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DeVis.html
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DeVis.html
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<!DOCTYPE html>
<html lang="en">
<head>
<title>TenVis</title>
<meta charset="utf-8">
<meta name="viewport" content="width=device-width, user-scalable=no, minimum-scale=1.0, maximum-scale=1.0">
<!--<script src="js/three.min.js"></script>-->
<script src="js/three.min.64.js"></script>
<script src="js/TrackballControls.js"></script>
<script src="js/stats.min.js"></script>
<script type="text/javascript" src="js/THREEx.screenshot.js"></script>
<script type="text/javascript" src="js/dat.gui.js"></script>
<style>
body {
font-family: Monospace;
background-color: #222222;
margin: 0px;
padding: 0px:
overflow: hidden;
}
#drop_zone {
border: 2px dashed #bbb;
-moz-border-radius: 5px;
-webkit-border-radius: 5px;
border-radius: 5px;
padding: 5px;
text-align: center;
font: 10pt bold,"Vollkorn";
color: #bbb;
}
#generationMsg{
color: white;
}
</style>
</head>
<script>
/*
testing FILE API browser support
*/
if (window.File && window.FileReader && window.FileList && window.Blob) {
// Great success! All the File APIs are supported.
} else {
alert('The File APIs are not fully supported in this browser.');
}
</script>
<body>
<div id="drop_zone">Drop files here</div>
<output id="list"></output>
<span id="generationMsg"></span>
<div id="container"></div>
<script>
function readBlob2(file) {
var lines;
var reader = new FileReader();
//If we use onloadend, we must check for the ready state
reader.onloadend = function(evt) {
if (evt.target.readyState == FileReader.DONE) { // DONE == 2
var lines = evt.target.result.split('\n');
/*
var start = +new Date(); // log start timestamp
function1();
var end = +new Date(); // log end timestamp
var diff = end - start;
*/
var st = +new Date(); // log start timestamp
drawBrain(lines);
var en = +new Date(); // log end timestamp
var diffs = en - st;
console.log(diffs);
}
};
reader.readAsText(file);
}
function handleFileSelect(evt) {
evt.stopPropagation();
evt.preventDefault();
var files = evt.dataTransfer.files; // FileList object.
// files is a FileList of File objects. List some properties.
/*var output = [];
for (var i = 0, f; f = files[i]; i++) {
output.push('<li><strong>', escape(f.name), '</strong> (', f.type || 'n/a', ') - ',
f.size, ' bytes, last modified: ',
f.lastModifiedDate ? f.lastModifiedDate.toLocaleDateString() : 'n/a',
'</li>');
}
document.getElementById('list').innerHTML = '<ul>' + output.join('') + '</ul>';*/
var length = files.length;
for (var i = 0; i < length; i++) {
readBlob2(files[i]);
}
}
function handleDragOver(evt) {
evt.stopPropagation();
evt.preventDefault();
evt.dataTransfer.dropEffect = 'copy'; // Explicitly show this is a copy.
}
// Setup the dnd listeners.
