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bayespiles.html
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<!DOCTYPE html>
<html
>
<head>
<link rel="stylesheet" type="text/css" href="bayespiles-styles.css">
</head>
<title>BayesPiles</title>
<body>
<div id="mainMenu">
<div id="sessions">
<!--
<button type="button" onclick="saveSession()">Save Session</button>
<button type="button" onclick="exportSession()">Export Session</button>
<button type="button" onclick="undo()" hidden>Undo</button>
<button type="button" onclick="redo()" hidden>Redo</button>
Animate: <input id="animateCheckBox"type="checkbox" checked/>
Zoom: <input id="cellSizeBox" type="range" name="cellSizeBox" min="1" max="20" onchange="updateCellSize()" value="4"/>
TV Commented-->
<!-- <br/> -->
<!-- <label>Session Name: </label><input type="text" id="sessionName" size="80"> -->
<!-- </div> -->
<!-- <br/> -->
<!-- <div id="pileMenu"> -->
<label class="sliderLabel">Sorted by:</label>
<input type = "radio"
name = "sortBy"
onchange = "sortNetworks(this);"
id = "sort_run_id"
value = "run" />
<!-- TVchecked = "checked" /> -->
<label for = "sort_run_id" class="sliderLabel">run ID</label>
<input type = "radio"
name = "sortBy"
onchange = "sortNetworks(this);"
id = "sort_desc"
value = "descending" />
<label for = "sort_desc" class="sliderLabel">score</label>
<input type = "radio"
name = "sortBy"
onchange = "sortNetworks(this);"
id = "sort_iteration"
value = "ascending" />
<label for = "sort_iteration" class="sliderLabel">iteration</label>
<label class="sliderLabel">Node Order:</label>
<select id="allNodeOrder" onchange="allNodeOrderChanged()">
<option class="sliderLabel">Data: As indicated in data</option>
<option class="sliderLabel">Global: Same for all matrices </option>
<option class="sliderLabel" hidden>Individual: Optimized for each pile</option>
</select>
<label class="sliderLabel">Cover Matrix:</label>
<select id="allCover" onchange="allCoverChanged()">
<option class="sliderLabel">Summary</option>
<option hidden>Bar Charts</option>
<option hidden>Trend</option>
<option hidden>Variability</option>
<option class="sliderLabel" hidden>Sequential Difference</option>
<option class="sliderLabel">Direct Difference (to hovered matrix)</option>
</select>
<!-- TV </div> -->
<!-- TV
<div>
<button class="descend">sort descending</button>
<button class="byDataSet">sort by data set</button>
</div>
-->
<!-- TV
<label class="sliderLabel">Sorted by:</label>
<select id="allSort" onchange="sortNets();">
<option class="sliderLabel">run ID</option>
<option class="sliderLabel">score</option>
<option class="sliderLabel">iteration</option>
</select>
-->
<text class="sliderLabel">Zoom:</text> <input id="cellSizeBox" type="range" name="cellSizeBox" min="1" max="20" onchange="updateCellSize();updateZoomPercentage(this.value);" value="6"/><input type="text" style="width: 30px; class="sliderLabel" id="zoomPerc" value="" readonly>
<label for = "gr_id" class="sliderLabel">Grid:</label>
<input type="checkbox" id="gr_id" name="grid_checkbox" onchange="redrawPiles(piles);"/>
<div id="bpc">
<!-- TV <form id="filterNodesForm"> -->
<text class="sliderLabel">Filter nodes:<text> <input type="checkbox" id="cbox4" name="node_filter_checkbox" onchange="updateControls(this);redrawPiles(piles);"/><input id="connectivityThresSlider" type="range" name="connectivityThres" min="0" max="100" onchange="redrawPiles(piles);updateConnectivity(this.value);" value="0" disabled="true"/><input type="text" style="width: 30px;" class="sliderLabel" id="textCon" value="" readonly>
<!-- TV </form> -->
<!-- TV<form id="filterEdgesForm">-->
