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index.html
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<!DOCTYPE html>
<html style="height: 100%; margin: 0;">
<head>
<!-- Global site tag (gtag.js) - Google Analytics -->
<script async src="https://www.googletagmanager.com/gtag/js?id=UA-128060564-9"></script>
<script>
var host = window.location.hostname;
if (host != 'localhost') {
window.dataLayer = window.dataLayer || [];
function gtag() {
dataLayer.push(arguments);
}
gtag('js', new Date());
gtag('config', 'UA-128060564-9');
}
</script>
<title>Viewer</title>
<meta charset="utf-8">
<meta name="viewport" content="width=device-width">
<!--jquery -->
<script src="https://code.jquery.com/jquery-3.3.1.js"></script>
<!-- bootstrap -->
<link rel="stylesheet" href="viewer/js/lib/css/bootstrap.min.css">
<script src="viewer/js/lib/js/bootstrap.min.js"></script>
<!-- keen.io -->
<!-- <link rel="stylesheet" href="viewer/js/lib/css/keen-dashboards.css">-->
<!-- <script src="viewer/js/lib/js/keen.min.js"></script>-->
<!--d3 -->
<script src='https://d3js.org/d3.v4.min.js'></script>
<!-- leaflet v 1.0.3 -->
<link rel="stylesheet" href="https://unpkg.com/[email protected]/dist/leaflet.css"/>
<script src="https://unpkg.com/[email protected]/dist/leaflet-src.js"></script>
<!-- leaflet-pip v1.1.0 -->
<script src="viewer/js/lib/js/leaflet-pip.js"></script>
<!-- <!– leaflet.textpath –>-->
<!-- <script src='viewer/js/lib/js/leaflet.textpath.js'></script>-->
<!-- topojson -->
<script src="https://unpkg.com/topojson@3"></script>
<!-- turf -->
<script src="https://cdnjs.cloudflare.com/ajax/libs/Turf.js/5.1.5/turf.min.js"></script>
<!-- datatables -->
<link rel="stylesheet" href="https://cdn.datatables.net/1.10.19/css/jquery.dataTables.min.css">
<script src="https://cdn.datatables.net/1.10.19/js/jquery.dataTables.min.js"></script>
<!-- I think this Pixi.js and PixiOverlay.js in one file?? -->
<script src="viewer/js/lib/js/pixiOverlay/example.min.js"></script>
<script src="viewer/js/lib/js/pixiOverlay/tools.min.js"></script>
<script src="viewer/js/lib/js/pixiOverlay/MarkerContainer.js"></script>
<script src="viewer/js/lib/js/pixiOverlay/bezier-easing.js"></script>
<!-- leaflet Coordinates v0.1.3 -->
<link rel="stylesheet" href="viewer/js/lib/css/Leaflet.Coordinates-0.1.3.css"/>
<script src="viewer/js/lib/js/Leaflet.Coordinates-0.1.3.src.js"></script>
<!-- kdbush -->
<script src="https://unpkg.com/[email protected]/kdbush.min.js"></script>
<!-- mapbox-gl -->
<script src="https://api.mapbox.com/mapbox-gl-js/v1.10.1/mapbox-gl.js"></script>
<!-- leaflet.textpath -->
<!-- Not sure what is happening here. Is this getting overriden if I move it to another line, higher up. -->
<!-- No errors are being raised, it just looks as if the browser hasnt parsed it!-->
<script src='viewer/js/lib/js/leaflet.textpath.js'></script>
<!-- <!– progressbar –>-->
<!-- <script src="https://rawgit.com/kimmobrunfeldt/progressbar.js/1.0.0/dist/progressbar.js"></script>-->
<!-- <!– Loading bar –>-->
<!-- <link rel="stylesheet" href="viewer/js/lib/css/loading-bar.css">-->
<!-- <script src="viewer/js/lib/js/loading-bar.js"></script>-->
<!-- user js scripts -->
<script> console.log('reading source files')</script>
<script src='viewer/js/config.js'></script>
<script src='viewer/js/dataLoader.js'></script>
<script src='viewer/js/viewerUtils.js'></script>
<script src='viewer/js/customControl.js'></script>
<script src="https://api.mapbox.com/mapbox-gl-js/v1.10.1/mapbox-gl.js"></script>
<script src='viewer/js/my_collision.js'></script>
<script src='viewer/js/donut.js'></script>
<script src='viewer/js/dt.js'></script>
<script src='viewer/js/stage_polygons.js'></script>
