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ellviewer.html
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ellviewer.html
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<!DOCTYPE HTML>
<html>
<head>
<title>ELL viewer</title>
<meta charset="utf-8">
<link href="https://lundberglab.stanford.edu/assets/img/favicon.png" rel="icon">
<script src="https://code.jquery.com/jquery-3.7.1.min.js" integrity="sha256-/JqT3SQfawRcv/BIHPThkBvs0OEvtFFmqPF/lYI/Cxo=" crossorigin="anonymous"></script>
<script src="https://code.jquery.com/ui/1.14.0/jquery-ui.min.js" integrity="sha256-Fb0zP4jE3JHqu+IBB9YktLcSjI1Zc6J2b6gTjB0LpoM=" crossorigin="anonymous"></script>
<script src="https://cdnjs.cloudflare.com/ajax/libs/fabric.js/5.3.1/fabric.min.js"></script>
<script src="https://cdnjs.cloudflare.com/ajax/libs/jquery-csv/1.0.40/jquery.csv.min.js"></script>
<script src="https://d3js.org/d3.v4.min.js"></script>
<link rel="stylesheet" href="https://fonts.googleapis.com/css2?family=Material+Symbols+Outlined:opsz,wght,FILL,GRAD@24,400,0,0" />
<link rel="stylesheet" type="text/css" href="https://code.jquery.com/ui/1.14.0/themes/base/jquery-ui.css">
<style>
body, html {
font-family: Arial, Verdana, sans-serif;;
background-color: #000000;
}
.content {
flex: 1 0px;
position: relative;
overflow: auto;
}
#canvas-div {
position:relative;
height: calc(100vh - 10px);
}
#canvas-wrapper {
position:absolute;
top: 0;
left: 0;
}
#canvas-image {
position:relative;
top:0;
left:0;
}
canvas, img {
image-rendering: optimizeSpeed;
image-rendering: -moz-crisp-edges;
image-rendering: -webkit-optimize-contrast;
image-rendering: optimize-contrast;
image-rendering: pixelated;
-ms-interpolation-mode: nearest-neighbor;
}
.channel-menu {
position:absolute;
top:20px;
left:calc(100vw - 555px);
color:white;
max-height: calc(100vh - 200px);
width: 500px;
overflow-x: hidden;
overflow-y: scroll;
scrollbar-width: 2px;
padding: 8px;
border-radius: 8px;
background-color: rgba(0, 0, 0, 0.75);
}
.channel-check-all {
margin-top: 13px;
margin-right: 20px;
}
.channel-exposure-all {
margin-top: 13px;
margin-right: 20px;
}
.separator {
width:100%;
border-top: 1px solid white;
}
.interactive-item {
cursor: pointer;
}
.channel-list {
display: flex;
flex-direction: column;
}
.channel-list div {
display: flex;
flex-direction: row;
}
.channel-name {
width:100%;
height: 40px;
border-bottom: 1px solid #888888;
}
.channel-download {
margin-top: 13px;
margin-left: 10px;
color:white;
}
.channel-auto {
margin-top: 13px;
margin-left: 10px;
}
.channel-check {
margin-top: 5px;
margin-right: 20px;
}
input[type="color"] {
opacity: 0;
display: block;
width: 20px;
height: 20px;
border: none;
}
#color-picker-wrapper {
margin-top: 6px;
margin-right: 5px;
width: 20px;
height: 20px;
float: left;
}
.channel-slider {
width: 100px;
margin: 15px;
margin-left: 30px;
height: 3px;
border:none !important;
}
.channel-slider .ui-widget,.ui-widget-content {
border:none !important;
}
.channel-slider .ui-slider-handle {
outline: 0;
background: white;
border-radius: 50%;
top: -8px;
border:none !important;
}
.channel-slider .ui-slider-horizontal {
top: 1em;
left: 5%;
height: .1em;
width: 90%;
border:none !important;
background: white;
}
.channel-range {
margin-top: 8px;
width: 80px;
}
.channel-delete {
margin-top: 5px;
margin-left: auto;
}
#fullscreen-indicator {
position:absolute;
top:25px;
left:calc(25px);
color:white;
display: flex;
flex-direction: column;
justify-content: center;
}
#retexturing-indicator {
position:absolute;
bottom:80px;
left:calc(100vw - 150px);
display: flex;
flex-direction: column;
justify-content: center;
}
#retexturing-indicator p {
color:#ff8800;
text-align:right;
}
#zoom-indicator {
position:absolute;
bottom:25px;
left:calc(100vw - 150px);
display: flex;
flex-direction: column;
justify-content: center;
}
#zoom-indicator p {
color:white;
text-align:left;
}
#button-wrapper {
position:absolute;
top:28px;
left:calc(100vw - 184px);
}
.button-channels {
background-color: white;