<text class="sliderLabel">Filter edges:<text> <input type="checkbox" id="cbox" name="edge_filter_checkbox" onchange="updateControls(this);redrawPiles(piles);"/><input id="percentageThresSlider" type="range" name="percentageThres" min="0" max="100" onchange="redrawPiles(piles);updatePercentage(this.value);" value="0" disabled="true"/><input type="text" style="width: 30px;" class="sliderLabel" id="textPerc" value="" readonly>
<!-- TV</form> -->
<label class="sliderLabel">Mode:</label>
<input type = "radio"
name = "modeOf"
onchange = "redrawPiles(piles);timeline.updateLayout(0,false);allCoverChanged();"
id = "top-down_id"
value = "top-down"
checked = "checked" />
<label for = "top-down_id" class="sliderLabel">Top-Down</label>
<input type = "radio"
name = "modeOf"
onchange = "redrawPiles(piles);timeline.updateLayout(0,false);allCoverChanged();"
id = "dim_id"
value = "ascending" />
<label for = "dim_id" class="sliderLabel">Diamond</label>
<input type = "radio"
name = "modeOf"
onchange = "redrawPiles(piles);timeline.updateLayout(0,false);allCoverChanged();"
id = "sk_id"
value = "descending" />
<label for = "sk_id" class="sliderLabel">Skeleton</label>
<input type="textarea" rows="1" id="filteredNodesList" placeholder="filtered nodes appear here." value="" readonly>
<!--TV
<table class="fixed">
<col width="10%" />
<col width="3%" />
<col width="23%" />
<col width="6%" />
<tr>
<td><text class="sliderLabel">Zoom:</text></td><td> </td><td> <input id="cellSizeBox" type="range" name="cellSizeBox" min="1" max="20" onchange="updateCellSize()" value="6"/></td><td></td><td></td>
</tr>
<tr>
<form id="filterEdgesForm">
<td><text class="sliderLabel">Filter edges:<text></td><td> <input type="checkbox" id="cbox" name="edge_filter_checkbox" onchange="updateControls(this);redrawPiles(piles);"/></td><td><input id="percentageThresSlider" type="range" name="percentageThres" min="0" max="100" onchange="redrawPiles(piles);updatePercentage(this.value);" value="0" disabled="true"/></td><td style="width: 100%;"><input type="text" class="sliderLabel" id="textPerc" value="" readonly></td><td></td>
</form>
</tr>
<tr>
<form id="filterNodesForm">
<td><text class="sliderLabel">Filter nodes:<text></td><td> <input type="checkbox" id="cbox4" name="node_filter_checkbox" onchange="updateControls(this);redrawPiles(piles);"/></td><td><input id="connectivityThresSlider" type="range" name="connectivityThres" min="0" max="100" onchange="redrawPiles(piles);updateConnectivity(this.value);" value="0" disabled="true"/></td><td><input type="text" id="textCon" value="" readonly></td><td><input type="textarea" rows="1" id="filteredNodesList" placeholder="filtered nodes appear here." value="" readonly></td>
</form>
</tr>
-->
<!--TV
<tr>
<form id="showAAH">
<td><text class="sliderLabel">Diamond mode:<text></td><td> <input type="checkbox" id="cbox2" name="direction_checkbox" onchange="updateControls(this);redrawPiles(piles);"/></td><td></td></td><td></td>
</form>
</tr>
<tr>
<form id="skelMode">
<td><text class="sliderLabel">Skeleton mode:<text></td><td> <input type="checkbox" id="cbox3" name="skeleton_checkbox" onchange="updateControls(this);redrawPiles(piles);timeline.updateLayout(0,false);"/></td><td></td></td><td></td>
</form>
</tr>
-->
<!--TV </table> -->
</div>
<!--TV <div>
<label class="sliderLabel">Mode:</label>
<input type = "radio"
name = "modeOf"
onchange = "redrawPiles(piles);timeline.updateLayout(0,false);allCoverChanged();"
id = "top-down_id"
value = "top-down"
checked = "checked" />
<label for = "top-down_id" class="sliderLabel">Top-Down</label>
<input type = "radio"
name = "modeOf"
onchange = "redrawPiles(piles);timeline.updateLayout(0,false);allCoverChanged();"
