement(W.Button,{dataCY:"exportTmtvCsvReport",size:"sm",variant:"ghost",onClick:()=>{r.length&&e.runCommand("exportTMTVReportCSV",{segmentations:r,tmtv:s,config:{}})}},h.createElement("span",{className:"pl-1"},"CSV"))))))}const ee=Q;var te=m(438);function ne({configuration:e}){return h.createElement(h.Fragment,null,h.createElement(K.PanelSegmentation,{configuration:e},h.createElement(Q,null)))}var oe=m(545),ae=m.n(oe);const re=function({commandsManager:e,extensionManager:t,servicesManager:n}){const{toolbarService:o}=n.services;return[{name:"petSUV",iconName:"tab-patient-info",iconLabel:"Patient Info",label:"Patient 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Missing metadata or data"),null;const{toolName:c,referencedImageId:l,FrameOfReferenceUID:u}=r;if(!se.includes(c))throw new Error("Tool not supported");const{SOPInstanceUID:p,SeriesInstanceUID:d,StudyInstanceUID:m}=(0,K.getSOPInstanceAttributes)(l,n,a);let f;return f=p?t.getDisplaySetForSOPInstanceUID(p,d):t.getDisplaySetsForSeries(d),{uid:s,SOPInstanceUID:p,FrameOfReferenceUID:u,metadata:r,referenceSeriesUID:d,referenceStudyUID:m,toolName:r.toolName,displaySetInstanceUID:f.displaySetInstanceUID,label:r.label,data:i.cachedStats,type:"RectangleROIStartEndThreshold"}}},le={toAnnotation:(e,t)=>{},toMeasurement:(e,t,n)=>{const{annotation:o,viewportId:a}=e,{metadata:r,data:i,annotationUID:s}=o;if(!r||!i)return console.warn("Length tool: Missing metadata or data"),null;const{toolName:c,referencedImageId:l,FrameOfReferenceUID:u}=r;if(!se.includes(c))throw new Error("Tool not supported");const{SOPInstanceUID:p,SeriesInstanceUID:d,StudyInstanceUID:m}=(0,K.getSOPInstanceAttributes)(l,n,a);let f;f=p?t.getDisplaySetForSOPInstanceUID(p,d):t.getDisplaySetsForSeries(d);const{cachedStats:g}=i;return{uid:s,SOPInstanceUID:p,FrameOfReferenceUID:u,metadata:r,referenceSeriesUID:d,referenceStudyUID:m,toolName:r.toolName,displaySetInstanceUID:f.displaySetInstanceUID,label:r.label,data:i.cachedStats,type:"CircleROIStartEndThreshold"}}},ue=(e,t,n)=>({RectangleROIStartEndThreshold:{toAnnotation:ce.toAnnotation,toMeasurement:e=>ce.toMeasurement(e,t,n),matchingCriteria:[{valueType:e.VALUE_TYPES.ROI_THRESHOLD_MANUAL}]},CircleROIStartEndThreshold:{toAnnotation:le.toAnnotation,toMeasurement:e=>le.toMeasurement(e,t,n),matchingCriteria:[{valueType:e.VALUE_TYPES.ROI_THRESHOLD_MANUAL}]}}),{CORNERSTONE_3D_TOOLS_SOURCE_NAME:pe,CORNERSTONE_3D_TOOLS_SOURCE_VERSION:de}=K.Enums;var me=m(557);function fe(e,t){const{imageIds:n}=e,o=me.cache.getVolumeContainingImageId(n[0]);if(!o)throw new Error("No volume found for display set");const{volume:a}=o,{voxelManager:r}=a,{fn:i,baseValue:s}=function(){const e=-1/0,t=(e,t)=>(e>t&&(t=e),t);return{fn:t,baseValue:e}}();let c=s;const l=ie.utilities.rectangleROITool.getBoundsIJKFromRectangleAnnotations(t,a);return r.forEach(({value:e})=>{c=i(e,c)},{boundsIJK:l}),c}const ge=function(e,t,n){if("range"===n.strategy)return{ptLower:Number(n.ptLower),ptUpper:Number(n.ptUpper),ctLower:Number(n.ctLower),ctUpper:Number(n.ctUpper)};const{weight:o}=n;return{ctLower:-1/0,ctUpper:1/0,ptLower:o*fe(t,e.map(e=>ie.annotation.state.getAnnotation(e))),ptUpper:1/0}},{downloadCsv:ye}=I.utils;var he=m(111),ve=m.n(he),Se=m(142);const{datasetToBlob:Ie}=ve().data,be=I.classes.MetadataProvider;const Te=function(e){const