<script src='viewer/js/stage_markers_patched.js'></script>
<script src='viewer/js/stage_glyphs.js'></script>
<script src="viewer/js/classColors.js"></script>
<script src="viewer/js/glyphPaths.js"></script>
<script src="viewer/js/glyphs.js"></script>
<script src="viewer/js/glyphConfig.js"></script>
<script src='viewer/js/dapi.js'></script>
<link rel="stylesheet" href="viewer/js/lib/css/L.Control.Layers.Tree.css">
<script src="viewer/js/lib/js/L.Control.Layers.Tree.js"></script>
<!-- Patched Control.Layers.Tree: Must be parsed after dapi.js -->
<link rel="stylesheet" href="viewer/css/progress.css">
<script src='viewer/js/progress.js'></script>
<link rel='stylesheet' href='viewer/css/index.css'>
<script src='viewer/js/index.js'></script>
<script src='viewer/js/app.js'></script>
<script> console.log('source files parsed')</script>
</head>
<body style="height: 100%; margin: 0; overflow: hidden;">
<div id="webgl" class="map-content">
<span class="greenDot"> </span>
<span style="margin-top: 5px;">Hardware acceleration is enable</span>
</div>
<!--<div id="preloader" class="a" style="font-size:32px;text-align:center;">-->
<!-- <h1>Prototype viewer for high throughput in situ transcriptomics.</h1>-->
<!-- <p>Data can take a moment to load, please be patient </p>-->
<!-- <div class="b">Please set your browser to use hardware acceleration. <br>-->
<!-- Tested on Chrome under Windows, cannot yet guarantee operation on other browsers </div>-->
<!-- <div id="status"></div>-->
<!--</div>-->
<div id="stats-container" class="stack-top">
<!-- <div id="chart"></div>-->
<div class="loading">
<div id="container"></div>
<div id="loading" class="loading"><span>loading...</span></div>
<div id="loading_perc" class="loading"><span>loading...</span></div>
<div id="loading_mb" class="loading"><span>loading...</span></div>
<div id="done" class="loading"><span></span></div>
</div>
</div>
<div class="container-fluid aligned-middle stack-top" id="preloader">
<div class="row">
<div class="col-sm-12">
<div class="col-sm-4">
<div class="row">
<div id="specificChart" class="donut-size">
<div class="pie-wrapper">
<span class="label">
<span class="num">0</span><span class="smaller">%</span>
</span>
<div class="pie">
<div class="left-side half-circle"></div>
<div class="right-side half-circle"></div>
</div>
<div class="shadow"></div>
</div>
</div>
</div>
<div class="row">
<div class="text-center">
<p>Num of boundaries: <span id="datapoints" class="meter">0</span></p>
<p>Size: <span id="mb" class="meter">0MB</span></p>
</div>
</div>
</div>
<div class="col-sm-4">
<div class="row">
<div id="specificChart2" class="donut-size">
<div class="pie-wrapper">
<span class="label">
<span class="num">0</span><span class="smaller">%</span>
</span>
<div class="pie">
<div class="left-side half-circle"></div>
<div class="right-side half-circle"></div>
</div>
<div class="shadow"></div>
</div>
</div>
</div>
<div class="row">
<div class="text-center">
<p>Num of cells: <span id="datapoints2" class="meter">0</span></p>
<p>Size: <span id="mb2" class="meter">0MB</span></p>
</div>
</div>
</div>
<div class="col-sm-4">
<div class="row">
<div id="specificChart3" class="donut-size">
<div class="pie-wrapper">
<span class="label">
<span class="num">0</span><span class="smaller">%</span>
</span>
<div class="pie">
<div class="left-side half-circle"></div>
<div class="right-side half-circle"></div>
</div>
<div class="shadow"></div>
</div>
</div>
</div>
<div class="row">
<div class="text-center">
<p>Num of spots: <span id="datapoints3" class="meter">0</span></p>
<p>Size: <span id="mb3" class="meter">0MB</span></p>
</div>
</div>
</div>
</div>
</div>
<div class="row">
<div class="col-sm-12" id="wait_chart">
Building the chart. Please wait...