id = "dim_id"
value = "ascending" />
<label for = "dim_id" class="sliderLabel">Diamond</label>
<input type = "radio"
name = "modeOf"
onchange = "redrawPiles(piles);timeline.updateLayout(0,false);allCoverChanged();"
id = "sk_id"
value = "descending" />
<label for = "sk_id" class="sliderLabel">Skeleton</label>
</div>
-->
<div id="chartTimeline" style="margin-top:10px"></div>
<div id="pilesPlot" height="1000"></div>
<!--TV </div> -->
<script src="lib/d3.min.js"></script>
<script src="lib/jquery.js"></script>
<script src="lib/colors.js"></script>
<script src="lib/science.js"></script>
<script src="lib/reorder.js"></script>
<script src="lib/jstorage.js"></script>
<script src="lib/three.min.js"></script>
<script src="lib/glUtils.js"></script>
<script src="lib/OrbitControls.js"></script>
<script src="classes/pile.js"></script>
<script src="classes/matrix.js"></script>
<script src="classes/timeline.js"></script>
<script src="classes/slider.js"></script>
<script src="classes/PileTools.js"></script>
<script src="classes/sessions.js"></script>
<script src="classes/pileutils.js"></script>
<script src="classes/animations.js"></script>
<script src="fonts/gentilis_bold.typeface.js"></script>
<script src="fonts/gentilis_regular.typeface.js"></script>
<script src="fonts/optimer_bold.typeface.js"></script>
<script src="fonts/optimer_regular.typeface.js"></script>
<script src="fonts/helvetiker_bold.typeface.js"></script>
<script src="fonts/helvetiker_regular.typeface.js"></script>
<script src="fonts/droid/droid_sans_regular.typeface.js"></script>
<script src="fonts/droid/droid_sans_bold.typeface.js"></script>
<script src="fonts/droid/droid_serif_regular.typeface.js"></script>
<script src="fonts/droid/droid_serif_bold.typeface.js"></script>
<!-- TV <script src="http://www.macwright.org/simple-statistics/simple_statistics.js"></script> -->
<script type="x-shader/x-vertex" id="vertexshader">
attribute vec3 customColor;
varying vec3 vColor;
void main() {
vColor = customColor;
gl_Position = projectionMatrix * modelViewMatrix * vec4( position, 1.0 );
}
</script>
<script type="x-shader/x-fragment" id="fragmentshader">
varying vec3 vColor;
void main() {
gl_FragColor = vec4( vColor, 1);
}
</script>
<script>
// SETTINGS
var SHOW_MATRICES = 1000;
var FILE = "data/Parkinsons_Patient_RC4101_1_graphdat.json"
var SHOW_ANTICORRELATION = false;
var PRE_PILE = false;
var CELL_THRESHOLD = 0.0; // only cells above are shown
var SNAKE = true;
var TIMELINE_HEIGHT = 180; //130; TV
// var TIMELINE_HEIGHT = 0;
var DIAGONAL_VALUE = 0.11;
var SVG_MENU_HEIGHT = 30;
var LABEL_DIST = 60;
var LABEL_WIDTH = 130;
// var CELL_SIZE = 10
var CELL_SIZE = 6
var CELL_SIZE_HALF = CELL_SIZE/2;
var PREVIEW_SIZE = 3
var MARGIN_TOP = 70;
var MARGIN_BOTTOM = 30;
var MARGIN_RIGHT = 20;
var MARGIN_LEFT = 80;
var MATRIX_GAP_VERTICAL = 30;
var MATRIX_GAP_HORIZONTAL = 10;
var PILE_TOOL_SIZE = 15
var svg, svgTimeline, svgMenu;
// Animation
var FPS = 20
var DURATION = 500
var waitWindow // shown when server calculates similarity
// var _courseWidth = $(window).width() - MARGIN_LEFT - MARGIN_RIGHT;
// var _courseHeight = $(window).height() +200//- MARGIN_LEFT - MARGIN_RIGHT;
var _courseWidth = $(window).width() - 40
var _courseHeight = $(window).height()
var dynamicdata;
var graphMatrices // graph matrices
var adjacentDistances;
var maxDistance = 0;
var pilingMethod = 'clustered'
var matrixStrings = ''
var piles = []; // contains all piles. Each pile contains matrices, not indices
var matrixPos = []; // index of pile in layout array
var matrices = []; // contains all matrices
var matricesPileIndex = []; // contains pile index for each matrix.