t=Se.adaptersRT.Cornerstone3D.RTSS.generateRTSSFromAnnotations(e,be,I.DicomMetadataStore),n=Ie(t);var o=URL.createObjectURL(n);window.location.assign(o)},{SegmentationRepresentations:we}=ie.Enums,{formatPN:Ee}=I.utils,xe=I.classes.MetadataProvider,Re=["RectangleROIStartEndThreshold","RectangleROIThreshold","CircleROIStartEndThreshold"],Oe=({servicesManager:e,commandsManager:t,extensionManager:n})=>{const{viewportGridService:o,uiNotificationService:a,displaySetService:r,hangingProtocolService:i,toolGroupService:s,cornerstoneViewportService:c,segmentationService:l}=e.services,u=n.getModuleEntry("@ohif/extension-cornerstone.utilityModule.common"),{getEnabledElement:p}=u.exports;function d(){const{activeViewportId:e}=o.getState(),{element:t}=p(e)||{};return me.getEnabledElement(t)}function m(e){return e.reduce((e,t)=>{const n=ie.annotation.selection.getAnnotationsSelectedByToolName(t);return e.concat(n)},[])}const f={getMatchingPTDisplaySet:({viewportMatchDetails:e})=>{let t=null;for(const[,n]of e){const{displaySetsInfo:e}=n,o=e.map(({displaySetInstanceUID:e})=>r.getDisplaySetByUID(e));if(o&&0!==o.length&&(t=o.find(e=>"PT"===e.Modality),t))break}return t},getPTMetadata:({ptDisplaySet:e})=>{const t=n.getDataSources()[0].getImageIdsForDisplaySet(e)[0],o=xe.get("instance",t);if("PT"!==o.Modality)return;return{SeriesTime:o.SeriesTime,Modality:o.Modality,PatientSex:o.PatientSex,PatientWeight:o.PatientWeight,RadiopharmaceuticalInformationSequence:{RadionuclideTotalDose:o.RadiopharmaceuticalInformationSequence[0].RadionuclideTotalDose,RadionuclideHalfLife:o.RadiopharmaceuticalInformationSequence[0].RadionuclideHalfLife,RadiopharmaceuticalStartTime:o.RadiopharmaceuticalInformationSequence[0].RadiopharmaceuticalStartTime,RadiopharmaceuticalStartDateTime:o.RadiopharmaceuticalInformationSequence[0].RadiopharmaceuticalStartDateTime}}},createNewLabelmapFromPT:async({label:e})=>{const{viewportMatchDetails:t}=i.getMatchDetails(),n=f.getMatchingPTDisplaySet({viewportMatchDetails:t});let o=null;for(const[e,{displaySetsInfo:a}]of t.entries()){if(a.some(({displaySetInstanceUID:e})=>e===n.displaySetInstanceUID)){o=e;break}}if(!n)return void a.error("No matching PT display set found");const s=l.getSegmentationRepresentations(o),c=r.getDisplaySetByUID(n.displaySetInstanceUID),u=await l.createLabelmapForDisplaySet(c,{label:`Segmentation ${s.length+1}`,segments:{1:{label:`${ae().t("Segment")} 1`,active:!0}}});return l.addSegmentationRepresentation(o,{segmentationId:u}),u},thresholdSegmentationByRectangleROITool:({segmentationId:e,config:t,segmentIndex:n})=>{const o=ie.segmentation.state.getSegmentation(e),{representationData:s}=o,{displaySetMatchDetails:c}=i.getMatchDetails(),l=c.get("ctDisplaySet"),u=c.get("ptDisplaySet"),p=r.getDisplaySetByUID(l.displaySetInstanceUID),d=r.getDisplaySetByUID(u.displaySetInstanceUID),{volumeId:f}=s[we.Labelmap],g=me.cache.getVolume(f),y=m(Re);if(0===y.length)return void a.show({title:"Commands Module",message:"No ROIThreshold Tool is Selected",type:"error"});const{ptLower:h,ptUpper:v,ctLower:S,ctUpper:I}=ge(y,d,t),{imageIds:b}=d,T=me.cache.getVolumeContainingImageId(b[0]);if(!T)return void a.error("No PT volume found");const{imageIds:w}=p,E=me.cache.getVolumeContainingImageId(w[0]);if(!E)return void a.error("No CT volume found");const x=T.volume,R=E.volume;return