SpectrumViewer/angularCorrelations.html at gh-pages · GRIFFINCollaboration/SpectrumViewer · GitHub

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<html>
<head>
  <title>GRIFFIN Angular Correlations</title>
  <script src='scripts/HTMLImports.min.js' type="text/javascript"></script>
  <script src='scripts/mustache.js' type="text/javascript"></script>
  <script src='scripts/easeljs-0.7.0.min.js' type="text/javascript"></script>
  <script src='scripts/dygraphs.1.1.1.min.js' type="text/javascript"></script>
  <script src='scripts/regression.min.js' type="text/javascript"></script>
  <script src='scripts/gammaSpectrum.js' type="text/javascript"></script>
  <script src='scripts/fitit.js' type="text/javascript"></script>
  <script src="scripts/jquery1-11-3.min.js"></script>
  <script src="scripts/bootstrap3-3-5.min.js"></script>
  <script src="scripts/plotly-1.5.0.min.js"></script>

  <script src='scripts/helpers.js' type="text/javascript"></script>
  <script src='scripts/angularCorrelations.js' type="text/javascript"></script>
  <script src='scripts/angularCorrelations-helpers.js' type="text/javascript"></script>
  <link rel="stylesheet" type="text/css" href="css/bootstrap3-3-5.min.css">
  <link rel="stylesheet" type="text/css" href="css/custom.css">

  <!--HTML imports-->
  <link rel="shortcut icon" type="image/x-icon" href="favicon.ico">
  <link id='header' rel="import" href="templates/header/header.html">
  <link id='paginationMenu' rel="import" href="templates/paginationMenu/paginationMenu.html">
  <link id='angularCorrelationsReport' rel="import" href="templates/angularCorrelations/angularCorrelationsReport.html">
  <link id='angularCorrelationsReportTable' rel="import" href="templates/angularCorrelations/angularCorrelationsReportTable.html">
  <link id='angularCorrelationsDataReportTable' rel="import" href="templates/angularCorrelations/angularCorrelationsReportTable.html">
  <link id='angularCorrelationsWeightsReportTable' rel="import" href="templates/angularCorrelations/angularCorrelationsReportTable.html">
  <link id='angularCorrelationsFitsReportTable' rel="import" href="templates/angularCorrelations/angularCorrelationsReportTable.html">
  <link id='angularCorrelationsChiSquareReportTable' rel="import" href="templates/angularCorrelations/angularCorrelationsReportTable.html">
  <link id='plotGrid' rel="import" href="templates/plotGrid/plotGrid.html">
  <link id='plotControl' rel="import" href="templates/plotControl/plotControl.html">
  <link id='plotListLite' rel="import" href="templates/plotList/plotListLite.html">
  <link id='dataplot' rel="import" href="templates/dataplot/dataplot.html">
  <link id='footer' rel="import" href="templates/footer/footer.html">
</head>

<body>
  <div id='head'></div>
  <div id='messageDiv' class='col-md-12'>
    <div id='messageDivText'></div><div id='messageDivButton'></div>
  </div>

  <div id='progressDiv' class="container progress">
    <div id='angularCorrelationsProgress' class="progress-bar progress-bar-success progress-bar-striped" role="progressbar" aria-valuenow="0" aria-valuemin="0" aria-valuemax="100">Initializing App...
    </div>
  </div>

  <!--helpful hints-->
  <div class='col-md-6'>
    <div id='welcomeMessage' class="alert alert-warning" role="alert">
      <span class="glyphicon glyphicon-check" aria-hidden="false"></span>
      Select which detector systems to use for angular correlations.
    </div>

    <div id='fetchingMessage' class="alert alert-warning hidden" role="alert">
      <span class="glyphicon glyphicon-check" aria-hidden="true"></span>
      Initializing. Spectra are downloading, please wait...
    </div>

    <div id='readyMessage' class="alert alert-warning hidden" role="alert">
      <span class="glyphicon glyphicon-check" aria-hidden="true"></span>
      Ready to make gamma-gamma angular correlations. Please enter the two peak energies.
    </div>

    <div id='projectionsMessage' class="alert alert-warning hidden" role="alert">
      <span class="glyphicon glyphicon-check" aria-hidden="true"></span>
      Projecting the angular correlation matrices.
    </div>

    <div id='fittingMessage' class="alert alert-warning hidden" role="alert">
      <span class="glyphicon glyphicon-check" aria-hidden="true"></span>
      Fitting peaks for all angular correlation projections and singles histograms.
    </div>