var dropZone = document.getElementById('drop_zone');
dropZone.addEventListener('dragover', handleDragOver, false);
dropZone.addEventListener('drop', handleFileSelect, false);
</script>
<script>
/*GLOBALS*/
var container, stats;
var camera, controls, scene, renderer;
//Merged mesh group
var mergedGeo = new THREE.Geometry();
var radius = 1;
//GUI variables
var floor;
var drawEllipsoids = true;
var drawParticles = false;
var colorMapping = 'Default';
var REST = 4, RESP = REST*2;
var mouse = new THREE.Vector2();
/*END OF GLOBALS*/
init();
animate();
function init() {
container = document.getElementById( "container" );
// CAMERA
var SCREEN_WIDTH = window.innerWidth, SCREEN_HEIGHT = window.innerHeight;
var VIEW_ANGLE = 45, ASPECT = SCREEN_WIDTH / SCREEN_HEIGHT, NEAR = 0.1, FAR = 20000;
var span;
camera = new THREE.PerspectiveCamera( VIEW_ANGLE, ASPECT, NEAR, FAR);
camera.position.set(0, 0, 1500);
scene = new THREE.Scene();
/*LIGHTS*/
scene.add( new THREE.AmbientLight( 0x222222 ) );
var light = new THREE.SpotLight( 0xffffff, 0.8 );
light.position.set( 0, 0, 3000 );
scene.add( light );
var light = new THREE.SpotLight( 0xffffff, 0.8 );
light.position.set( 0, 0, -3000 );
scene.add( light );
var light = new THREE.SpotLight( 0xffffff, 0.8 );
light.position.set( -2000, -2000, 0 );
scene.add( light );
var light = new THREE.SpotLight( 0xffffff, 0.8 );
light.position.set( 2000, 2000, 0 );
scene.add( light );
//projector = new THREE.Projector();
renderer = new THREE.WebGLRenderer( { antialias: true,
//preserveDrawingBuffer: true // required to support .toDataURL()
} );
//renderer.autoClear = false
//renderer.sortObjects = true;
//renderer.setFaceCulling(false);
renderer.setSize( window.innerWidth, window.innerHeight );
//Premere 'p' per uno screenshot, ma preserveDrawingBuffer deve essere true.
THREEx.Screenshot.bindKey(renderer);
container.appendChild( renderer.domElement );
/*CUSTOM*/
//scene.add( new THREE.AxisHelper(50) );
/*
// wireframe for xy-plane
var wireframeMaterial = new THREE.MeshBasicMaterial( { color: 0x000088, wireframe: true, side:THREE.DoubleSide } );
//var wireframeMaterial = new THREE.MeshBasicMaterial( { color: 0x000088, side:THREE.DoubleSide } );
var floorGeometry = new THREE.PlaneGeometry(1000,1000,10,10);
var floor = new THREE.Mesh(floorGeometry, wireframeMaterial);
floor.position.z = -0.01;
// rotate to lie in x-y plane
// floor.rotation.x = Math.PI / 2;
scene.add(floor);*/
stats = new Stats();
stats.domElement.style.position = 'absolute';
stats.domElement.style.top = '100px';
stats.domElement.style.zIndex = 100;
container.appendChild( stats.domElement );
renderer.domElement.addEventListener( 'mousemove', onMouseMove );
/*CONTROLS*/
//renderer.domElement is important for dat.gui!
controls = new THREE.TrackballControls( camera, renderer.domElement );
/*GLOBALS*/
//Merged mesh group
var mergedGeo = new THREE.Geometry();
//GUI
var parameters = function() {
//this.message = 'dat.gui';
/*this.speed = 0.8;
this.displayOutline = false;
this.explode = function() { ... };*/
this.cameraX = camera.position.x;
this.cameraY = camera.position.y;
this.cameraZ = camera.position.z;
this.targetX = 0;
this.targetY = 0;
this.targetZ = 0;
this.floorVisible = false;
this.Ellipsoids = true;
this.Particles = false;
this.Colormap = 'Default';
this.resol = 4;
this.bgColor = "#222222";
};
window.onload = function() {
var params = new parameters();
var gui = new dat.GUI();
gui.remember(params);
changeBackground();
var camFolder = gui.addFolder('Camera');