ie.utilities.segmentation.rectangleROIThresholdVolumeByRange(y,g,[{volume:x,lower:h,upper:v},{volume:R,lower:S,upper:I}],{overwrite:!0,segmentIndex:n,segmentationId:e})},calculateTMTV:async({segmentations:e})=>{const t=e.map(e=>e.segmentationId),n=await ie.utilities.segmentation.computeMetabolicStats({segmentationIds:t,segmentIndex:1});return l.setSegmentationGroupStats(t,n),n},exportTMTVReportCSV:async({segmentations:e,tmtv:n,config:o,options:a})=>{const r=t.runCommand("getSegmentationCSVReport",{segmentations:e});let i=0;for(const e in r){i+=r[e].namedStats_lesionGlycolysis.value}const s=[{key:"Total Lesion Glycolysis",value:{tlg:i.toFixed(4)}},{key:"Threshold Configuration",value:{...o}}];void 0!==n&&s.unshift({key:"Total Metabolic Tumor Volume",value:{tmtv:n}}),function(e,t,n={}){const o=e[Object.keys(e)[0]],a=Object.keys(o),r=[a.map(e=>e.toLowerCase().startsWith("namedstats_")?e.substring(11):e).join(",")];Object.values(e).forEach(e=>{const t=[];a.forEach(n=>{t.push(e[n]&&"object"==typeof e[n]?Array.isArray(e[n])?e[n].join(" "):e[n].value&&Array.isArray(e[n].value)?e[n].value.join(" "):e[n].value??e[n]:e[n])}),r.push(t.join(","))}),r.push(""),r.push(""),r.push(""),r.push(`Patient ID,${o.PatientID}`),r.push(`Study Date,${o.StudyDate}`),r.push(""),t.forEach(({key:e,value:t})=>{const n=[];n.push(`${e}`),Object.keys(t).forEach(e=>{n.push(`${e}`),n.push(`${t[e]}`)}),r.push(n.join(","))}),ye(r.join("\n"),{filename:n.filename??`${o.PatientID}_tmtv.csv`})}(r,s,a)},setStartSliceForROIThresholdTool:()=>{const{viewport:e}=d(),{focalPoint:t}=e.getCamera(),n=m(Re)[0],o=ie.annotation.state.getAnnotation(n);o.data.startCoordinate=t,o.invalidated=!0,e.render()},setEndSliceForROIThresholdTool:()=>{const{viewport:e}=d(),t=m(Re)[0],n=ie.annotation.state.getAnnotation(t),o=e.getCamera().focalPoint;n.data.endCoordinate=o,n.invalidated=!0,e.render()},createTMTVRTReport:()=>{const e=ie.annotation.state.getAnnotationManager(),n=[];Object.keys(e.annotations).forEach(t=>{const o=e.annotations[t],a=Re.reduce((e,t)=>[...e,...o[t]??[]],[]);n.push(...a)}),t.runCommand("exportRTReportForAnnotations",{annotations:n})},getSegmentationCSVReport:({segmentations:e})=>{e&&e.length||(e=l.getSegmentations());const t={};for(const n of e){const{label:e,segmentationId:o,representationData:a}=n,r=o,i={id:r,label:e};if(!a){t[r]=i;continue}const{cachedStats:s}=n.segments[1]||{};s&&Object.entries(s).forEach(([e,t])=>{"object"!=typeof t?i[e]=t:Object.entries(t).forEach(([t,n])=>{i[`${e}_${t}`]=n})});const c=n.representationData[we.Labelmap];if(!c){t[r]=i;continue}const l=ie.utilities.segmentation.getReferenceVolumeForSegmentationVolume(c.volumeId);if(!l){t[r]=i;continue}if(!l.imageIds||!l.imageIds.length){t[r]=i;continue}const u=l.imageIds[0],p=b().classes.MetadataProvider.get("instance",u);p?t[r]={...i,PatientID:p.PatientID??"000000",PatientName:Ee(p.PatientName),StudyInstanceUID:p.StudyInstanceUID,SeriesInstanceUID:p.SeriesInstanceUID,StudyDate:p.StudyDate}:t[r]=i}return t},exportRTReportForAnnotations:({annotations:e})=>{Te(e)},setFusionPTColormap:({toolGroupId:e,colormap:n})=>{const o=s.getToolGroup(e);if(!o)return;const{viewportMatchDetails:a}=i.getMatchDetails(),r=f.getMatchingPTDisplaySet({viewportMatchDetails:a});if(!r)return;const