feat: first commit

ImagingStudy-ImagingStudyBase.json

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+{
+  "resourceType" : "ImagingStudy",
+  "id" : "ImagingStudyBase",
+  "meta" : {
+    "profile" : ["https://twcore.mohw.gov.tw/ig/emr/StructureDefinition/ImagingStudyBase"]
+  },
+  "text" : {
+    "status" : "generated",
+    "div" : "<div xmlns=\"http://www.w3.org/1999/xhtml\"><p class=\"res-header-id\"><b>Generated Narrative: ImagingStudy ImagingStudyBase</b></p><a name=\"ImagingStudyBase\"> </a><a name=\"hcImagingStudyBase\"> </a><a name=\"ImagingStudyBase-en-US\"> </a><p><b>identifier</b>: Study instancce UID/urn:oid:2.25.284733062255854756631429402605810248731\u00a0(use:\u00a0official,\u00a0), Accession ID/2ffe0c20-50d8-49df-85f6-6452d1d201b9\u00a0(use:\u00a0official,\u00a0)</p><p><b>status</b>: Available</p><p><b>subject</b>: <a href=\"Patient-TWCorePatient.html\">胖吉 綠 (official) Male, DoB: 1987-01-01 ( National Person Identifier where the xxx is the ISO table 3166 3-character (alphabetic) country code\u00a0(use:\u00a0official,\u00a0))</a></p><p><b>started</b>: 2024-01-01 11:01:20+0300</p><p><b>endpoint</b>: <a href=\"Endpoint-MitwEndpoint.html\">Endpoint: status = active; connectionType = DICOM WADO-RS (Endpoint Connection Type#dicom-wado-rs); payloadType = ; payloadMimeType = application/dicom; address = http://localhost:8081/dicom-web</a></p><p><b>numberOfSeries</b>: 1</p><p><b>numberOfInstances</b>: 1</p><p><b>procedureReference</b>: <a href=\"Procedure-TWCoreProcedure.html\">Procedure 胸部及腹部電腦斷層掃描</a></p><p><b>procedureCode</b>: <span title=\"Codes:{https://twcore.mohw.gov.tw/ig/emr/CodeSystem/ICD-10-procedurecode BW24ZZZ}\">Computerized Tomography (CT Scan) of Chest and Abdomen</span></p><blockquote><p><b>series</b></p><p><b>uid</b>: 2.25.88017001449189502323411118737039844242</p><p><b>modality</b>: <a href=\"CodeSystem-AcquisitionModality.html#AcquisitionModality-CT\">Acquisition Modality</a> CT: Computed Tomography</p><p><b>numberOfInstances</b>: 1</p><p><b>bodySite</b>: <a href=\"http://snomed.info/id/251007\">SNOMED CT (all versions)</a> 251007: Pectoral region</p><h3>Instances</h3><table class=\"grid\"><tr><td style=\"display: none\">-</td><td><b>Uid</b></td><td><b>SopClass</b></td></tr><tr><td style=\"display: none\">*</td><td>2.25.284548087604447302186649612333159050027</td><td><a href=\"CodeSystem-DicomsopClass.html#DicomsopClass-urn.58oid.581.462.46840.4610008.465.461.464.461.461.461\">DICOM sopClass</a> urn:oid:1.2.840.10008.5.1.4.1.1.1: Computed Radiography Image Storage</td></tr></table></blockquote></div>"
+  },
+  "identifier" : [{
+    "use" : "official",
+    "type" : {
+      "coding" : [{
+        "system" : "https://twcore.mohw.gov.tw/ig/emr/CodeSystem/ImageIdentifierType",
+        "code" : "SIUID",
+        "display" : "Study instancce UID"
+      }]
+    },
+    "system" : "urn:dicom:uid",
+    "value" : "urn:oid:2.25.284733062255854756631429402605810248731"
+  },
+  {
+    "use" : "official",
+    "type" : {
+      "coding" : [{
+        "system" : "https://twcore.mohw.gov.tw/ig/emr/CodeSystem/ImageIdentifierType",
+        "code" : "ACSN",
+        "display" : "Accession ID"
+      }]
+    },
+    "system" : "http://www.moi.gov.tw/",
+    "value" : "2ffe0c20-50d8-49df-85f6-6452d1d201b9"
+  }],
+  "status" : "available",
+  "subject" : {
+    "reference" : "Patient/TWCorePatient"
+  },
+  "started" : "2024-01-01T11:01:20+03:00",
+  "endpoint" : [{
+    "reference" : "Endpoint/MitwEndpoint"
+  }],
+  "numberOfSeries" : 1,
+  "numberOfInstances" : 1,
+  "procedureReference" : {
+    "reference" : "Procedure/TWCoreProcedure"
+  },
+  "procedureCode" : [{
+    "coding" : [{
+      "system" : "https://twcore.mohw.gov.tw/ig/emr/CodeSystem/ICD-10-procedurecode",
+      "code" : "BW24ZZZ",
+      "display" : "Computerized Tomography (CT Scan) of Chest and Abdomen"
+    }]
+  }],
+  "series" : [{
+    "uid" : "2.25.88017001449189502323411118737039844242",
+    "modality" : {
+      "system" : "https://twcore.mohw.gov.tw/ig/emr/CodeSystem/AcquisitionModality",
+      "code" : "CT"
+    },
+    "numberOfInstances" : 1,
+    "bodySite" : {
+      "system" : "http://snomed.info/sct",
+      "code" : "251007",
+      "display" : "Pectoral region"
+    },
+    "instance" : [{
+      "uid" : "2.25.284548087604447302186649612333159050027",
+      "sopClass" : {
+        "system" : "https://twcore.mohw.gov.tw/ig/emr/CodeSystem/DicomsopClass",
+        "code" : "urn:oid:1.2.840.10008.5.1.4.1.1.1"
+      }
+    }]
+  }]
+}