camFolder.add( params, 'cameraX', -5000, 5000).step(1).onChange( function( value ){
//controls.target.set(0, 0, 0);
camera.up.set(0, 1, 0);
camera.position.x = value;
} );
camFolder.add( params, 'cameraY', -5000, 5000 ).step(1).onChange( function( value ){
//controls.target.set(0, 0, 0);
camera.up.set(0, 1, 0);
camera.position.y = value;
} );
camFolder.add( params, 'cameraZ', -5000, 5000 ).step(1).onChange( function( value ){
//controls.target.set(0, 0, 0);
camera.up.set(0, 1, 0);
camera.position.z = value;
} );
camFolder.add( params, 'targetX', -1000, 1000 ).step(1).onChange( function( value ){
controls.target.x = value;
camera.up.set(0, 1, 0);
} );
camFolder.add( params, 'targetY', -1000, 1000 ).step(1).onChange( function( value ){
controls.target.y = value;
camera.up.set(0, 1, 0);
} );
camFolder.add( params, 'targetZ', -1000, 1000 ).step(1).onChange( function( value ){
controls.target.z = value;
camera.up.set(0, 1, 0);
} );
gui.add( params, 'floorVisible' ).onChange( togglePlane );
gui.add( params, 'resol' ).step(1).onChange( setResolution );
gui.add( params, 'Ellipsoids').onChange( toggleEllipsoids );
gui.add( params, 'Particles').onChange( toggleParticles );
gui.addColor(params, 'bgColor').onChange( changeBackground );
gui.add( params, 'Colormap', [ 'Default', 'NonAbs', 'Composition','Determinant', 'FA', 'LPS', 'Experimental', 'EigenRGB'] ).onChange( function (value){
colorMapping = value;
});
function changeBackground() {
var tmp = params.bgColor.split('').splice(1,6);
tmp.unshift('0x');
renderer.setClearColor( parseInt(tmp.join('')), 1 );
}
function setResolution() {
if ( params.resol != REST ) {
REST = params.resol;
RESP = REST*2;
}
}
function toggleEllipsoids() {
if (params.Ellispsoid != drawEllipsoids){
drawEllipsoids = params.Ellispsoid;
}
}
function toggleParticles() {
if (params.Particles != drawParticles){
drawParticles = params.Particles;
}
}
function togglePlane() {
if ( params.floorVisible === false) {
if ( floor ) { floor.visible = false; }
} else if ( floor ) {
floor.visible = true;
} else {
//scene.add( new THREE.AxisHelper(50) );
// wireframe for xy-plane
var wireframeMaterial = new THREE.MeshBasicMaterial( { color: 0x000088, wireframe: true, side:THREE.DoubleSide } );
var floorGeometry = new THREE.PlaneGeometry(1000,1000,10,10);
floor = new THREE.Mesh(floorGeometry, wireframeMaterial);
floor.position.z = -0.01;
floor.name = 'floor';
// rotate to lie in x-y plane
// floor.rotation.x = Math.PI / 2;
scene.add(floor);
}
}
/*updates controls to actual camera position and camera lookat coordinates*/
var update = function() {
requestAnimationFrame(update);
if (params.cameraX != camera.position.x){
params.cameraX = camera.position.x;
camFolder.__controllers[0].updateDisplay();
}
if (params.cameraY != camera.position.y){
params.cameraY = camera.position.y;
camFolder.__controllers[1].updateDisplay();
}
if (params.cameraZ != camera.position.z){
params.cameraZ = camera.position.z;
camFolder.__controllers[2].updateDisplay();
}
if (params.targetX != controls.target.x){
params.targetX = controls.target.x;
camFolder.__controllers[3].updateDisplay();
}
if (params.targetY != controls.target.y){
params.targetY = controls.target.y;
camFolder.__controllers[4].updateDisplay();
}
if (params.targetZ != controls.target.z){
params.targetZ = controls.target.z;
camFolder.__controllers[5].updateDisplay();
}
if (params.Colormap != colorMapping){
colorMapping = params.Colormap;
camFolder.__controllers[6].updateDisplay();
}
// Iterate over all controllers
/*for (var i in gui.__controllers) {