l=o.getViewportIds(),u=[];l.forEach(e=>{t.runCommand("setViewportColormap",{viewportId:e,displaySetInstanceUID:r.displaySetInstanceUID,colormap:{name:n}}),u.push(c.getCornerstoneViewport(e))}),u.forEach(e=>{e.render()})}},g={setEndSliceForROIThresholdTool:{commandFn:f.setEndSliceForROIThresholdTool},setStartSliceForROIThresholdTool:{commandFn:f.setStartSliceForROIThresholdTool},getMatchingPTDisplaySet:{commandFn:f.getMatchingPTDisplaySet},getPTMetadata:{commandFn:f.getPTMetadata},createNewLabelmapFromPT:{commandFn:f.createNewLabelmapFromPT},thresholdSegmentationByRectangleROITool:{commandFn:f.thresholdSegmentationByRectangleROITool},calculateTMTV:{commandFn:f.calculateTMTV},exportTMTVReportCSV:{commandFn:f.exportTMTVReportCSV},createTMTVRTReport:{commandFn:f.createTMTVRTReport},getSegmentationCSVReport:{commandFn:f.getSegmentationCSVReport},exportRTReportForAnnotations:{commandFn:f.exportRTReportForAnnotations},setFusionPTColormap:{commandFn:f.setFusionPTColormap}};return{actions:f,definitions:g,defaultContext:"TMTV:CORNERSTONE"}},Ce="roi_stat";const De=function({config:e,dispatch:t,runCommand:n}){const{t:o}=$("ROIThresholdConfiguration"),a=[{value:Ce,label:o("Max"),placeHolder:o("Max")},{value:"range",label:o("Range"),placeHolder:o("Range")}];return h.createElement("div",{className:"bg-muted flex flex-col space-y-4 p-px"},h.createElement("div",{className:"flex items-end space-x-3"},h.createElement("div",{className:"flex min-w-0 flex-1 flex-col"},h.createElement(W.Select,{value:e.strategy,onValueChange:e=>{t({type:"setStrategy",payload:{strategy:e}})}},h.createElement(W.SelectTrigger,{className:"w-full"},h.createElement(W.SelectValue,{placeholder:a.find(t=>t.value===e.strategy)?.placeHolder})),h.createElement(W.SelectContent,{className:""},a.map(e=>h.createElement(W.SelectItem,{key:e.value,value:e.value},e.label))))),h.createElement("div",{className:"flex-shrink-0"},h.createElement("div",{className:"flex justify-end space-x-2"},h.createElement(W.Button,{variant:"secondary",onClick:()=>n("setStartSliceForROIThresholdTool")},o("Start")),h.createElement(W.Button,{variant:"secondary",onClick:()=>n("setEndSliceForROIThresholdTool")},o("End"))))),e.strategy===Ce&&h.createElement("div",{className:"mr-0"},h.createElement("div",{className:"mb-2"},h.createElement(W.Label,null,o("Percentage of Max SUV"))),h.createElement(W.Input,{"data-cy":"percentage-of-max-suv-input",className:"w-full",type:"text",value:e.weight,onChange:e=>{let n=e.target.value;"."===n&&(n="0."),isNaN(Number(n))||Number(n)<0||Number(n)>1||t({type:"setWeight",payload:{weight:n}})}})),e.strategy!==Ce&&h.createElement("div",{className:"mr-2 text-sm"},h.createElement("div",{className:"flex flex-col space-y-2"},h.createElement(W.Label,null,o("Lower & Upper Ranges")),h.createElement("div",{className:"flex items-center"},h.createElement("div",{className:"w-10 text-left"},h.createElement(W.Label,null,"CT")),h.createElement("div",{className:"flex flex-1 space-x-2"},h.createElement("div",{className:"flex-1"},h.createElement(W.Input,{className:"w-full",type:"text",value:e.ctLower,onChange:e=>{t({type:"setThreshold",payload:{ctLower:e.target.value}})}})),h.createElement("div",{className:"flex-1"},h.createElement(W.Input,{className:"w-full",type:"text",value:e.ctUpper,onChange:e=>{t({type:"setThreshold",payload:{ctUpper:e.target.value}})}})))),h.createElement("div",{className:"flex