// TV a pile of consensus matrices
var consensus = [];
var consensusPile; //TV = new Pile(0, scene, allPileOrdering[orderMenu.selectedIndex], _zoomFac);
var hoveredMatrix;
var draggingMatrix; // index of currently dragged matrix (for matrices[])
var selectedMatrices = [];
var dragActive = false;
var hoveredGapPile = undefined
var openedPileRoot = undefined
var openedPileMatrices = []
var activePile; // pile that contains last mouse hovered matrix
var activeMatrixInPileIndex; // index of last hovered matrix in pile
var matrixGapMouseover = false;
var timeline;
var nodes = [];
var focusNodes = [] // currently visible nodes (changed by the user)
var _matrixWidth
var _matrixWidthHalf
var rightClick = false;
var _cols;
var shiftDown = false;
var _isLoadedSession = false
var _isSavedSession = false
// var START_ROW = 0;
// var END_ROW = 0;
// var START_COL = 0;
// var END_COL = 0;
var MODE_SUMMARY = 0
var MODE_BARCHART = 1
var MODE_TREND = 2
var MODE_VARIABILITY = 3
var MODE_DIFFERENCE = 4
var MODE_DIRECT_DIFFERENCE = 5
var ORDER_DATA = 0
var ORDER_GLOBAL = 1
var ORDER_LOCAL = 2
var orderMenu = document.getElementById('allNodeOrder')
var sortMenu = document.getElementById('allSort')
var coverMatrixMenu = document.getElementById('allCover')
var allPileOrdering = []
var focusNodeAllPileOrdering = [] // array containing the orderings for all piles, when not all nodes are focused on
var _zoomFac = 1
var slider;
var pileIDCount = 1; //TV changed from 0 to allocate 0 to consensus pile
var startPile = 0;
// var this.zoomedMatrix = null;
var maxValue = 0
var cellValue = d3.scale
.linear()
// .log()
.range([0,1])
.nice()
var SESSION_NAME;
// var _pileToolsVisible = true
labelTextSpec.size = CELL_SIZE-1
// Load available files
// var csvRequest
var fileNames = [];
$.get('data', function( data ) {
var list = data.split('href="')
for(var i=0 ; i<list.length ; i++){
if(list[i].indexOf('.dyjson') == -1) continue
$("#fileSelection")
.append('<option>data/' + list[i].split('"')[0] + '</option>')
}
});
// If the user changes the focus nodes, matrix similarity must be recalculated before automatic piling. Distance calculation is performed on the server.
var dMat = [];
var pdMat = []; // contains similarity between piles
var pdMax = 0;
var pileDistanceColor // value range for similarity
//TV: connectivity does not take into account autocorrelation
var connectivity = []
var COLOUR = ['#000000','#8dd3c7','#fb8072','#80b1d3','#fdb462','#fccde5','#ccebc5','#bc80bd','#ffed6f','#d9d9d9','#ffffb3','#bebada']
retrieveSessions();
// find an ordering for all nodes that shows clustering across the
// sum of all individual time step matrices.