configOAuth.json

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+{
+    "enabled":true,
+    "hostname":"172.18.0.58",
+    "port":"8080",
+    "http":"http",
+    "client_id":"dcm4chee",
+    "client_secret":"v6uYKjl6UDXFhe7ebPBGwOILQ01GYRQg",
+    "endpoints":
+    {
+        "auth":"realms/mitw/protocol/openid-connect/auth",
+        "validation":"realms/mitw/protocol/openid-connect/userinfo", 
+        "token":"realms/mitw/protocol/openid-connect/token" 
+    },
+    "tokenInRequest":true
+}
+

index.html

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+<!DOCTYPE html>
+<html lang="en">
+<head>
+    <meta charset="UTF-8">
+    <meta name="viewport" content="width=device-width, initial-scale=1.0">
+    <title>DICOM Web Query</title>
+    <!-- 引入 Bootstrap CSS -->
+    <link href="https://cdn.jsdelivr.net/npm/bootstrap@5.3.0-alpha1/dist/css/bootstrap.min.css" rel="stylesheet">
+    <script src="./oauth.js"></script>
+    <script src="./main.js"></script>
+</head>
+<body class="bg-light">
+
+    <div class="container mt-5">
+        <h1 class="text-center mb-4">DICOM Web Query to FHIR ImagingStudy</h1>
+        <div class="card p-4 shadow-sm">
+            <div class="mb-3">
+                <label for="dicom-url" class="form-label">DICOM Web URL:</label>
+                <input type="text" class="form-control" id="dicom-url" placeholder="Enter DICOM Web URL"
+                value="http://172.18.0.53:10000/dcm4chee-arc/aets/DCM4CHEE/rs">
+            </div>
+
+            <div class="mb-3">
+                <label for="study-uid" class="form-label">Study Instance UID:</label>
+                <input type="text" class="form-control" id="study-uid" placeholder="Enter Study Instance UID"
+                value="1.3.46.670589.45.1.1.4993912214784.1.5436.1538560373543">
+            </div>
+
+            <button class="btn btn-primary w-100" onclick="main()">產生結果</button>
+
+            <div class="mt-4">
+                <label for="result" class="form-label">結果:</label>
+                <textarea class="form-control" id="result" rows="6" readonly></textarea>
+            </div>
+        </div>
+    </div>
+
+    <!-- 引入 Bootstrap JS 和 Popper -->
+    <script src="https://cdn.jsdelivr.net/npm/bootstrap@5.3.0-alpha1/dist/js/bootstrap.bundle.min.js"></script>
+
+
+</body>
+</html>