border: 2px solid #555555;
color: black;
padding: 10px 32px;
text-align: center;
text-decoration: none;
display: inline-block;
font-size: 16px;
margin: 4px 2px;
transition-duration: 0.2s;
cursor: pointer;
}
.button-channels:hover {
background-color: #555555;
color: white;
}
.button-channels-menu {
margin-left: auto;
}
.button-channels-add {
margin-left: 20px;
padding:2px 32px;
}
</style>
<body>
<div class="content">
<div id="canvas-div">
<div id="canvas-wrapper">
<canvas id="canvas-images"></canvas>
</div>
</div>
<div id="channel-menu" class="channel-menu" style="z-index:100;display:none;">
<div style="display: flex; flex-direction: row">
<span class="material-symbols-outlined channel-check-all interactive-item" title="Show/hide" onclick="toggleAllChannels(this)">check_box</span>
<span class="material-symbols-outlined channel-exposure-all interactive-item" title="Apply min/max" onclick="autoAdjustAllChannels(this)">exposure</span>
<span class="material-symbols-outlined channel-exposure-all interactive-item" title="Reset" onclick="resetAll(this)">reset_image</span>
<p style="margin-right:20px">|</p>
<p>Apply to all</p>
<button class="button-channels button-channels-menu" onclick="closeChannelMenu()">Close</button>
</div>
<div style="display: flex; flex-direction: row">
<hr class="separator"/>
</div>
<div style="display: flex; flex-direction: row">
<select id="add-channel-select">
</select>
<button class="button-channels-add" onclick="addChannel()">Add channel</button>
</div>
<div id="channel-list" class="channel-list">
</div>
</div>
<div id="button-wrapper" style="z-index:100;display:block;">
<button class="button-channels" onclick="openChannelMenu()">Channels</button>
</div>
<div id="fullscreen-indicator" style="z-index:100;">
<span class="material-symbols-outlined interactive-item" onclick="toggleFullscreen(this)">fullscreen</span>
</div>
<div id="retexturing-indicator" style="z-index:100;">
<p>Retexturing...</p>
</div>
<div id="zoom-indicator" style="z-index:100;">
<p id="zoom-value">?</p>
<hr id="zoom-bar" class="separator"/>
</div>
</div>
</body>
<script>
if (fabric.isWebglSupported()) {
fabric.textureSize = fabric.maxTextureSize;
}
function openChannelMenu() {
if (!retexturing) {
document.getElementById("channel-menu").style.display = "block";
document.getElementById("button-wrapper").style.display = "none";
}
}
function closeChannelMenu() {
if (!retexturing) {
document.getElementById("channel-menu").style.display = "none";
document.getElementById("button-wrapper").style.display = "block";
}
}
function toggleFullscreen(icon) {
if (!retexturing) {
if ($(icon).html() == "fullscreen") {
$(icon).html("fullscreen_exit");
var elem = document.documentElement;
if (elem.requestFullscreen) {
elem.requestFullscreen();
} else if (elem.webkitRequestFullscreen) { /* Safari */
elem.webkitRequestFullscreen();
} else if (elem.msRequestFullscreen) { /* IE11 */
elem.msRequestFullscreen();
}
} else {
$(icon).html("fullscreen");
var elem = document.documentElement;
if (document.exitFullscreen) {
document.exitFullscreen();
} else if (document.webkitExitFullscreen) { /* Safari */
document.webkitExitFullscreen();
} else if (document.msExitFullscreen) { /* IE11 */
document.msExitFullscreen();
}
}
}
}
function resetAll(icon) {
if (!retexturing) {
for (i = 0; i < channelImgs.length; i++) {
if (channelImgs[i] != null) {
if (channelImgs[i].csv_img_clip != "" && channelImgs[i].csv_img_clip != "no") {
channelImgs[i].v_minvalue = parseFloat(channelImgs[i].csv_img_clip.split("-")[ 0 ]) / parseFloat(bitDepth);
channelImgs[i].v_maxvalue = parseFloat(bitDepth) / parseFloat(channelImgs[i].csv_img_clip.split("-")[ 1 ]);
} else {
channelImgs[i].v_minvalue = 0.0
channelImgs[i].v_maxvalue = 1.0;
}
if (channelImgs[i].csv_img_transparency != "" && channelImgs[i].csv_img_transparency != "no") {
channelImgs[i].v_transparency = parseFloat(channelImgs[i].csv_img_transparency);
} else {
channelImgs[i].v_transparency = 1.0;
}
if (channelImgs[i].csv_img_color != "" && channelImgs[i].csv_img_color != "no") {