function calculateGlobalOrder(graph) {
var max = 0;
var globalMatrix = [];
for (var i=0 ; i<graph.times[0].matrix.length ;i++) {
globalMatrix[i] = [];
//TV for (var j=0 ; j< graph.times[0].matrix[i].length; j++) {
for (var j=0 ; j< graph.times[0].matrix.length; j++) {
globalMatrix[i][j] = 0;
}
}
for (var t=0 ;t < Math.min(SHOW_MATRICES,graph.times.length) ;t++) {
for (var i=0 ;i < graph.times[t].matrix.length ;i++) {
//TV for (var j=0; j < graph.times[t].matrix[i].length ;j++) {
for (var j=0; j < graph.times[t].matrix.length ;j++) {
if(graph.times[t].matrix[i][j] > CELL_THRESHOLD){
// graph.times[t].matrix[i][j]++
// graph.times[t].matrix[j][i]++
globalMatrix[i][j] += Math.abs(graph.times[t].matrix[i][j])
//TV globalMatrix[j][i] += Math.abs(graph.times[t].matrix[j][i])
max = Math.max(max, graph.times[t].matrix[i][j]);
}
}
}
}
// CELL_THRESHOLD++
cellValue.domain([CELL_THRESHOLD, max])
// 2) Reorder
var leafOrder = reorder.leafOrder()
.distance(science.stats.distance.manhattan)(globalMatrix);
var order = []
leafOrder.forEach(function (lo, i) {
order[i] = lo;
});
return order;
}
function init(){
FILE = location.search.split('data=')[1]
var d=new Date();
SESSION_NAME = FILE + "-"
+ d.getDate()
+ "/" + (d.getMonth()+1)
+ "/" + d.getYear()
+ "-" + d.getHours() + ":" + d.getMinutes();
loadFile(FILE)
}
function exportSession(){
if(!SESSION_NAME){
var menu = $('#sessionSelection')[0];
SESSION_NAME = menu.options[menu.selectedIndex].text;
}
// save before export
saveSession()
var dump = getSessionDump(SESSION_NAME);
var url = 'data:text/json;charset=utf8,' + encodeURIComponent(dump);
window.open(url, '_blank');
window.focus();
}
function exportPileMeasures(){
var mean
var dump = ""
dump += '"Data name "' + SESSION_NAME + '\n'
dump += '"Number of piles", ' + piles.length + '\n'
for(var p=0 ; p<piles.length ; p++){
mean = 0
for(var t=0 ; t<piles[p].size() ; t++){
for(var i=0 ; i<nodes.length ; i++){
//TV for(var j=i ; j<nodes.length ; j++){
for(var j=0 ; j<nodes.length ; j++){
mean += piles[p].getMatrix(t).matrix[i][j]
}
}
}
mean /= ((nodes.length * nodes.length + nodes.length) / 2) * piles[p].size()
dump += '"Pile ' + p + '", ' + piles[p].size() + ', ' + mean + '\n'
}
var url = 'data:text/csv;charset=utf8,' + encodeURIComponent(dump);
window.open(url, '_blank');
window.focus();
}
// WebGL setup:
// _courseHeight = 5000
var scene = new THREE.Scene();
var w = _courseWidth;
var h = _courseHeight;
var camera = new THREE.OrthographicCamera(
_courseWidth / - 2,
_courseWidth / 2,
_courseHeight / 2,
_courseHeight / - 2,
1, 11)
scene.add(camera);
camera.position.z = 10;
camera.position.x = _courseWidth/2 - 120; //TV was -50 leave more space for user defined consensus pile.
var topScrollLimit = MARGIN_TOP -_courseHeight/2
camera.position.y = topScrollLimit - 60; //TV added -60 to leave less space from the histogram
var renderer = new THREE.WebGLRenderer({antialias: true})
renderer.setSize(_courseWidth, _courseHeight)
renderer.setClearColor( 0xffffff, 1);
//TV renderer.setClearColor( 0xffffff, 1);
var canvas = renderer.domElement;
canvas.addEventListener('click', function(e){
clickCanvas(e)
})
canvas.addEventListener('dblclick', function(e){
doubleClickCanvas(e)
}) //TV on double click add/remove matrix/pile in/from the consensus pile and annotate addition/deletion in timeline adding a dot over the score bar.