main.js

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+async function main() {
+
+    let imagingStudy = await loadJson("./ImagingStudy-ImagingStudyBase.json"); 
+    console.log(imagingStudy);
+    // 1. Query DICOM by StudyInstanceUID 查詢dicom
+    let studyData = await queryStudy();
+    let seriesData = await querySeries(studyData[0]['0020000D']['Value'][0]);
+    let instanceData = {};
+    for(let i = 0; i < seriesData.length; i++) {
+        instanceData[seriesData[i]['0020000E']['Value'][0]] = await queryInstances(studyData[0]['0020000D']['Value'][0], seriesData[i]['0020000E']['Value'][0]);
+    }
+    console.log(studyData);
+    console.log(seriesData);
+    console.log(instanceData);
+    // 2. Fill in the FHIR JSON using the DICOM Query Result 將dicom查詢結果填入fhir ImagingStudy
+    let resultImagingStudy = fillImagingStudy(imagingStudy,studyData,seriesData,instanceData);
+    // 3. Put the FHIR JSON Result in Textarea. 顯示結果
+    console.log(resultImagingStudy);
+    document.getElementById('result').innerText = JSON.stringify(resultImagingStudy);
+}
+
+/**
+ * DICOM to FHIR Imaging Study
+ * @param {*} imagingStudy base json
+ * @param {*} studyData 
+ * @param {*} seriesData 
+ * @param {*} instanceData 
+ * @returns imaging study result
+ */
+function fillImagingStudy(imagingStudy, studyData, seriesData, instanceData) {
+    // Fill in the study instance uid
+    imagingStudy.identifier[0].value = `urn:oid:${studyData[0]['0020000D']['Value'][0]}`;
+    // Fill in the Accession Number
+    imagingStudy.identifier[1].value = `${studyData[0]['00080050']['Value'][0]}`;
+    // Fill in the Number Of Instances
+    imagingStudy.numberOfInstances = 0;
+    for(let i = 0; i < Object.keys(instanceData).length; i++){
+        imagingStudy.numberOfInstances += instanceData[Object.keys(instanceData)[i]].length;
+    }
+    // Fill in the Number Of Series
+    imagingStudy.numberOfSeries = seriesData.length;
+
+    // Fill in the procedure code
+    imagingStudy.procedureCode = [{
+        "coding" : [{
+          "system" : "https://twcore.mohw.gov.tw/ig/emr/CodeSystem/ICD-10-procedurecode",
+          "code" : "BW24ZZZ",
+          "display" : "Computerized Tomography (CT Scan) of Chest and Abdomen"    
+        }]
+      }];
+    if(studyData[0]['00081032'] != undefined){
+        for(let i = 0; i < studyData[0]['00081032']['Value'].length; i++){
+            let thisCode = [{"coding":[]}];
+            let thisCodeData = studyData[0]['00081032']['Value'][i];
+            thisCode["coding"].push({
+                "system": "https://twcore.mohw.gov.tw/ig/emr/CodeSystem/ICD-10-procedurecode",
+                "code": thisCodeData['00080100']['Value'][0],
+                "display": thisCodeData['00080104']['Value'][0]
+            });
+        }
+    }
+
+    // Fill in the series
+    imagingStudy.series = [];
+    for(let i = 0; i < seriesData.length; i++){
+        let thisSeries = {};
+        thisSeries.uid = seriesData[i]['0020000E']['Value'][0];
+        thisSeries.modality = {
+            "system": "https://twcore.mohw.gov.tw/ig/emr/CodeSystem/AcquisitionModality",
+            "code": seriesData[i]['00080060']['Value'][0]
+        };
+        thisSeries.numberOfInstances = instanceData[thisSeries.uid].length;
+        thisSeries.instance = [];
+        for(let j = 0; j < instanceData[thisSeries.uid].length; j++){
+            thisSeries.bodySite = {
+                "system": "http://snomed.info./sct",
+                "code": "251007", // should be instance's tag 00082218.00080100
+                "display": "Pectoral region" // should be instance's tag 00082218.00080104
+            };
+