channelImgs[i].v_color = String(channelImgs[i].csv_img_color);
} else {
channelImgs[i].v_color = "no";
}
var sliderIntensityMin = Math.floor(channelImgs[i].v_minvalue * parseFloat(bitDepth));
var sliderIntensityMax = Math.min(bitDepth, Math.floor(parseFloat(bitDepth) / channelImgs[i].v_maxvalue));
$( "#sliderChannelIntensity" + (i + 1) ).slider( "option", "values", [ sliderIntensityMin, sliderIntensityMax ] );
$( "#sliderChannelIntensityValue" + (i + 1) ).html( sliderIntensityMin + " - " + sliderIntensityMax);
var sliderTransparencyValue = Math.floor(channelImgs[i].v_transparency * 100.0);
$( "#sliderChannelTransparency" + (i + 1) ).slider( "option", "value", sliderTransparencyValue );
$( "#sliderChannelTransparencyValue" + (i + 1) ).html( sliderTransparencyValue + "%");
adjustImage(channelImgs[i]);
}
if (resolution != null) {
if (channelImgsTiles[i] != null) {
for (j = 0; j < channelImgsTiles[i].length; j++) {
if (channelImgsTiles[i][j] != null) {
channelImgsTiles[i][j].v_minvalue = channelImgs[i].v_minvalue;
channelImgsTiles[i][j].v_maxvalue = channelImgs[i].v_maxvalue;
channelImgsTiles[i][j].v_transparency = channelImgs[i].v_transparency;
channelImgsTiles[i][j].v_color = channelImgs[i].v_color;
adjustImage(channelImgsTiles[i][j]);
}
}
}
}
}
var oImg = channelImgs[numImages - 1];
var imgWidth = resolution == null ? oImg.width : resolution[0];
var imgHeight = resolution == null ? oImg.height : resolution[1];
var finalZoom = Math.min(canvas.height / imgHeight, canvas.width / imgWidth);
calculateZoomIndicator(finalZoom);
canvas.setZoom(finalZoom);
var vpt = canvas.viewportTransform;
vpt[4] = canvas.height / imgHeight < canvas.width / imgWidth ? (canvas.width / 2) * finalZoom : 0;
vpt[5] = canvas.height / imgHeight > canvas.width / imgWidth ? (canvas.height / 2) * finalZoom : 0;
canvas.renderAll();
}
}
function calculateZoomIndicator(zoomLevel) {
if (pixelToMicron != 0) {
var microns = (10 / zoomLevel) * pixelToMicron;
var magnitude = Math.floor(Math.log(microns) / Math.LN10 + 0.000000001);
$("#zoom-value").html(Math.pow(10, magnitude + 1) + "µ");
$("#zoom-bar").css("width", parseInt(Math.pow(10, magnitude + 2) / microns) + "px");
} else {
$("#zoom-value").html(Math.floor(zoomLevel * 100) + "%");
$("#zoom-bar").css("display", "none");
}
}
function toggleAllChannels(checkbox) {
if (!retexturing) {
if ($(checkbox).html() == "check_box_outline_blank") {
$(checkbox).html("check_box");
for (i = 0; i < channelImgs.length; i++) {
if (channelImgs[i] != null) {
channelImgs[i].opacity = 1;
if (resolution != null) {
if (channelImgsTiles[i] != null && channelImgsLevel[i] != maxzdim) {
channelImgs[i].opacity = 0;
var currChannelLevel = channelImgsLevel[i];
var pyramidIndex = 0;
if (currChannelLevel > 0) {
var currzdim = maxzdim;
while (currChannelLevel * 2 < currzdim) {
currzdim = currzdim / 2;
pyramidIndex = pyramidIndex + 1;
}
} else {
pyramidIndex = 4;
}
for (x = 0; x < pyramidInfo[pyramidIndex][0]; x++) {
for (y = 0; y < pyramidInfo[pyramidIndex][0]; y++) {
tile_index = pyramidInfo[pyramidIndex][1] + x * pyramidInfo[pyramidIndex][0] + y;
if (channelImgsTiles[i][tile_index] != null) {
channelImgsTiles[i][tile_index].opacity = 1.0;
}
}
}
}
}
$("#checkChannel" + (i + 1)).html("check_box");
}
}
canvas.renderAll();
} else {
$(checkbox).html("check_box_outline_blank");
for (i = 0; i < channelImgs.length; i++) {
if (channelImgs[i] != null) {
channelImgs[i].opacity = 0;
if (resolution != null) {
if (channelImgsTiles[i] != null) {
for (j = 0; j < channelImgsTiles[i].length; j++) {
if (channelImgsTiles[i][j] != null) {
channelImgsTiles[i][j].opacity = 0;
}
}
}
}
$("#checkChannel" + (i + 1)).html("check_box_outline_blank");
}
}
canvas.renderAll();
}
}
}
function toggleChannel(checkbox, index) {
if (!retexturing) {
if ($(checkbox).html() == "check_box_outline_blank") {
$(checkbox).html("check_box");
channelImgs[index - 1].opacity = 1;
if (resolution != null) {
var currChannelLevel = channelImgsLevel[index - 1];