items-center"},h.createElement("div",{className:"w-10 text-left"},h.createElement(W.Label,null,"PT")),h.createElement("div",{className:"flex flex-1 space-x-2"},h.createElement("div",{className:"flex-1"},h.createElement(W.Input,{className:"w-full",type:"text",value:e.ptLower,onChange:e=>{t({type:"setThreshold",payload:{ptLower:e.target.value}})}})),h.createElement("div",{className:"flex-1"},h.createElement(W.Input,{className:"w-full",type:"text",value:e.ptUpper,onChange:e=>{t({type:"setThreshold",payload:{ptUpper:e.target.value}})}})))))))},Ne=Ce;function Me(e,t){const{payload:n}=t,{strategy:o,ctLower:a,ctUpper:r,ptLower:i,ptUpper:s,weight:c}=n;switch(t.type){case"setStrategy":return{...e,strategy:o};case"setThreshold":return{...e,ctLower:a||e.ctLower,ctUpper:r||e.ctUpper,ptLower:i||e.ptLower,ptUpper:s||e.ptUpper};case"setWeight":return{...e,weight:c};default:return e}}const Pe=function(){const{commandsManager:e}=(0,I.useSystem)(),t=(0,K.useSegmentations)()[0],{t:n}=$("ROIThresholdConfiguration"),o=(0,h.useCallback)((t,n={})=>e.runCommand(t,n),[e]),[a,r]=(0,h.useReducer)(Me,{strategy:Ne,ctLower:-1024,ctUpper:1024,ptLower:2.5,ptUpper:100,weight:.41}),i=(0,h.useCallback)(()=>{if(!t)return;const e=t.segmentationId,n=ie.segmentation.segmentIndex.getActiveSegmentIndex(e);o("thresholdSegmentationByRectangleROITool",{segmentationId:e,config:a,segmentIndex:n})},[t,a]);return h.createElement("div",{className:"invisible-scrollbar mb-1 flex flex-col overflow-y-auto overflow-x-hidden"},h.createElement(De,{config:a,dispatch:r,runCommand:o}),t&&h.createElement(W.Button,{variant:"default",className:"my-3 mr-auto w-20",onClick:i},n("Run")))};const Le={id:e,preRegistration({servicesManager:e,commandsManager:t,extensionManager:n,configuration:o={}}){!function({servicesManager:e}){const{measurementService:t,displaySetService:n,cornerstoneViewportService:o}=e.services;(0,ie.addTool)(ie.RectangleROIStartEndThresholdTool),(0,ie.addTool)(ie.CircleROIStartEndThresholdTool);const{RectangleROIStartEndThreshold:a,CircleROIStartEndThreshold:r}=ue(t,n,o),i=t.getSource(pe,de);t.addMapping(i,"RectangleROIStartEndThreshold",a.matchingCriteria,a.toAnnotation,a.toMeasurement),t.addMapping(i,"CircleROIStartEndThreshold",r.matchingCriteria,r.toAnnotation,r.toMeasurement)}({servicesManager:e,commandsManager:t,extensionManager:n,configuration:o})},getToolbarModule:function(){return[{name:"tmtv.RectangleROIThresholdOptions",defaultComponent:Pe}]},getPanelModule:re,getHangingProtocolModule:y,getCommandsModule:({servicesManager:e,commandsManager:t,extensionManager:n})=>Oe({servicesManager:e,commandsManager:t,extensionManager:n})},Ue=Le})(),f})());
package/package.json CHANGED
@@ -1,6 +1,6 @@
1
1
  {
2
2
  "name": "@ohif/extension-tmtv",
3
- "version": "3.13.0-beta.13",
3
+ "version": "3.13.0-beta.15",
4
4
  "description": "OHIF extension for Total Metabolic Tumor Volume",
5
5
  "author": "OHIF",
6
6
  "license": "MIT",
@@ -30,8 +30,8 @@
30
30
  "test:unit:ci": "jest --ci --runInBand --collectCoverage --passWithNoTests"
31
31
  },
32
32
  "peerDependencies": {
33
- "@ohif/core": "3.13.0-beta.13",
34
- "@ohif/ui": "3.13.0-beta.13",
33
+ "@ohif/core": "3.13.0-beta.15",
34
+ "@ohif/ui": "3.13.0-beta.15",
35
35
  "dcmjs": "0.49.4",
36
36
  "dicom-parser": "1.8.21",
37
37
  "hammerjs": "2.0.8",