gui.__controllers[i].updateDisplay();
}*/
};
update();
};/***** END OF GUI****/
}
function applyVertexColors( g, c ) {
g.faces.forEach( function( f ) {
var n = ( f instanceof THREE.Face3 ) ? 3 : 4;
for( var j = 0; j < n; j ++ ) {
f.vertexColors[ j ] = c;
}
} );
}
function getMaxDet(lines, nMatrices, lineRatio, protocol){
(function(){document.getElementById("generationMsg").innerHTML = 12345+ " voxels to generate";});
//document.getElementById("generationMsg").innerHTML = "Processing...";
var det = [];
//for ( var i = 4; i < nMatrices*5; i=i+5 ) {
if(protocol == '#DEFAULT'){
for ( var i = 5; i < nMatrices*lineRatio; i=i+lineRatio ) {
temp2= lines[i].split(',');
det = det.concat( (parseFloat(temp2[0])*parseFloat(temp2[1])*parseFloat(temp2[2]))*1000);
}
}
else if(protocol == '#NOPROTOCOL'){
for ( var i = 4; i < nMatrices*lineRatio; i=i+lineRatio ) {
temp2= lines[i].split(',');
det = det.concat( (parseFloat(temp2[0])*parseFloat(temp2[1])*parseFloat(temp2[2]))*1000);
}
}
else if(protocol == '#ONELINEPERMATRIX'){
for ( var i = 1; i < nMatrices*lineRatio; i=i+lineRatio ) {
temp2= lines[i].split(',');
det = det.concat( (parseFloat(temp2[12])*parseFloat(temp2[13])*parseFloat(temp2[14]))*1000);
}
}
var max_of_array = Math.max.apply(Math, det);
var min_of_array = Math.min.apply(Math, det);
return max_of_array;
}
function getCenter(lines, nMatrices, lineRatio, protocol){
var centerPosition = new THREE.Vector3();
//for (var i = 0; i < nMatrices*5; i=i+5 ) {
if(protocol == '#NOPROTOCOL'){
start = 0;
stop = 1;
}
else if(protocol == '#DEFAULT') {
start = 1;
stop = 0;
}
else if(protocol == '#ONELINEPERMATRIX'){
start = 1;
stop = -1;
}
for (var i = start; i+stop < (nMatrices*lineRatio); i=i+lineRatio ) {
currentCoordinates = lines[i].split(',');
centerPosition.x = centerPosition.x + parseInt(currentCoordinates[0])/nMatrices;
centerPosition.y = centerPosition.y + parseInt(currentCoordinates[1])/nMatrices;
centerPosition.z = centerPosition.z + parseInt(currentCoordinates[2])/nMatrices;
}
centerPosition.x = Math.floor(centerPosition.x);
centerPosition.y = Math.floor(centerPosition.y);
centerPosition.z = Math.floor(centerPosition.z);
return centerPosition;
}
/*function getMaxTr(lines, nMatrices){
var tr = [];
//tr[1] = 1;
for ( var i = 4; i < nMatrices; i=i+5 ) {
temp2= lines[i].split(',');
tr = tr.concat( (parseFloat(temp2[0])+parseFloat(temp2[1])+parseFloat(temp2[2]))*1000);
}
var max_of_array = Math.max.apply(Math, tr);
var min_of_array = Math.min.apply(Math, tr);
return max_of_array;
}*/
var fileInfo = function(lines){
this.protocol = lines[0];
if (this.protocol == '#DEFAULT'){ // five lines per matrix: 1: cord; 2,3,4: matrix; 5: eigenvalues;
this.lineRatio = 5;
this.nMatrices = (lines.length-2)/this.lineRatio;
}
else if(this.protocol == '#ONELINEPERMATRIX'){
this.lineRatio = 1;
this.nMatrices = lines.length-2;
}
else{ // no protocol specified. DEFAULT behaviour
this.protocol = '#NOPROTOCOL';
this.lineRatio = 5;
this.nMatrices = (lines.length-1)/this.lineRatio;
}
this.center = THREE.Vector3;
this.center = getCenter(lines, this.nMatrices, this.lineRatio, this.protocol);
this.maxDet = getMaxDet(lines, this.nMatrices, this.lineRatio, this.protocol);
}
function drawBrain(lines){
var info = new fileInfo(lines);
if (drawEllipsoids===true){
drawBrainEllipsoids(lines, 0, info);
}
if (drawParticles===true){
drawBrainParticles(lines, info.nMatrices, 0, info.maxDet, info.center, info.protocol, info.lineRatio);
}
}
//globals for drawBrainEllipsoids()
var position = new THREE.Vector3();