if (currChannelLevel != null && currChannelLevel != maxzdim) {
channelImgs[index - 1].opacity = 0;
var pyramidIndex = 0;
if (currChannelLevel > 0) {
var currzdim = maxzdim;
while (currChannelLevel * 2 < currzdim) {
currzdim = currzdim / 2;
pyramidIndex = pyramidIndex + 1;
}
} else {
pyramidIndex = 4;
}
for (x = 0; x < pyramidInfo[pyramidIndex][0]; x++) {
for (y = 0; y < pyramidInfo[pyramidIndex][0]; y++) {
tile_index = pyramidInfo[pyramidIndex][1] + x * pyramidInfo[pyramidIndex][0] + y;
if (channelImgsTiles[index - 1][tile_index] != null) {
channelImgsTiles[index - 1][tile_index].opacity = 1.0;
}
}
}
}
}
canvas.renderAll();
} else {
$(checkbox).html("check_box_outline_blank");
channelImgs[index - 1].opacity = 0;
if (resolution != null) {
if (channelImgsTiles[index - 1] != null) {
for (j = 0; j < channelImgsTiles[index - 1].length; j++) {
if (channelImgsTiles[index - 1][j] != null) {
channelImgsTiles[index - 1][j].opacity = 0;
}
}
}
}
canvas.renderAll();
}
}
}
function deleteChannel(index) {
if (!retexturing) {
$( "#channelName" + index).remove();
$( "#checkChannel" + index).remove();
$( "#color-picker" + index).parent().remove();
$( "#sliderChannelIntensity" + index).remove();
$( "#sliderChannelIntensityValue" + index).remove();
$( "#sliderChannelTransparency" + index).remove();
$( "#sliderChannelTransparencyValue" + index).remove();
$( "#cancelChannel" + index).remove();
canvas.remove(channelImgs[index - 1]);
delete channelImgs[index - 1];
if (resolution != null) {
delete channelImgsLevel[index - 1];
var k = 0;
while (k < tilesToRetexture.lenght) {
var imgId = "img" + (index - 1) + "_";
if (tilesToRetexture[k].startsWith(imgId)) {
tilesToRetexture.splice(k, 1);
} else {
k = k + 1;
}
}
for (j = 0; j < channelImgsTiles[index - 1].length; j++) {
if (channelImgsTiles[index - 1][j] != null) {
canvas.remove(channelImgsTiles[index - 1][j]);
delete channelImgsTiles[index - 1][j];
}
}
delete channelImgsTiles[index - 1];
}
canvas.renderAll();
}
}
function addChannel() {
if (!retexturing) {
var csvRow = document.getElementById("add-channel-select").value;
addChannelControls(numImages + 1, getImageURL(csvData[csvRow][0]), csvData[csvRow][1], csvData[csvRow][2], csvData[csvRow][3], csvData[csvRow][4]);
channelImgs.push(numImages);
if (resolution != null) {
channelImgsTiles.push(Array(2048));
channelImgsLevel.push(maxzdim);
}
loadChannelImage(numImages, getImageURL(csvData[csvRow][0]), csvData[csvRow][1], csvData[csvRow][2], csvData[csvRow][3], csvData[csvRow][4]);
if (resolution != null) {
retexture_image(numImages);
}
numImages = numImages + 1;
}
}
function changeColorChannel(index, newColor) {
if (!retexturing) {
$( "#channelCommand" + index).css("color", newColor);
$( "#sliderChannelIntensity" + (index) + " .ui-slider-handle" ).css('background', newColor);
$( "#sliderChannelIntensity" + (index) + " .ui-slider-range" ).css('background', newColor);
$( "#sliderChannelTransparency" + (index) + " .ui-slider-handle" ).css('background', newColor);
$( "#sliderChannelTransparency" + (index) + " .ui-slider-range" ).css('background', newColor);
channelImgs[index -1].v_color = String(newColor);
adjustImage(channelImgs[index - 1]);
if (resolution != null) {
if (channelImgsTiles[index - 1] != null) {
for (j = 0; j < channelImgsTiles[index - 1].length; j++) {
if (channelImgsTiles[index - 1][j] != null) {
channelImgsTiles[index -1][j].v_color = channelImgs[index -1].v_color;
adjustImage(channelImgsTiles[index - 1][j]);
}
}
}
}
canvas.renderAll();
}
}
function autoAdjustAllChannels(checkbox) {
if (!retexturing) {
for (i = 0; i < channelImgs.length; i++) {
if (channelImgs[i] != null) {
autoAdjustChannel(i + 1, false);
}
}
canvas.renderAll();
}
}
function autoAdjustChannel(index, redraw) {
if (!retexturing) {
channelImgs[index -1].v_minvalue = channelImgs[index -1].v_minvalue_optimal;
channelImgs[index -1].v_maxvalue = channelImgs[index -1].v_maxvalue_optimal;
var sliderIntensityMin = Math.floor(channelImgs[index -1].v_minvalue * parseFloat(bitDepth));
