XNAT Connection

[Braisly]

Hi!

I would like to know how it is possible the connection with XNAT. I see the way to connect to Orthanc but no way to see the solution for XNAT. Could you help me on that?

Great work with bluelight!

[cylien]

We did not wrap this feature as an XNAT plugin. So we will release a document to describe how to integrate BlueLight into XANT. We replaced the DICOM web protocol with XNAT API so that users can open the DICOM file stored in an XNAT repository.

[Braisly]

Thank you @cylien look forward to see the updates.

[cylien]

1. Step1: copy BlueLight to XNAT deployment folder
2. Step 2: modified the function downloadSelectedScans in XNAT source code: "\scripts\xnat\app\scanTable\scanTable.js",

    // download all selected scans
    function downloadSelectedScans(){
        var selectedScans = [];
        scanTable.dataTable$.find('input.selectable-select-one:checked').each(function(){
            selectedScans.push(this.value);
        });    
        /* add those two lines to open a new windows with XNAT API  */ 
        var url = "/bluelight/html/start.html?experiments=" + exptId + "&scans=" + scanId + "&format=json";
        window.open(url);
        downloadIframe(url);
    }

3. Step 3 : add codes to deal with XNAT API in BlueLight (code should be refined)

function readXNATRequest() {
  var experiments = (getQueryVariable('experiments'));
  var scans = (getQueryVariable('scans'));
  var format = (getQueryVariable('format'));
  if (experiments != false && scans != false && format != false) {
    var url = window.location.protocol + "//" + window.location.hostname + ":" + window.location.port + "/data/experiments/"
      + experiments + "/scans/" + scans + "/files/" + "?format=json";
    readJson2(url);
  }
}

function readJson2(url) {
  var requestURL = url;
  var request = new XMLHttpRequest();
  request.open('GET', requestURL);
  request.responseType = 'json';
  request.send();
  request.onload = function () {
    var superHeroes = request.response;
    for (var i = 0; i < superHeroes["ResultSet"]["Result"].length; i++) {
      if (superHeroes["ResultSet"]["Result"][i]["collection"] == "DICOM") {
        var uri = window.location.protocol + "//" + window.location.hostname + ":" + window.location.port + superHeroes["ResultSet"]["Result"][i]["URI"];
        url = "wadouri:" + uri;
        series = virtualLoadImage(url, 0);  // launch viewer, should be refined.
      }
    }
  }
}

[cylien]

add xnat.js as a plugin for this issue. 137ac44 Step1: copy BlueLight to XNAT deployment folder Step2: type URL: https://{XNAT's hostname}/bluelight/search/html/start.html?experiments={XNAT expID}&scans={scanID}&format=json

BlueLight will query the XNAT's API to get the XML and retrieve the DICOM stored in experiments and its scans.

http://{XNAT's hostname}/REST/projects/test/subjects/XNAT_S00001/experiments/XNAT_E00002/scans/1/files?format=json

the XML looks like

[cylien]

Here is a video for the integration of BlueLight with XNAT

We add the following two lines in the function of displayScanDetails in ScanTable.js i.e., in "scripts/xnat/app/scanTable" of the XNAT.

// inline scan table functions
    scanTable.displayScanDetails = function(scanId){

        if (!scanId) return false;

        var BLurl = "/bluelight/bluelight/html/start.html?experiments=" + exptId + "&scans=" + scanId + "&format=json";
        window.open(BLurl);
...