var radius = 1;
var rotation = new THREE.Euler();
var geom = new THREE.SphereGeometry( radius, RESP, REST );
//var geom = new THREE.SphereGeometry( radius,8, 4 );
var ellipsoid = new THREE.Mesh( geom );
var color = new THREE.Color( 0xff0000 );
var scale = new THREE.Vector3();
var padding = 15; //15
defaultMaterial = new THREE.MeshLambertMaterial({ color: 0xffffff, vertexColors: THREE.VertexColors } );
var parser = function(lines, i, protocol){
this.coord = new THREE.Vector3();
this.eigs = new THREE.Vector3();
/*
ELLIPSOIDS DEFAULT
*/
if(protocol == '#NOPROTOCOL'){
//parse coordinates
temp2= lines[i].split(',');
this.coord.x = parseFloat(temp2[0]);
this.coord.y = parseFloat(temp2[1]);
this.coord.z = parseFloat(temp2[2]);
//parse eigenvectors matrix
temp2= lines[i+1].split(',');
this.xx = parseFloat(temp2[0]);
this.xy = parseFloat(temp2[1]);
this.xz = parseFloat(temp2[2]);
temp2= lines[i+2].split(',');
this.yx = parseFloat(temp2[0]);
this.yy = parseFloat(temp2[1]);
this.yz = parseFloat(temp2[2]);
temp2= lines[i+3].split(',');
this.zx = parseFloat(temp2[0]);
this.zy = parseFloat(temp2[1]);
this.zz = parseFloat(temp2[2]);
//parse eigenvalues
temp2= lines[i+4].split(',');
this.eigs.x = parseFloat(temp2[0]);
this.eigs.y = parseFloat(temp2[1]);
this.eigs.z = parseFloat(temp2[2]);
}
else if(protocol == '#DEFAULT'){
//parse coordinates
temp2= lines[i+1].split(',');
this.coord.x = parseFloat(temp2[0]);
this.coord.y = parseFloat(temp2[1]);
this.coord.z = parseFloat(temp2[2]);
//parse eigenvectors matrix
temp2= lines[i+2].split(',');
this.xx = parseFloat(temp2[0]);
this.xy = parseFloat(temp2[1]);
this.xz = parseFloat(temp2[2]);
temp2= lines[i+3].split(',');
this.yx = parseFloat(temp2[0]);
this.yy = parseFloat(temp2[1]);
this.yz = parseFloat(temp2[2]);
temp2= lines[i+4].split(',');
this.zx = parseFloat(temp2[0]);
this.zy = parseFloat(temp2[1]);
this.zz = parseFloat(temp2[2]);
//parse eigenvalues
temp2= lines[i+5].split(',');
this.eigs.x = parseFloat(temp2[0]);
this.eigs.y = parseFloat(temp2[1]);
this.eigs.z = parseFloat(temp2[2]);
}
/*
One line for each matrix
*/
else if(protocol == '#ONELINEPERMATRIX'){
//parse coordinates
temp2= lines[i+1].split(',');
this.coord.x = parseFloat(temp2[0]);
this.coord.y = parseFloat(temp2[1]);
this.coord.z = parseFloat(temp2[2]);
//parse eigenvectors matrix
this.xx = parseFloat(temp2[3]);
this.xy = parseFloat(temp2[4]);
this.xz = parseFloat(temp2[5]);
this.yx = parseFloat(temp2[6]);
this.yy = parseFloat(temp2[7]);
this.yz = parseFloat(temp2[8]);
this.zx = parseFloat(temp2[9]);
this.zy = parseFloat(temp2[10]);
this.zz = parseFloat(temp2[11]);
//parse eigenvalues
this.eigs.x = parseFloat(temp2[12]);
this.eigs.y = parseFloat(temp2[13]);
this.eigs.z = parseFloat(temp2[14]);
}
}
function drawBrainEllipsoids(lines, generated, info){
document.getElementById("generationMsg").innerHTML = (info.nMatrices-generated)+ " voxels to generate";
//defaultMaterial = new THREE.MeshLambertMaterial({ color: 0xffffff, shading: THREE.FlatShading, vertexColors: THREE.VertexColors } );
//defaultMaterial = new THREE.MeshLambertMaterial({ color: 0xffffff, vertexColors: THREE.VertexColors } );
//defaultMaterial = new THREE.MeshNormalMaterial({ } );
var first = generated*info.lineRatio;
//for ( var i = first; i < (first+5000) && nMatrices > generated; i+=5, generated++ ) {
for ( var i = first; i < (first+5000) && info.nMatrices > generated; i+=info.lineRatio, generated++ ) {
var parsed = new parser(lines, i, info.protocol); // <- the magic happens here!