var sliderIntensityMax = Math.min(bitDepth, Math.floor(parseFloat(bitDepth) / channelImgs[index -1].v_maxvalue));
$( "#sliderChannelIntensity" + index ).slider( "option", "values", [ sliderIntensityMin, sliderIntensityMax ] );
$( "#sliderChannelIntensityValue" + index ).html( sliderIntensityMin + " - " + sliderIntensityMax);
adjustImage(channelImgs[index -1]);
if (resolution != null) {
if (channelImgsTiles[index - 1] != null) {
for (j = 0; j < channelImgsTiles[index - 1].length; j++) {
if (channelImgsTiles[index - 1][j] != null) {
channelImgsTiles[index -1][j].v_minvalue = channelImgs[index -1].v_minvalue_optimal;
channelImgsTiles[index -1][j].v_maxvalue = channelImgs[index -1].v_maxvalue_optimal;
adjustImage(channelImgsTiles[index -1][j]);
}
}
}
}
if (redraw) {
canvas.renderAll();
}
}
}
fabric.Image.filters.MakeTransparent = fabric.util.createClass(fabric.Image.filters.BaseFilter, {
type: 'MakeTransparent',
fragmentSource:
'precision highp float;\n' +
'uniform sampler2D uTexture;\n' +
'uniform float uTransparencyFilter;\n' +
'uniform float uTransparency;\n' +
'varying vec2 vTexCoord;\n' +
'void main() {\n' +
'vec4 color = texture2D(uTexture, vTexCoord);\n' +
'if (uTransparencyFilter == 1.0) {' +
' color.a = max(color.r, max(color.g, color.b)) * uTransparency;\n' +
'} else {' +
' color.a = uTransparency;\n' +
'}' +
'gl_FragColor = color;\n' +
'}',
getUniformLocations: function(gl, program) {
return {
uTransparencyFilter: gl.getUniformLocation(program, 'uTransparencyFilter'),
uTransparency: gl.getUniformLocation(program, 'uTransparency'),
};
},
sendUniformData: function(gl, uniformLocations) {
gl.uniform1f(uniformLocations.uTransparencyFilter, this.v_transparency_filter);
gl.uniform1f(uniformLocations.uTransparency, this.v_transparency);
},
applyTo2d: function(options) {
var imageData = options.imageData,
data = imageData.data, i, len = data.length;
if (v_transparency_filter == 1.0) {
for (i = 0; i < len; i += 4) {
data[i + 3] = max(data[i], max(data[i + 1], data[i + 2])) * this.v_transparency;
}
} else {
data[i + 3] = bitDepth * this.v_transparency;
}
}
});
fabric.Image.filters.MakeTransparent.fromObject = fabric.Image.filters.BaseFilter.fromObject;
fabric.Image.filters.ClipPixelRange = fabric.util.createClass(fabric.Image.filters.BaseFilter, {
type: 'ClipPixelRange',
fragmentSource:
'precision highp float;\n' +
'uniform sampler2D uTexture;\n' +
'uniform float uMinvalue;\n' +
'uniform float uMaxvalue;\n' +
'varying vec2 vTexCoord;\n' +
'void main() {\n' +
'vec4 color = texture2D(uTexture, vTexCoord);\n' +
'if (color.r < uMinvalue) {' +
' color.r = 0.0;' +
'} else {' +
' color.r = min(1.0, color.r * uMaxvalue);' +
'}' +
'if (color.g < uMinvalue) {' +
' color.g = 0.0;' +
'} else {' +
' color.g = min(1.0, color.g * uMaxvalue);' +
'}' +
'if (color.b < uMinvalue) {' +
' color.b = 0.0;' +
'} else {' +
' color.b = min(1.0, color.b * uMaxvalue);' +
'}' +
'gl_FragColor = color;\n' +
'}',
getUniformLocations: function(gl, program) {
return {
uMinvalue: gl.getUniformLocation(program, 'uMinvalue'),
uMaxvalue: gl.getUniformLocation(program, 'uMaxvalue'),
};
},
sendUniformData: function(gl, uniformLocations) {
gl.uniform1f(uniformLocations.uMinvalue, this.v_minvalue);
gl.uniform1f(uniformLocations.uMaxvalue, this.v_maxvalue);
},
applyTo2d: function(options) {
var imageData = options.imageData,
data = imageData.data, i, len = data.length;
for (i = 0; i < len; i += 4) {
if (data[i] < this.minvalue) {
data[i] = 0;
data[i + 1] = 0;
data[i + 2] = 0;
} else {
data[i] = data[i] * bitDepth / this.maxvalue;
data[i + 1] = data[i + 1] * bitDepth / this.v_maxvalue;
data[i + 2] = data[i + 2] * bitDepth / this.v_maxvalue;
}
}
}
});
fabric.Image.filters.ClipPixelRange.fromObject = fabric.Image.filters.BaseFilter.fromObject;
var canvas = new fabric.Canvas('canvas-images');
canvas.setDimensions({
width: $('#canvas-div').width(),
height: $('#canvas-div').height(),
imageSmoothingEnabled: false
});
canvas.isDragging = false;
canvas.selection = true;