</div>
<script>$('#wait_chart').hide()</script>
</div>
</div>
<div id="mymap" style="height: 100%; width: 100%;">
<div class="legend geometry top center hide">
<div class="wrapper">
<div class="content"></div>
</div>
</div>
<div id="mydropdown" class="dropdown map-content" >
<button type="button" class="btn btn-primary dropdown-toggle" data-toggle="dropdown">
Select Data
<span class="caret"></span>
</button>
<div class="dropdown-menu">
<!-- <li><a class="dropdown-item" href="#" onclick='dispatcher("dummy")'>dummy</a></li> -->
<li><a class="dropdown-item" href="#" onclick='dispatcher("MsBrain_Eg1_VS6_JH_V6_region_0")'>MsBrain_Eg1_VS6_JH_V6_region_0</a></li>
<li><a class="dropdown-item" href="#" onclick='dispatcher("MsBrain_Eg1_VS6_JH_V6_region_1")'>MsBrain_Eg1_VS6_JH_V6_region_1</a></li>
<li><a class="dropdown-item" href="#" onclick='dispatcher("MsBrain_Eg2_VS6_V11_JH_region_0")'>MsBrain_Eg2_VS6_V11_JH_region_0</a></li>
<li><a class="dropdown-item" href="#" onclick='dispatcher("MsBrain_Eg2_VS6_V11_JH_region_1")'>MsBrain_Eg2_VS6_V11_JH_region_1</a></li>
<li><a class="dropdown-item" href="#" onclick='dispatcher("MsBrain_Eg3_VS6_JH_V6_region_0")'>MsBrain_Eg3_VS6_JH_V6_region_0</a></li>
<li><a class="dropdown-item" href="#" onclick='dispatcher("MsBrain_Eg3_VS6_JH_V6_region_1")'>MsBrain_Eg3_VS6_JH_V6_region_1</a></li>
<li><a class="dropdown-item" href="#" onclick='dispatcher("MsBrain_EG4_VS6library_V6_LH_region_0")'>MsBrain_EG4_VS6library_V6_LH_region_0</a></li>
<li><a class="dropdown-item" href="#" onclick='dispatcher("MsBrain_EG4_VS6library_V6_LH_region_1")'>MsBrain_EG4_VS6library_V6_LH_region_1</a></li>
<li><a class="dropdown-item" href="#" onclick='dispatcher("MsBrain_Eg5_VS6_JH_V6_region_0")'>MsBrain_Eg5_VS6_JH_V6_region_0</a></li>
<li><a class="dropdown-item" href="#" onclick='dispatcher("MsBrain_Eg5_VS6_JH_V6_region_1")'>MsBrain_Eg5_VS6_JH_V6_region_1</a></li>
<li><a class="dropdown-item" href="#" onclick='dispatcher("VS6_MsBrain_B3_VS6library_V10_LH_02-07-21_region_0")'>VS6_MsBrain_B3_VS6library_V10_LH_region_0</a></li>
<li><a class="dropdown-item" href="#" onclick='dispatcher("VS6_MsBrain_B3_VS6library_V10_LH_02-07-21_region_1")'>VS6_MsBrain_B3_VS6library_V10_LH_region_1</a></li>
<li><a class="dropdown-item" href="#" onclick='dispatcher("MsBrain_ZM0_VS6_JH_V6_05-15-2021_region_0")'>MsBrain_ZM0_VS6_JH_V6_region_0</a></li>
<li><a class="dropdown-item" href="#" onclick='dispatcher("MsBrain_ZM1_VS6_JH_V11_05-16-2021_region_0")'>MsBrain_ZM1_VS6_JH_V11_region_0</a></li>
<li><a class="dropdown-item" href="#" onclick='dispatcher("MsBrain_ZM2_VS6_JH_V11_05-15-2021_region_0")'>MsBrain_ZM2_VS6_JH_V11_region_0</a></li>
<li><a class="dropdown-item" href="#" onclick='dispatcher("MsBrain_ZM3_VS6_JH_V11_05-17-2021_region_0")'>MsBrain_ZM3_VS6_JH_V11_region_0</a></li>
<li><a class="dropdown-item" href="#" onclick='dispatcher("MsBrain_ZM4_VS6_JH_V11_05-11-2021_region_0")'>MsBrain_ZM4_VS6_JH_V11_region_0</a></li>
<li><a class="dropdown-item" href="#" onclick='dispatcher("MsBrain_ZM5.1_VS6_JH_V11_05-12-2021_region_0")'>MsBrain_ZM5.1_VS6_JH_V11_region_0</a></li>
<li><a class="dropdown-item" href="#" onclick='dispatcher("MsBrain_ZM5.2_VS6_JH_V6_05-13-2021_region_0")'>MsBrain_ZM5.2_VS6_JH_V6_region_0</a></li>
<li><a class="dropdown-item" href="#" onclick='dispatcher("MsBrain_ZM6.1_VS6_V6_JH_05-11-2021_region_0")'>MsBrain_ZM6.1_VS6_V6_JH_region_0</a></li>