/* SETTING POSITION */
/*
Automatic centering is usefull with DTI data.
For plotting functions, it should be necessary to force center to (0,0,0)
*/
position.x = parsed.coord.x - info.center.x;
position.y = parsed.coord.y - info.center.y;
position.z = parsed.coord.z - info.center.z;
position.multiplyScalar(radius);
position.multiplyScalar(padding);
var xx = parsed.xx;
var xy = parsed.xy;
var xz = parsed.xz;
var yx = parsed.yx;
var yy = parsed.yy;
var yz = parsed.yz;
var zx = parsed.zx;
var zy = parsed.zy;
var zz = parsed.zz;
var mat = new Array( xx, xy, xz, 0,
yx, yy, yz, 0,
zx, zy, zz, 0,
0, 0, 0, 1 );
var rotM = new THREE.Matrix4( xx, xy, xz, 0,
yx, yy, yz, 0,
zx, zy, zz, 0,
0, 0, 0, 1 );
/* It seems that Matrix4 are trully memorized as
(xx, yx, zx, 0,
xy, yy, zy, 0,
xz, yz, zz, 0,
0, 0, 0, 1)
*/
scale.x = parsed.eigs.x * 10 + 1;
scale.y = parsed.eigs.y * 10 + 1;
scale.z = parsed.eigs.z * 10 + 1;
var L = [ scale.x, scale.y, scale.z];
color = getColor(scale, mat);
applyVertexColors( ellipsoid.geometry, color );
ellipsoid.position.copy( position );
rotM.transpose(); // see comment under declaration of rotM.
rotation.setFromRotationMatrix( rotM, 'ZYX' );
ellipsoid.rotation.copy(rotation);
//make all spheres
/*scale.x = 10;
scale.y = 10;
scale.z = 10;*/
ellipsoid.scale.copy( scale );
/*scale2 = scale;
scale2.x = Math.sqrt(1/scale2.x)*10;
scale2.y = Math.sqrt(1/scale2.y)*10;
scale2.z = Math.sqrt(1/scale2.z)*10;
ellipsoid.scale.copy( scale2 );*/
//if(((L[0]*L[1]*L[2]) > 1) && (cl > 0.4) ){
//if(((L[0]*L[1]*L[2]) > 1) && (fa > 0.5) ){
//if(((L[0]*L[1]*L[2]) > 1) && (fa > 0.35) ){
//if(((L[0]*L[1]*L[2]) > 1) && (fa > 0.35) ){
THREE.GeometryUtils.merge( mergedGeo, ellipsoid );
//}
}
if( info.nMatrices !== generated){
setTimeout(function(){ drawBrainEllipsoids(lines, generated, info); }, 0);
}
if( info.nMatrices === generated ){
document.getElementById("generationMsg").innerHTML = generated+ " voxels analysed";
var drawnObject = new THREE.Mesh( mergedGeo, defaultMaterial );
scene.add( drawnObject );
}
}
function drawBrainParticles(lines, nMatrices, generated, maxDet, center){
var geometry = new THREE.Geometry();
var position = new THREE.Vector4();
var scale = new THREE.Vector3();
var rotation = new THREE.Vector3();
//var color = new THREE.Color( 0xff0000 );
radius = 1;
padding = 15;
for ( var i = 0; i < nMatrices*5; i++, generated++ ) {
temp2= lines[i].split(',');
x = (parseFloat(temp2[0])-center.x)*radius*padding;
y = (parseFloat(temp2[1])-center.y)*radius*padding;
z = (parseFloat(temp2[2])-center.z)*radius*padding;
// Parsing Eigenvectors Matrix (rotation)
temp2= lines[++i].split(',');