    <div id='reviewMessage' class="alert alert-warning hidden" role="alert">
      <span class="glyphicon glyphicon-check" aria-hidden="true"></span>
      Review the results in the table below, and refit any troublesome peaks one at a time.
    </div>
  </div>

  <div id='error-messages-for-drop-area' class='col-md-6 error-text'></div>

  <div id="peakFitterDivContainer" class='col-md-12 hidden'>
    <div id='inputsHistosContainerDiv' class='col-md-12'>
      <div class='col-md-12'>
        <label for="inputHistogramFiles" class='col-md-4'>List of Histogram files (.tar):</label>
        <div id='histo-list-menu-div' class='col-md-4'>
          <label for="HistoListSelect">Select files to add them:</label>
        </div>
        <div class='col-md-6'>
          <textarea id="inputHistogramFiles" name="inputHistogramFiles" rows="4" cols="50"></textarea>
        </div>
      </div>
    </div>
    <div id='inputs1dContainerDiv' class='col-md-12'>
      <div class='col-md-4'>
        <label for="input1dSpectrumNames" class='col-md-12'>List of 1d spectra:</label>
        <textarea id="input1dSpectrumNames" name="input1dSpectrumNames" rows="4" cols="50"></textarea>
      </div>
      <div class='col-md-4'>
        <label for="input1dPeaks" class='col-md-12'>List of peaks to fit in all 1d spectra:</label>
        <textarea id="input1dPeaks" name="input1dPeaks" rows="4" cols="50"></textarea>
      </div>
    </div>
    <div id='inputs2dContainerDiv' class='col-md-12'>
      <div class='col-md-4'>
        <label for="input2dSpectrumNames" class='col-md-12'>List of 2d spectra:</label>
        <textarea id="input2dSpectrumNames" name="input2dSpectrumNames" rows="4" cols="50"></textarea>
      </div>
      <div class='col-md-4'>
        <label for="input2dGates" class='col-md-12'>List of gates to make projections for all 2d spectra:</label>
        <textarea id="input2dGates" name="input2dGates" rows="4" cols="50"></textarea>
      </div>
      <div class='col-md-4'>
        <label for="input2dPeaks" class='col-md-12'>List of peaks to fit in all projections:</label>
        <textarea id="input2dPeaks" name="input2dPeaks" rows="4" cols="50"></textarea>
      </div>
    </div>
  </div>

  <div id='buttonsContainerDiv' class='col-md-12'>
    <div id='launchSubmitDiv' class='col-md-6 hidden'></div>
    <div id='saveCalDiv' class='col-md-3 hidden'>
      <button type="button" class="btn btn-primary btn-lg"  id='saveCal'>
        <span class="glyphicon glyphicon-pencil" aria-hidden="true"></span> Save Cal file
      </button>
      <input id='saveCalname' type='text' value='GRIFFIN-Cal-File.cal' width='500px'></input>
    </div>
    <div id='saveCSVDiv' class='col-md-3 hidden'>
      <button type="button" class="btn btn-primary btn-lg"  id='saveCSV'>
        <span class="glyphicon glyphicon-pencil" aria-hidden="true"></span>Download results as CSV
      </button>
    </div>
    <div id='saveScriptDiv' class='col-md-3 hidden'>
      <button type="button" class="btn btn-primary btn-lg"  id='saveScript'>
        <span class="glyphicon glyphicon-pencil" aria-hidden="true"></span>Download input script
      </button>
    </div>
  </div>
</div>

<!-- Histogram Choice Div -->
<div id='histoChoiceBar' class='col-md-12'>
  <div id='histoChoiceDir' class='col-md-8'></div>
  <div id='histoChoiceSubmitDiv' class='col-md-4'></div>
</div>

<div id='detectorChoiceBar' class='col-md-12'></div>
<div id='decisionBarAuto' class='col-md-12 hidden'></div>

<div id='customPeaksContainerDiv' class='col-md-12 hidden'>
  <div class='col-md-4'>
    <label for="customInput1dPeakEnergy" class='col-md-12'>Enter a comma-separated list of peak calibrated energies for gain-matching:</label>
    <textarea id="customInput1dPeakEnergy" name="customInput1dPeakEnergy" rows="4" cols="50"></textarea>
  </div>
  <div class='col-md-4'>
    <label for="customInput1dPeakPulseHeight" class='col-md-12'>Enter a comma-separated list of peak uncalibrated centroids:</label>
    <textarea id="customInput1dPeakPulseHeight" name="customInput1dPeakPulseHeight" rows="4" cols="50"></textarea>
  </div>
  <div id='customPeaksButtonDiv' class='col-md-4'></div>
</div>