var channelImgs = [];
var channelImgsTiles = [];
var channelImgsLevel = [];
var numImages = 0;
var sliderTimeout = 0;
var lastCanvasWidth = canvas.width;
var lastCanvasHeight = canvas.height;
var retexturing = false;
var currentTile = "";
var imgLevelRetextured = [];
var tilesToRetexture = [];
var pyramidInfo = [[2,0], [4,4], [8,20], [16,84], [32,340]];
function retexture_tiles(){
if (!retexturing && tilesToRetexture.length > 0) {
document.getElementById("retexturing-indicator").style.display = "block";
var texturedImage = tilesToRetexture[0];
(function(texturedImage) {
var imageIndex = parseInt(texturedImage.split("_")[0].replace('img', ''));
if (channelImgs[imageIndex] != null) {
if (channelImgs[imageIndex].filters != null) {
var imageURL = channelImgs[imageIndex].csv_image_url;
imageURL = imageURL.substring(0, imageURL.lastIndexOf(".")) + texturedImage.substring(texturedImage.split("_")[0].length) + imageURL.substring(imageURL.length - 4);
var imgElement = fabric.Image.fromURL(imageURL, function(oImg) {
if (oImg == null) {
retexture_tiles();
} else {
if (channelImgs[imageIndex] != null) {
oImg.csv_image_url = channelImgs[imageIndex].csv_image_url;
oImg.csv_img_name = channelImgs[imageIndex].csv_img_name;
oImg.csv_img_clip = channelImgs[imageIndex].csv_img_clip;
oImg.csv_img_transparency = channelImgs[imageIndex].csv_img_transparency;
oImg.csv_img_color = channelImgs[imageIndex].csv_img_color;
oImg.v_minvalue_optimal = channelImgs[imageIndex].v_minvalue_optimal;
oImg.v_maxvalue_optimal = channelImgs[imageIndex].v_maxvalue_optimal;
oImg.v_minvalue = channelImgs[imageIndex].v_minvalue;
oImg.v_maxvalue = channelImgs[imageIndex].v_maxvalue;
oImg.v_transparency_filter = channelImgs[imageIndex].v_transparency_filter;
oImg.v_transparency = channelImgs[imageIndex].v_transparency;
oImg.v_color = channelImgs[imageIndex].v_color;
var zdim = parseInt(texturedImage.split("_")[1].replace('z', ''));
var x = parseInt(texturedImage.split("_")[2].replace('x', ''));
var y = parseInt(texturedImage.split("_")[3].replace('y', ''));
var pyramidIndex = 0;
var currzdim = maxzdim;
while (zdim / 1024 != currzdim) {
currzdim = currzdim / 2;
pyramidIndex = pyramidIndex + 1;
}
tile_index = pyramidInfo[pyramidIndex][1] + (x / zdim) * pyramidInfo[pyramidIndex][0] + (y / zdim);
channelImgsTiles[imageIndex][tile_index] = oImg;
oImg.scaleToWidth(zdim);
oImg.scaleToHeight(zdim);
oImg.set({ left: x, top: y });
canvas.add(oImg);
oImg.set('selectable', false);
oImg.opacity = 0.0;
oImg.moveTo((imageIndex + 1) * 2048) + tile_index;
adjustImage(oImg);
if (texturedImage.indexOf("_x0_y0") > 0) {
imgLevelRetextured.push(imageIndex + "_" + zdim);
}
}
tilesToRetexture.splice(0, 1);
retexture_tiles();
}
});
} else {
setTimeout(retexture_tiles, 50);
}
} else {
tilesToRetexture.splice(0, 1);
retexture_tiles();
}
})(texturedImage);
} else {
document.getElementById("retexturing-indicator").style.display = "none";
setTimeout(retexture_tiles, 50);
}
}
function render_deepest_level() {
for (i = 0; i < channelImgsLevel.length; i++) {
var currChannelLevel = channelImgsLevel[i]
if (currChannelLevel != null && currChannelLevel * 2 > minTileResolution / 1024) {
zdim = 1024 * (currChannelLevel);
if (imgLevelRetextured.includes(i + "_" + (zdim / 2)) || tilesToRetexture.length == 0) {
retexturing = true;
var pyramidIndex = 0;
var currzdim = maxzdim;
while (zdim / 1024 != currzdim) {
currzdim = currzdim / 2;
pyramidIndex = pyramidIndex + 1;
}
for (x = 0; x < pyramidInfo[pyramidIndex][0]; x++) {
for (y = 0; y < pyramidInfo[pyramidIndex][0]; y++) {
tile_index = pyramidInfo[pyramidIndex][1] + x * pyramidInfo[pyramidIndex][0] + y;
if (channelImgsTiles[i][tile_index] != null) {
channelImgsTiles[i][tile_index].opacity = 1.0;
}
}
}
if (currChannelLevel == maxzdim) {
channelImgs[i].opacity = 0.0;
} else {
pyramidIndex = pyramidIndex - 1;
for (x = 0; x < pyramidInfo[pyramidIndex][0]; x++) {
for (y = 0; y < pyramidInfo[pyramidIndex][0]; y++) {
tile_index = pyramidInfo[pyramidIndex][1] + x * pyramidInfo[pyramidIndex][0] + y;