xx = parseFloat(temp2[0]);
xy = parseFloat(temp2[1]);
xz = parseFloat(temp2[2]);
temp2= lines[++i].split(',');
yx = parseFloat(temp2[0]);
yy = parseFloat(temp2[1]);
yz = parseFloat(temp2[2]);
temp2= lines[++i].split(',');
zx = parseFloat(temp2[0]);
zy = parseFloat(temp2[1]);
zz = parseFloat(temp2[2]);
mat = new THREE.Matrix4( xx, xy, xz, 0,
yx, yy, yz, 0,
zx, zy, zz, 0,
0, 0, 0, 1 )
//scaling
temp2= lines[++i].split(',');
scale.x = parseFloat(temp2[0]) * 10 + 1;
scale.y = parseFloat(temp2[1]) * 10 + 1;
scale.z = parseFloat(temp2[2]) * 10 + 1;
L = [ scale.x, scale.y, scale.z];
//FRACTIONAL ANISOTROPY
ll = (L[0]+L[1]+L[2])/3;
fa = Math.sqrt(3*(Math.pow((L[0]-ll),2)+Math.pow((L[1]-ll),2)+Math.pow((L[2]-ll),2)));
fa = fa/Math.sqrt(2*(Math.pow(L[0],2)+Math.pow(L[1],2)+Math.pow(L[2],2)));
r = fa * xx + (1-fa);
g = fa * yx + (1-fa);
b = fa * zx + (1-fa);
color = 0xbb0000;
for ( var j = 0; j < Math.floor( (fa) * 100); j ++ ) {
var vertex = new THREE.Vector3();
//draw fa*100 random points on the surface of an ellipsoid with Ri(l1,l2,l3);
u = Math.random()*2*Math.PI;
v = Math.random()*Math.PI;
w = Math.random()*2*Math.PI;
position.x = 0 + ( scale.x * Math.cos(u) * Math.sin(v) * radius );
position.y = 0 + ( scale.y * Math.sin(v) * Math.sin(u) * radius );
position.z = 0 + ( scale.z * Math.cos(v) * radius );
position.w = 1;
position.applyMatrix4(mat);
box = 1;
vertex.x = x + position.x * box;
vertex.y = y + position.y * box;
vertex.z = z + position.z * box;
vertex.w = 1;
geometry.vertices.push( vertex );
geometry.colors.push( new THREE.Color().setRGB(r,g,b) );
}
}
var material = new THREE.ParticleBasicMaterial( { size: 1,
vertexColors: THREE.VertexColors,
depthTest: false,
opacity: 0.3,
sizeAttenuation: false,
transparent: true
} );
var mesh = new THREE.ParticleSystem( geometry, material );
scene.add( mesh );
}
function getColor(l, mat){
switch(colorMapping){
case 'Default':
//FRACTIONAL ANISOTROPY + DIRECTIONAL color mapping
var ll = (l.x+l.y+l.z)/3;
var fa = Math.sqrt(3*(Math.pow((l.x-ll),2)+Math.pow((l.y-ll),2)+Math.pow((l.z-ll),2)));
fa = fa/(Math.sqrt(2*(Math.pow(l.x,2)+Math.pow(l.y,2)+Math.pow(l.z,2))));
var r = fa * Math.abs(mat[0]) + (0.8-fa); //0.8 is a hack
var g = fa * Math.abs(mat[4]) + (0.8-fa); //0.8 is a hack
var b = fa * Math.abs(mat[8]) + (0.8-fa); //0.8 is a hack
break;
case 'Composition':
var e1 = new THREE.Vector3( xx, yx, zx);
var e2 = new THREE.Vector3( xy, yy, zy);
var e3 = new THREE.Vector3( xz, yz, zz);
e1.multiplyScalar(scale.x);
e2.multiplyScalar(scale.y);
e3.multiplyScalar(scale.z);
var v = new THREE.Vector3();
v.addVectors(e1, e2);
v.addVectors(v, e3);