<!--user input-->

<div id='userInputParentDiv' class='col-md-12 hidden'>
  <div id='gateInputsParentDiv' class='col-md-3 hidden'>
    <h3>Gate and Peak Details</h3>
    <div id='gateInputsDiv' class="input-group">
      <div class='col-md-12'>
        <label for="gamma1Input" class="right inline"><b>Peak1 Energy:</b></label>
        <input id="gamma1Input" value="1173" min="0" max="4095" type="number" class='black-text'></input>
        <button type="button" class="btn btn-default btn-sm" id='gamma1SetLimits' engaged='0'>
          <span id='gamma1SetLimitsBadge' class="glyphicon glyphicon-equalizer" aria-hidden="true">Set Limits with Mouse</span>
        </button>
      </div>
      <div class='col-md-12'>
        <label for="gamma2Input" class="right inline"><b>Peak2 Energy:</b></label>
        <input id="gamma2Input" value="1332" min="0" max="4095" type="number" class='black-text'></input>
        <button type="button" class="btn btn-default btn-sm" id='gamma2SetLimits' engaged='0'>
          <span id='gamma2SetLimitsBadge' class="glyphicon glyphicon-equalizer" aria-hidden="true">Set Limits with Mouse</span>
        </button>
      </div>
    </div>
    <div class='col-md-12'>
      <label for="peakGateChoiceInput" class="right inline"><b>Peak used as gate:</b></label>
      <select id="peakGateChoiceInput">
        <option value=1 selected>Peak 1</option>
        <option value=2>Peak 2</option>
      </select>
    </div>
    <div class='col-md-12'>
      <button type="button" class="btn btn-default btn-sm" id='ggAngCorrProject' engaged='0'>
        <span id='gateBadge' class="glyphicon glyphicon-equalizer" aria-hidden="true">Launch the peak fitting</span>
      </button>
    </div>
  </div>


  <div id='cascadeInputsDiv' class='col-md-3 hidden'>
    <div id='cascadeInputs' class='col-md-12'>
      <!-- This form taken from http://griffincollaboration.github.io/AngularCorrelationUtility/ -->
      <form class='content' autocomplete='off'>
        <!-- even / odd -->
        <div>
          <h3>Angular Momentum Options</h3>
        </div>

        <div><b>J<sub>1</sub></b> and <b>L<sub>1b</sub>/L<sub>1a</sub> Mixing</b> will be determined.</div><div id="j1OptionsDiv"></div>

        <hr></hr>

        <!-- j2 -->
        <label for="j2" class="right inline"><b>J<sub>2</sub>:</b></label>
        <select id="j2" onchange="check_jvalues(); recalculate_L(2); recalculate();"></select>
        <div id="l2a_value"></div>
        <div id="l2b_value"></div>
        <label>L<sub>2b</sub>/L<sub>2a</sub> Mixing:</label>
        <input id='delta2-slider' type='range' min='-1' max='1' step='0.01' value='0' oninput='syncElements("delta2-slider", "mix2")' onchange='recalculate()' class='mixer'></input>
        <input id='mix2' type='number' min='-1' max='1' step='0.01' value='0' onchange='syncElements("mix2", "delta2-slider"); recalculate();' class='mixer'></input>

        <hr></hr>

        <!-- j3 -->
        <div class="col-md-6">
          <label for="j3" class="right inline"><b>J<sub>3</sub>:</b></label>
          <select id="j3" onchange="check_jvalues();recalculate_L(2);recalculate();"></select>
        </div>

        <div class="col-md-6">
          <input type="radio" id="even" name="r-group" data-toggle="button" onchange="evenA();recalculate_L(2);recalculate();" checked>
          <label class="button" for="even">Even mass</label>
          <input type="radio" id="odd" name="r-group" data-toggle="button" onchange="oddA();recalculate_L(2);recalculate();">
          <label class="button" for="odd">Odd mass</label>
        </div>

        <hr></hr>
      </form>
      <p id="error1"></p>
    </div>
  </div>


  <div id='analysisInputsDiv' class='col-md-4 hidden'>

    <div class='col-md-12'>
      <form class='content' autocomplete='off'>
        <h3>Analysis Control Options</h3>
        <label for="confidence_limit_value" class="right inline"><b>Desired confidence limit:</b></label>
        <div id="confidenceLimitValueDiv">
          <label for="99CL" class="right inline">99%</label>
          <input id='99CL' name='confidenceLimitValue' type='radio' value='2' checked></input>
          <label for="95CL" class="right inline">95%</label>
          <input id='95CL' name='confidenceLimitValue' type='radio' value='1'></input>
          <label for="90CL" class="right inline">90%</label>
          <input id='90CL' name='confidenceLimitValue' type='radio' value='0'></input>
        </div>
      </div>