+            let thisInstance = {
+                "uid": instanceData[thisSeries.uid][j]["00080018"]['Value'][0],
+                "sopClass": {
+                    "system": "https://twcore.mohw.gov.tw/ig/emr/CodeSystem/DicomsopClass",
+                    "code": `urn:oid:${instanceData[thisSeries.uid][j]["00080016"]['Value'][0]}`
+                }
+            };
+
+            thisSeries.instance.push(thisInstance);
+
+        }
+        imagingStudy.series.push(thisSeries);
+    }
+    return imagingStudy;
+
+}
+
+/**
+ * Load OAuth config file.
+ */
+function loadJson(url) {
+    return new Promise((resolve, reject) => {
+        let config = {};
+        let requestURL = url;
+        let request = new XMLHttpRequest();
+        request.open('GET', requestURL);
+        request.responseType = 'json';
+        request.send();
+        request.onload = function () {
+            config = request.response;
+            return resolve(config);
+        }
+    });
+}
+
+// Function to query Study by StudyInstanceUID using XMLHttpRequest
+function queryStudy() {
+    return new Promise((resolve, reject) => {
+        const studyUID = document.getElementById('study-uid').value;
+        const baseUrl = document.getElementById('dicom-url').value;
+        const url = `${baseUrl}/studies?StudyInstanceUID=${studyUID}`;
+
+        const xhr = new XMLHttpRequest();
+        xhr.open('GET', url, true);
+        xhr.setRequestHeader('Accept', 'application/json');
+        xhr.onreadystatechange = function() {
+            if (xhr.readyState === 4) {
+                if (xhr.status === 200) {
+                    const response = JSON.parse(xhr.responseText);
+                    resolve(response);
+                } else {
+                    reject(`Error querying study: ${xhr.status} ${xhr.statusText}`);
+                }
+            }
+        };
+        xhr.send();
+    });
+}
+
+// Function to query Series by StudyInstanceUID using XMLHttpRequest
+function querySeries(studyUID) {
+    return new Promise((resolve, reject) => {
+        const baseUrl = document.getElementById('dicom-url').value;
+        const url = `${baseUrl}/studies/${studyUID}/series`;
+
+        const xhr = new XMLHttpRequest();
+        xhr.open('GET', url, true);
+        xhr.setRequestHeader('Accept', 'application/json');
+        xhr.onreadystatechange = function() {
+            if (xhr.readyState === 4) {
+                if (xhr.status === 200) {
+                    const response = JSON.parse(xhr.responseText);
+                    resolve(response);
+                } else {
+                    reject(`Error querying series: ${xhr.status} ${xhr.statusText}`);
+                }
+            }
+        };
+        xhr.send();
+    });
+}
+
+// Function to query Instances by SeriesInstanceUID using XMLHttpRequest
+function queryInstances(studyUID, seriesUID) {
+    return new Promise((resolve, reject) => {
+        const baseUrl = document.getElementById('dicom-url').value;
+        const url = `${baseUrl}/studies/${studyUID}/series/${seriesUID}/instances`;
+
+        const xhr = new XMLHttpRequest();
+        xhr.open('GET', url, true);
+        xhr.setRequestHeader('Accept', 'application/json');
+        xhr.onreadystatechange = function() {
+            if (xhr.readyState === 4) {
+                if (xhr.status === 200) {
+                    const response = JSON.parse(xhr.responseText);
+                    resolve(response);
+                } else {
+                    reject(`Error querying instances: ${xhr.status} ${xhr.statusText}`);
+                }
+            }
+        };
+        xhr.send();
+    });
+}