//TV canvas.addEventListener('mousedown', function(e){
//TV canvasMouseDown(e)
//TV })
//TV canvas.addEventListener('mouseup', function(e){
//TV canvasMouseUp(e)
//TV })
canvas.addEventListener('mousemove', function(e){
mouseMove(e)
})
canvas.addEventListener('mousewheel', mouseWheelChanged, false );
var origin = new THREE.Vector3()
var raycaster = new THREE.Raycaster()
var pileMeshes = []
init()
function render(){
var d = new Date();
var begin = d.getTime()
renderer.render(scene, camera)
d = new Date();
// console.log('>>>> RENDERED ', (d.getTime() - begin), ' ms.')
for(var i=0 ; i<visiblePileTools.length ; i++){
scene.remove(visiblePileTools[i])
}
}
function loadFile(file){
console.log('loadFile')
$('#pilesPlot').append(canvas)
// $('#sessionName').val(SESSION_NAME)
SNAKE = false
FILE = file;
console.log(file);
$('#menuLoadData').remove();
$('#sessions').css({ opacity: 1});
d3.json(file,function (graph)
{
svgTimeline = d3.select("#chartTimeline")
.append("svg")
.attr("width", _courseWidth)
.attr("height", TIMELINE_HEIGHT + 52); //20); TV
console.log("t");
// TV sort matrices on scores rather than as they appear in JSON
//console.log(graph.times[0]);
console.log(document.getElementById("sort_run_id").checked);
setOrder();
//TV if (document.getElementById("sort_asc").checked)
//TV {
//TV graph.times = graph.times.sort(function(x, y){
//TV return d3.ascending(x.score, y.score);
//TV })
//TV }
if (document.getElementById("sort_desc").checked)
{
graph.times = graph.times.sort(function(x, y){
return d3.ascending(y.score, x.score);
})
} else if (document.getElementById("sort_iteration").checked)
{
graph.times = graph.times.sort(function(x, y){
return d3.ascending(y.iteration, x.iteration);
})
graph.times = graph.times.sort(function(x, y){
return d3.ascending(x.run_id, y.run_id);
})
}
// READ DATA
dynamicdata = graph;
nodes = graph.nodes;
var s
for(var i=0 ; i<nodes.length ; i++){
focusNodes.push(i)
s = nodes[i].name +''
nodes[i].name = s.trim()
}
// TV matrices stored in an array
graphMatrices = []
for(var i=0 ;i<graph.times.length && i<SHOW_MATRICES;i++){
graphMatrices.push(graph.times[i].matrix)
}
//TV also store scores in an array needed in timeline.js
graphScores = []
for(var i=0 ;i<graph.times.length && i<SHOW_MATRICES;i++){
graphScores.push(graph.times[i].score)
}
// TV TODO: update to consider the full matrix not just upper triangle
calculateDistanceMatrix()
// INIT LAYOUT
var n = graph.nodes.length;
_matrixWidth = n * CELL_SIZE;
_matrixWidthHalf = _matrixWidth/2;
highlightFrame = GLUtils.createRectFrame(_matrixWidth, _matrixWidth, 0xff8100, 10)
_cols = Math.floor(
(_courseWidth - MARGIN_LEFT - MARGIN_RIGHT) / (_matrixWidth + MATRIX_GAP_HORIZONTAL)
)-1
// console.log('cols',_cols)
// _cols = 12
END_ROW = n-1;
END_COL = n-1;
allPileOrdering[ORDER_DATA] = []
allPileOrdering[ORDER_GLOBAL] = []
for(var i=0 ; i<nodes.length ; i++){
allPileOrdering[ORDER_DATA].push(i)
}
allPileOrdering[ORDER_GLOBAL] = calculateGlobalOrder(graph);
var menuX = MARGIN_LEFT;
// svg = d3.select("#pilesPlot")
// .append('svg')
// .attr("width", _courseWidth)
// .attr("height", 50)
// INIT PILES (each single matrix is a pile)
if (PRE_PILE) {
for (var i = 0; i < graph.clusters.length; i++)
piles.push(new Pile(pileIDCount++, scene, allPileOrdering[orderMenu.selectedIndex], _zoomFac));