      <hr></hr>

      <div class='col-md-10'>
        <label for="sysUnc" class="right inline"><b>Systematic uncertainty (added in quadrature to each data point):</b></label>
        <div id="systematicUncertaintyValueDiv">
          <input id='sysUnc' type='number' min='0' max='10' step='0.1' value='0' onchange='dataStore.systematicUncertainty=(this.value/100)'></input>%
        </div>
      </div>

      <hr></hr>

      <div class='col-md-10'>
        <label for="time_random_select_value" class="right inline"><b>Subtract time-random background:</b></label>
        <div id="timeRandomSelectValueDiv">
          <label for="TR_Auto" class="right inline">Auto (if >3%)</label>
          <input id='TR_Auto' name='time_random_select_value' type='radio' value='2' checked></input>
          <label for="TR_Yes" class="right inline">Always</label>
          <input id='TR_Yes' name='time_random_select_value' type='radio' value='1'></input>
          <label for="TR_No" class="right inline">Never</label>
          <input id='TR_No' name='time_random_select_value' type='radio' value='0'></input>
        </div>
      </div>

      <hr></hr>
    </form>
  </div>

</div>

<!-- Pagination menu Div -->
<div id='menu' class='col-md-12'></div>

<!-- Spectrum Plotting -->
<div id='plotRegion' class='sectionWrapper'>
  <div id='plotWrap' class='col-md-9 plotRegion item'>
    <div id='plottingGrid'></div>
    <div class='col-md-8' id='plotCtrl'></div>
    <div class='sectionWrapper refitButtons'>
      <div class='col-md-12'>
        <select id="refitSelect"></select>
        <button type="button" class="btn btn-default btn-lg" id='refitButton' engaged='0'>
          <span id='refitButtonBadge' class="glyphicon glyphicon-equalizer" aria-hidden="true"></span>
          <span id='refitButtonText'>Refit this Peak</span>
        </button>
      </div>
    </div>
  </div>
  <div class='col-md-2 item'>
    <div id='plotList' style='overflow-y:scroll; height:400px;'></div>
  </div>
</div>

<!-- Peak-Fitting results tables -->
<div id='resultsFitsTableRegion' class='col-md-12 hidden'>
  <div id='angularCorrelationsFits' class='col-md-12'></div>
</div>

<div id='resultsDataTableRegion' class='col-md-12 hidden'>
  <div id='angularCorrelationsFits' class='col-md-12'></div>
</div>

<div id='resultsWeightTableRegion' class='col-md-12 hidden'>
  <div id='angularCorrelationsFits' class='col-md-12'></div>
</div>

<!-- Plots -->
<div id='resultsPlotRegion' class='col-md-12'>
  <div id='dataPlotWarnings' class='col-md-12 red-text'></div>
  <div id='dataPlotMessage' class='col-md-12'></div>
  <div id='angularCorrelationsDataPlot' class='col-md-6 plotlyDiv'></div>
  <div id='angularCorrelationsChiSqPlot' class='col-md-6 plotlyDiv'></div>
  <div id='chiSquareReportTableDiv' class='row justify-content-center'>
    <h3>Results of chi-square analysis:</h3>
    <table id="chiSquareReportTable"></table>
  </div>
</div>

<div id='foot'></div>

<script>
window.addEventListener('HTMLImportsLoaded', function(e) {

  dataStore._plotGrid = new plotGrid('plottingGrid');
  dataStore._plotControl = new plotControl('plotCtrl', 'horizontal');

  dataStore.templates = prepareTemplates(['header', 'paginationMenu', 'angularCorrelationsReport', 'angularCorrelationsDataReportTable', 'angularCorrelationsWeightsReportTable', 'angularCorrelationsFitsReportTable', 'plotGrid', 'plotControl', 'plotListLite', 'dataplot', 'footer']);

  setupHeader('head', 'Angular Correlations');
  setupPaginationMenu('menu');
  dataStore._plotGrid.setup();
  dataStore._plotControl.setup();
  //set up spectrum cell
  dataStore._plotGrid.manageCellCreation(null, dataStore.plots[0]);
  setupFooter('foot');

  //don't want additional plots in this app
  deleteNode('plottingGridnewPlotButton');