if (channelImgsTiles[i][tile_index] != null) {
channelImgsTiles[i][tile_index].opacity = 0.0;
canvas.remove(channelImgsTiles[i][tile_index]);
delete channelImgsTiles[i][tile_index];
}
}
}
}
channelImgsLevel[i] = Math.floor(currChannelLevel / 2);
canvas.renderAll();
var index = imgLevelRetextured.indexOf(i + "_" + (zdim / 2));
if (index > -1) {
imgLevelRetextured.splice(index, 1);
}
retexturing = false;
}
}
}
setTimeout(render_deepest_level, 500);
}
function retexture_image(img_index) {
var curr_maxzdim = maxzdim;
while (curr_maxzdim > 0 + (minTileResolution / 1024) - 1) {
var zdim = 1024 * curr_maxzdim;
var num_tiles_x = Math.floor(resolution[0] / zdim) + (resolution[0] % zdim > 0 ? 1 : 0);
var num_tiles_y = Math.floor(resolution[1] / zdim) + (resolution[1] % zdim > 0 ? 1 : 0);
for (let i = 0; i < num_tiles_x; i++) {
for (let j = 0; j < num_tiles_y; j++) {
var xdim = i * zdim;
var ydim = j * zdim;
var currentTile = "img" + img_index+ "_z" + zdim + "_x" + xdim + "_y" + ydim;
tilesToRetexture.push(currentTile);
}
}
curr_maxzdim = Math.floor(curr_maxzdim / 2);
}
}
function retexture_images() {
var curr_maxzdim = maxzdim;
while (curr_maxzdim > 0 + (minTileResolution / 1024) - 1) {
var zdim = 1024 * curr_maxzdim;
var num_tiles_x = Math.floor(resolution[0] / zdim) + (resolution[0] % zdim > 0 ? 1 : 0);
var num_tiles_y = Math.floor(resolution[1] / zdim) + (resolution[1] % zdim > 0 ? 1 : 0);
for (let i = 0; i < num_tiles_x; i++) {
for (let j = 0; j < num_tiles_y; j++) {
var xdim = i * zdim;
var ydim = j * zdim;
var currentTile = "img" + (numImages - 1) + "_z" + zdim + "_x" + xdim + "_y" + ydim;
for (let k = 0; k < channelImgs.length; k++) {
if (channelImgs[k] != null) {
filename = "img" + k + "_z" + zdim + "_x" + xdim + "_y" + ydim;
tilesToRetexture.push(filename);
}
}
}
}
curr_maxzdim = Math.floor(curr_maxzdim / 2);
}
}
function addChannelControls(img_index, img_url, img_name, img_clip, img_transparency, img_color) {
var channelControlsHTML = "<div id=\"channelName" + img_index + "\" class=\"channel-name\">" +
"<p>" + img_name + "</p>" +
"<a href=\"" + img_url + "\" target=\"_blank\" download><span class=\"material-symbols-outlined channel-download\" title=\"Download image\">download</span></a>" +
"<span class=\"material-symbols-outlined channel-auto interactive-item\" onclick=\"autoAdjustChannel(" + img_index + ", true);\" title=\"Apply min/max\">exposure</span></div>" +
"<div id=\"channelCommand" + img_index + "\" style=\"color:" + img_color + "\">" +
"<span id=\"checkChannel" + img_index + "\" class=\"material-symbols-outlined channel-check interactive-item\" onclick=\"toggleChannel(this, " + img_index + ");\">check_box</span>";
if (img_color != "" && img_color != "no") {
channelControlsHTML = channelControlsHTML + "<div id=\"color-picker-wrapper\"><input type=\"color\" value=\"" + img_color + "\" id=\"color-picker" + img_index + "\"></div>";
} else {
channelControlsHTML = channelControlsHTML + " ";
}
var sliderIntervalMin = 0;
var sliderIntervalMax = bitDepth;
if (img_clip != "" && img_clip != "no") {
sliderIntervalMin = parseInt(img_clip.split("-")[ 0 ]);
sliderIntervalMax = parseInt(img_clip.split("-")[ 1 ]);
}
var sliderTransparencyValue = 100;
if (img_transparency != "" && img_transparency != "no") {
sliderTransparencyValue = Math.floor(img_transparency * 100.0);
}
channelControlsHTML = channelControlsHTML + "<div id=\"sliderChannelIntensity" + img_index + "\" class=\"channel-slider\"></div><span id=\"sliderChannelIntensityValue" + img_index + "\" class=\"channel-range\">" + sliderIntervalMin + " - " + sliderIntervalMax + "</span>" +
"<div id=\"sliderChannelTransparency" + img_index + "\" class=\"channel-slider\"></div><span id=\"sliderChannelTransparencyValue" + img_index + "\" class=\"channel-range\">" + sliderTransparencyValue + "%</span>";
channelControlsHTML = channelControlsHTML + "<span id=\"cancelChannel" + img_index + "\" class=\"material-symbols-outlined channel-delete interactive-item\" onclick=\"deleteChannel(" + img_index + ");\">close</span></div>"