// calculatePiles();
} else if (false) { // TV a pile is created for each matrix
for (var i = 0; i < Math.min(SHOW_MATRICES, graph.times.length) ; i++) {
var p = new Pile(pileIDCount++, scene, allPileOrdering[orderMenu.selectedIndex], _zoomFac);
piles.push(p);
}
} else { // TV a pile is created for each matrix
for (var i = 0; i < Math.min(SHOW_MATRICES, graph.times.length) ; i++) {
//for (var i = 0; i < graph.run_id.length; i++)
var p = new Pile(pileIDCount++, scene, allPileOrdering[orderMenu.selectedIndex], _zoomFac);
piles.push(p);
}
}
// INIT MATRICES
for (var t = 0 ; t < Math.min(SHOW_MATRICES, graph.times.length) ; t++) {
// Obtain pile for new matrix
var p = piles[t]
if(PRE_PILE){
for (var i = 0; i < graph.clusters.length; i++){
if(graph.clusters[i].indexOf(t) > -1){
p = piles[i];
break;
}
}
}
//TV console.log(graph.times[t].score);
//TV this is where the matrices from the data graph.times[t].matrix are loaded to the collection of piles: p = piles[t]
// Create matrix
var matrix = new Matrix(
t,
graph.times[t].run_id,
graph.times[t].matrix,
graph.times[t].score, //TV score added as an attribute of every Matrix
graph.times[t].iteration // TV iteration added as an attribute of every Matrix (prob not used)
)
//TV except from the collection of piles: p, it seems that the matrix object is also added in the local data array: matrices
matrices.push(matrix);
p.addMatrices([matrix]);
p.draw()
}
updateLayout(0, false);
// CREATE TIMELINE
timeline = new Timeline();
timeline.updateLayout();
timeline.updateNodeOrder(allPileOrdering[orderMenu.selectedIndex]);
if(_isLoadedSession)
finalizeLoadSession()
// create wait window
waitWindow = svgTimeline.append('g')
.attr('id', 'waitWindow')
.attr('transform', 'translate('+(_courseWidth/2 -200) + ',' +20 + ')')
waitWindow.append('rect')
.attr('x', 0).attr('y', 0)
.attr('width', 400)
.attr('height',100)
.style('fill', '#fff')
.style('stroke', '#000')
.style('opacity', .98);
waitWindow.append('text')
.attr('x', 100)
.attr('y', 40)
.attr('class', 'infotext')
.text('Please wait ...')
showWait(false)
//TV
this.consensusPile = new Pile(0, scene, allPileOrdering[orderMenu.selectedIndex], _zoomFac);
// RENDER
render()
savePilingHistory()
// selectNodes()
// calculatePrecisePiling()
// exportPileMeasures()
//TV
calculateConnectivity();
//TV
updateConnectivity(0);
}); // TV ENDOF d3.json(file)
} // TV ENDOF loadFile(file)
var highlightFrame
//TV variable for the grid
var gridFrame
var dotmesh
function highlightPile(pile){
highlightFrame.position.set(pile.x, pile.y, 0)
highlightFrame.visible = true
scene.add(highlightFrame)
}
function highlightNoPile(){
scene.remove(highlightFrame)
//TV TODO also set opacity to 1 for all timelineMatrix_id
d3.selectAll(".timelineMatrix")
//.transition()
.style("opacity", 1);
//.attr('opacity', 1)
}
function removeGridFrame(){
scene.remove(gridFrame)
render()
}
function removeDotMesh(){
scene.remove(dotmesh)
render()
}
function focusOn(nodes){
focusNodes = nodes
// update sizes
_matrixWidth = CELL_SIZE * focusNodes.length
_matrixWidthHalf = _matrixWidth/2
// _cols = Math.floor((_courseWidth- MARGIN_RIGHT) / (_matrixWidth + MATRIX_GAP_HORIZONTAL))
_cols = Math.floor((_courseWidth - MARGIN_LEFT - MARGIN_RIGHT) / (_matrixWidth + MATRIX_GAP_HORIZONTAL))-1