<li><a class="dropdown-item" href="#" onclick='dispatcher("MsBrain_ZM7.1_VS6_V6_JH_05-12-2021_region_0")'>MsBrain_ZM7.1_VS6_V6_JH_region_0</a></li>
<li><a class="dropdown-item" href="#" onclick='dispatcher("VS6MsBrain_F5_VS6libary_V10_LH_03-17-21_region_0")'>VS6MsBrain_F5_VS6libary_V10_LH_03-17-21_region_0</a></li>
<li><a class="dropdown-item" href="#" onclick='dispatcher("VS6MsBrain_F5_VS6libary_V10_LH_03-17-21_region_1")'>VS6MsBrain_F5_VS6libary_V10_LH_03-17-21_region_1</a></li>
<li><a class="dropdown-item" href="#" onclick='dispatcher("VS6_MsBrain_A3_VS6library_V3_LH_02-07-21_region_0")'>VS6_MsBrain_A3_VS6library_V3_LH_02-07-21_region_0</a></li>
<li><a class="dropdown-item" href="#" onclick='dispatcher("VS6MsBrain_C1_VS6libary_V3_LH_03-14-21_region_0")'>VS6MsBrain_C1_VS6libary_V3_LH_03-14-21_region_0</a></li>
<li><a class="dropdown-item" href="#" onclick='dispatcher("VS6MsBrain_C1_VS6libary_V3_LH_03-14-21_region_1")'>VS6MsBrain_C1_VS6libary_V3_LH_03-14-21_region_1</a></li>
<li><a class="dropdown-item" href="#" onclick='dispatcher("VS6MsBrain_C2_VS6libary_V1_LH_03-14-21_region_0")'>VS6MsBrain_C2_VS6libary_V1_LH_03-14-21_region_0</a></li>
<li><a class="dropdown-item" href="#" onclick='dispatcher("VS6MsBrain_C2_VS6libary_V1_LH_03-14-21_region_1")'>VS6MsBrain_C2_VS6libary_V1_LH_03-14-21_region_1</a></li>
<li><a class="dropdown-item" href="#" onclick='dispatcher("VS6MsBrain_F1_VS6libary_V10_LH_03-19-21_region_0")'>VS6MsBrain_F1_VS6libary_V10_LH_03-19-21_region_0</a></li>
<li><a class="dropdown-item" href="#" onclick='dispatcher("VS6MsBrain_F1_VS6libary_V10_LH_03-19-21_region_1")'>VS6MsBrain_F1_VS6libary_V10_LH_03-19-21_region_1</a></li>
</div>
</div>
</div>
<div id="legend" class="map-content">
<a id="legend-link" target="_blank">Gene Panel »</a>
<script>$('#legend').hide();</script>
</div>
<div class="form-group">
<div class="map-content" id="hideDapiAndPanels">
<div class="checkbox" style="margin-top: 1px; margin-bottom: 1px;">
<label>
<input id="dapiToggle" onclick=dapiConfig.toggleMapControl.update(this.checked); type="checkbox">
Hide Dapi
</label>
</div>
<div class="checkbox panelsToggle" style="margin-top: 1px; margin-bottom: 1px;">
<label>
<input id="panelsToggle" onclick=hidePanels(this.checked); type="checkbox">
Hide Panels
</label>
</div>
</div>
<script>$('#hideDapiAndPanels').hide();</script>
</div>
<script>
function removePreloader() {
var statscontainer = document.getElementById("stats-container");
statscontainer.style.display = 'none';
var loader = document.getElementById("preloader");
loader.style.display = 'none';
// Hide this, i use the drop down menu in this location
document.querySelector('#webgl').style.display = 'none';
// $('#stats-container').delay(350).fadeOut('slow'); // will first fade out the loading animation
// $('#stats-container').hide()
// $('#preloader').delay(350).fadeOut(250); // will fade out the white DIV that covers the website.
// $('#preloader').hide();
// $('body').delay(350).css({'overflow': 'visible'});
}
</script>
<!--<script>-->
<!-- document.addEventListener("DOMContentLoaded", run(), false);-->
<!--</script>-->
<script>
function dispatcher(x) {
console.log('you clicked ' + x)
//save a cookie
sessionStorage['myvariable'] = x;
//reload page
location.reload(true);
}
</script>
<script>
// when document ready, show selected on dropdown
$(function() {
if (cookie){
d3.select('.dropdown-toggle').node().innerHTML = cookie + ' ';
$('.dropdown-toggle').append("<span class='caret'></span>");
}
});
</script>
</body>
</html>