$("#channel-list").append(channelControlsHTML);
$( "#sliderChannelIntensity" + (img_index) ).slider({
range: true,
min: 0,
max: bitDepth,
values: [ 0, bitDepth ],
slide: function( event, ui ) {
if (!retexturing) {
var slideId = parseInt(this.id.replace("sliderChannelIntensity", ""));
$( "#sliderChannelIntensityValue" + slideId ).html( ui.values[ 0 ] + " - " + ui.values[ 1 ]);
if (Date.now() > sliderTimeout + sliderInterval) {
sliderTimeout = Date.now();
channelImgs[slideId -1].v_minvalue = parseFloat(ui.values[ 0 ]) / parseFloat(bitDepth);
channelImgs[slideId -1].v_maxvalue = parseFloat(bitDepth) / parseFloat(ui.values[ 1 ]);
adjustImage(channelImgs[slideId -1]);
if (resolution != null) {
for (j = 0; j < channelImgsTiles[slideId - 1].length; j++) {
if (channelImgsTiles[slideId - 1][j] != null) {
channelImgsTiles[slideId -1][j].v_minvalue = channelImgs[slideId -1].v_minvalue;
channelImgsTiles[slideId -1][j].v_maxvalue = channelImgs[slideId -1].v_maxvalue;
adjustImage(channelImgsTiles[slideId - 1][j]);
}
}
}
canvas.renderAll();
}
}
}
});
$( "#sliderChannelTransparency" + (img_index) ).slider({
min: 0,
max: 100,
value: 100,
slide: function( event, ui ) {
if (!retexturing) {
var slideId = parseInt(this.id.replace("sliderChannelTransparency", ""));
$( "#sliderChannelTransparencyValue" + slideId ).html(ui.value + "%");
if (Date.now() > sliderTimeout + sliderInterval) {
sliderTimeout = Date.now();
channelImgs[slideId -1].v_transparency = ui.value / 100.0;
adjustImage(channelImgs[slideId -1]);
if (resolution != null) {
for (j = 0; j < channelImgsTiles[slideId - 1].length; j++) {
if (channelImgsTiles[slideId - 1][j] != null) {
channelImgsTiles[slideId -1][j].v_transparency = channelImgs[slideId -1].v_transparency;
adjustImage(channelImgsTiles[slideId - 1][j]);
}
}
}
canvas.renderAll();
}
}
}
});
if (img_color != "" && img_color != "no") {
$( "#color-picker" + img_index ).on( "change", function() {
$( this ).parent().css("background", this.value);
changeColorChannel(parseInt(this.id.replace("color-picker", "")), this.value);
});
$( "#color-picker" + img_index ).parent().css("background", $( "#color-picker" + img_index ).val());
$( "#sliderChannelIntensity" + img_index + " .ui-slider-handle" ).css('background', img_color);
$( "#sliderChannelIntensity" + img_index + " .ui-slider-range" ).css('background', img_color);
$( "#sliderChannelTransparency" + img_index + " .ui-slider-handle" ).css('background', img_color);
$( "#sliderChannelTransparency" + img_index + " .ui-slider-range" ).css('background', img_color);
} else {
$( "#color-picker" + img_index ).parent().css("background", "#ffffff");
$( "#sliderChannelIntensity" + img_index + " .ui-slider-handle" ).css('background', "#ffffff");
$( "#sliderChannelIntensity" + img_index + " .ui-slider-range" ).css('background', "#ffffff");
$( "#sliderChannelTransparency" + img_index + " .ui-slider-handle" ).css('background', "#ffffff");
$( "#sliderChannelTransparency" + img_index + " .ui-slider-range" ).css('background', "#ffffff");
}
}
function adjustImage(img) {
img.filters = [];
var clippr = new fabric.Image.filters.ClipPixelRange({
v_minvalue: img.v_minvalue,
v_maxvalue: img.v_maxvalue
});
img.filters.push(clippr);
transparency = new fabric.Image.filters.MakeTransparent({
v_transparency_filter: img.v_transparency_filter,
v_transparency: img.v_transparency
});
img.filters.push(transparency);
if (img.v_color != "no") {
var blcol = new fabric.Image.filters.BlendColor({
color: img.v_color,
mode: 'tint',
alpha: 1.0
});
img.filters.push(blcol);
}
img.applyFilters();
}
function calculateMinMax(img, index) {
var ctx = canvas.getContext("2d");
ctx.imageSmoothingEnabled = false;
img_raw = img.getElement();
ctx.drawImage(img_raw, 0, 0);
img_raw_data = ctx.getImageData(0, 0, img_raw.width, img_raw.height);
var listpositivepixel = [];
for (let i = 0; i < img_raw_data.data.length; i += 4) {
if (img_raw_data.data[i] > 0) {