  // Inject the dismiss button to the server messageDiv
  newButton = document.createElement('button');
  newButton.setAttribute('id', 'messageDivDismissButton');
  newButton.setAttribute('class', 'btn btn-default btn-lg');
  newButton.innerHTML = "Dismiss";
  newButton.onclick = function(){
    ClearErrorConnectingToAnalyzerServer();
  }.bind(newButton);
  document.getElementById('messageDivButton').appendChild(newButton);

  // Create the text input for the Histogram file directory and file inputs
  var newLabel = document.createElement("label");
  newLabel.for = 'HistoDirectoryInput';
  newLabel.innerHTML = 'Directory of Histogram files: ';
  document.getElementById('histoChoiceDir').appendChild(newLabel);

  newInput = document.createElement('input');
  newInput.id = 'HistoDirectoryInput';
  newInput.type = 'text';
  newInput.style.width = '400px';
  newInput.value = dataStore.histoFileDirectoryPath;
  newInput.onchange = function(){
    dataStore.histoFileDirectoryPath = this.value;
    getHistoFileListFromServer();
  }.bind(newInput);
  document.getElementById('histoChoiceDir').appendChild(newInput);

  // Grab the histogram list for the default directory
  getHistoFileListFromServer();
  getMidasFileListFromServer(); // The request for details follows this. Needed for adding run titles to selects

  // Set up event listener for adding run titles to selects
  listener('histoChoiceBar', 'midasFileDetailsAvailable', addTitlesToHistoListSelect);

  // Plug in the onchange functions

  document.getElementById('gamma1Input').onchange = function(){
    dataStore.gg_ang_corr_gamma1E = this.value;
  }.bind(document.getElementById('gamma1Input'));

  document.getElementById('gamma2Input').onchange = function(){
    dataStore.gg_ang_corr_gamma2E = this.value;
  }.bind(document.getElementById('gamma2Input'));

  document.getElementById('ggAngCorrProject').onclick = function(){
    dataStore.viewers[dataStore.plots[0]].clearFits(); // Clear the fits that were made during Limit setting.
    launchAngularCorrelations();
  };

  document.getElementById('gamma1SetLimits').onclick = function(){
    dataStore.viewers[dataStore.plots[0]].setAppLimitsCallback = dataStore.setAppLimitsCallback;
    delete dataStore.appLimitsStore["gateLimits"];
    dataStore.viewers[dataStore.plots[0]].setupSetAppLimitsMode("gateLimits");
    document.getElementById('gamma1SetLimitsBadge').classList.add('red-text')
  };

  document.getElementById('gamma2SetLimits').onclick = function(){
    dataStore.viewers[dataStore.plots[0]].setAppLimitsCallback = dataStore.setAppLimitsCallback;
    delete dataStore.appLimitsStore["peakLimits"];
    dataStore.viewers[dataStore.plots[0]].setupSetAppLimitsMode("peakLimits");
    document.getElementById('gamma1SetLimitsBadge').classList.add('red-text')
  };

  // initial set up of angular momentum spin option dropdowns
  // and generate initial calculation state
  evenA();
  check_jvalues();
  //recalculate_L(1);
  recalculate_L(2);
  recalculate();

  // Set up the refit button
  document.getElementById('refitButton').onclick = function(){ dataStore.currentTask = "refit"; toggleRefitMode(); }
  document.getElementById('refitButton').disabled = true; // Disabled until there are peaks to refit

  // Set up the CSV file button
  document.getElementById('saveCSV').onclick = function(){ buildCSVfile(); }

  // Set up the Script download file button
  document.getElementById('saveScript').onclick = function(){ buildScriptfile(); }

  // Create Detector choice buttons
  for(var i=0; i<dataStore.detectorChoice.length; i++){
    newButton = document.createElement('button');
    newButton.setAttribute('id', 'detectorChoice-'+dataStore.detectorChoice[i].name);
    newButton.setAttribute('class', 'btn btn-default');
    newButton.setAttribute('engaged', '0');
    newButton.value = dataStore.detectorChoice[i].name;
    newButton.innerHTML = dataStore.detectorChoice[i].title;
    newButton.onclick = function(){
      initializeAngularCorrelations(this.value);
    }.bind(newButton);
    document.getElementById('detectorChoiceBar').appendChild(newButton);
  }

  // Hide the subpage menu for now
  document.getElementById('menu').classList.add('hidden');

  $(function () {
    $('[data-toggle="tooltip"]').tooltip()
  });
});
</script>
</body>
</html>