//norma = Math.sqrt(Math.pow(v.x,2)+Math.pow(v.y,2)+Math.pow(v.z,2));
v.normalize();
//FRACTIONAL ANISOTROPY color mapping
var ll = (l.x+l.y+l.z)/3;
var fa = Math.sqrt(3*(Math.pow((L[0]-ll),2)+Math.pow((L[1]-ll),2)+Math.pow((L[2]-ll),2)));
fa = fa/Math.sqrt(2*(Math.pow(L[0],2)+Math.pow(L[1],2)+Math.pow(L[2],2)));
r = fa * Math.abs(v.x) + (1-fa);
g = fa * Math.abs(v.y) + (1-fa);
b = fa * Math.abs(v.z) + (1-fa);
break;
case 'NonAbs':
ll = (l.x+l.y+l.z)/3;
fa = Math.sqrt(3*(Math.pow((l.x-ll),2)+Math.pow((l.y-ll),2)+Math.pow((l.z-ll),2)));
fa = fa/(Math.sqrt(2*(Math.pow(l.x,2)+Math.pow(l.y,2)+Math.pow(l.z,2))));
var r = fa * mat[0] + (1-fa); //hack
var g = fa * mat[4] + (1-fa); //hack
var b = fa * mat[8] + (1-fa); //hack
break;
case 'Determinant':
//Determinant mapping - Cyan/Grey scale
var det = l.x*l.y*l.z;
var r = 1 - Math.log(0.5+(det/info.maxDet));
var g = 1 - Math.log(0.2+(det/info.maxDet));
var b = 1 - Math.log(0.2+(det/info.maxDet));
break;
case 'FA':
//Fractional Anisotropy mapping - red/grey scale
var ll = (l.x+l.y+l.z)/3;
var fa = Math.sqrt(3*(Math.pow((l.x-ll),2)+Math.pow((l.y-ll),2)+Math.pow((l.z-ll),2)));
fa = fa/(Math.sqrt(2*(Math.pow(l.x,2)+Math.pow(l.y,2)+Math.pow(l.z,2))));
var r = Math.sqrt(fa);
var g = fa;
var b = fa;
break;
case 'LPS':
// Linear, planar, spherical mapping - bluish
var cl = (l.x - l.y)/(l.x + l.y + l.z);
var cp = (2*(l.y-l.z))/(l.x+l.y+l.z);
var cs = (3*l.z)/(l.x+l.y+l.z);
var r = Math.sqrt(cl);
var g = Math.sqrt(cp);
var b = cs;
break;
case 'Experimental':
// A composition of other color mappings
var det = l.x*l.y*l.z;
var ll = (l.x+l.y+l.z)/3;
var fa = Math.sqrt(3*(Math.pow((l.x-ll),2)+Math.pow((l.y-ll),2)+Math.pow((l.z-ll),2)));
fa = fa/(Math.sqrt(2*(Math.pow(l.x,2)+Math.pow(l.y,2)+Math.pow(l.z,2))));
var cl = (l.x - l.y)/(l.x + l.y + l.z);
var cp = (2*(l.y-l.z))/(l.x+l.y+l.z);
var cs = (3*l.z)/(l.x+l.y+l.z);
var r = ((fa * Math.abs(mat[0]) + (0.75-fa)) + (1-Math.log(0.5+(det/info.maxDet))) + (Math.sqrt(cl)) + (Math.sqrt(fa)))/4;
var g = ((fa * Math.abs(mat[4]) + (0.75-fa)) + (1-Math.log(0.2+(det/info.maxDet))) + (Math.sqrt(cp)) + (fa))/4;
var b = ((fa * Math.abs(mat[8]) + (0.75-fa)) + (1-Math.log(0.2+(det/info.maxDet))) + (cs) + (fa))/4;
break;
case 'EigenRGB':
scale.x = 10;
scale.y = scale.x;
scale.z = scale.x;
var r = parsed.eigs.x;
var g = parsed.eigs.y;
var b = parsed.eigs.z;
}
return color.setRGB( r,g,b );
}
function onMouseMove( e ) {
mouse.x = e.clientX;
mouse.y = e.clientY;
}
function animate() {
requestAnimationFrame( animate );
render();
stats.update();
}
function render() {
controls.update();
renderer.render( scene, camera );
}
</script>
</body>
</html>