calculateDistanceMatrix()
// update highlight frame
scene.remove(highlightFrame)
highlightFrame = GLUtils.createRectFrame(_matrixWidth, _matrixWidth, 0x000000, 10)
scene.add(highlightFrame)
// redraw
for(var i=0 ; i<piles.length ; i++){
piles[i].updateFrame()
}
consensusPile.updateFrame()
redrawPiles(piles)
this.updateLayout(0, true)
render()
}
function calculateDistanceMatrix(){
dMat = []
var data = pileUtils.calculateDistance(graphMatrices, focusNodes)
dMat = data.distanceMatrix
pdMat = data.distanceMatrix
maxDistance = data.maxDistance;
pdMax = maxDistance // initialize
// pileDistanceColor.domain([0,pdMax])
// ADD SLIDER
if(slider)
slider.destroy()
slider = new Slider(svgTimeline, TIMELINE_HEIGHT, 0, maxDistance);
setPileSliderTick(0.25, graphMatrices)
setPileSliderTick(0.5, graphMatrices)
setPileSliderTick(0.75, graphMatrices)
}
function setPileSliderTick(frac, matrices){
var value = maxDistance * frac
var piling = pileUtils.calculateClusterPiling(maxDistance * frac, matrices, dMat)
var label = (maxDistance * frac).toFixed(2) + ' (' + (piling.length) + ')'
slider.setTick(label, maxDistance * frac)
}
function calculatePrecisePiling(){
var value = parseFloat($('#precisePilingValue').val())
calculatePiles(value)
slider.setSliderKnob(value)
}
function selectNodes(){
var value = $('#filteredNodes').val()
var desiredNodes = value.split(',')
for(var i=0 ; i<desiredNodes.length ; i++){
desiredNodes[i] = desiredNodes[i].trim()
}
var newNodes = []
for(var i=0 ; i<nodes.length ; i++){
for(var j=0 ; j<desiredNodes.length ; j++){
if(desiredNodes[j] == nodes[i].name)
newNodes.push(i)
}
}
focusOn(newNodes)
}
function showWait(b){
if(b){
svgTimeline.append(function () { return waitWindow[0][0] })
}else{
d3.select('#waitWindow').remove();
}
}
////////////////////////////////
/// PILING
var pilingAnimations = []
var interval
/* Starts all animations in pilingAnimations array.*/
function startAnimations(){
console.log('----> START ANIMATIONS')
clearInterval(interval)
interval = setInterval(function(){
for(var i=0 ; i<pilingAnimations.length ; i++){
pilingAnimations[i].step()
if(pilingAnimations[i].done)
pilingAnimations.splice(i,1)
}
if(pilingAnimations.length == 0){
clearInterval(interval)
interval = undefined
updateLayout()
pilingAnimations = []
savePilingHistory()
console.log('----> ANIMATIONS DONE')
}
render()
}, 500/FPS)
}
/** Piles a set of matrices onto a target pile
removes it from source pile, and
updates the layout.
If animated=true, a PilingAnimation is created and stored
in the pilingAnimations array. Animations are started by
calling startPilingAnimations()
*/
function pile(mats, targetPile, animate)
{
if(!animate) animate = false
if(animate){
pilingAnimations.push(new PilingAnimation(targetPile, mats))
}else{
var matricesToPile = mats.slice(0);
var insertIndex;
var pos;
var m;
var sourcePile, spi; // source-pile-index
var sourcePiles = []
for (var i = 0; i < matricesToPile.length; i++)
{
m = matricesToPile[i];
sourcePile = m.pile;
sourcePile.removeMatrices([m]);
if(sourcePile.size() == 0 && sourcePile != targetPile){
destroyPile(sourcePile)
}
}
targetPile.addMatrices(matricesToPile);
sortTime(targetPile)
redrawPiles(piles)
updateLayout(0, true)
timeline.updateLayout();
render()
}
}
/*Piles all matrices prior to the selected one, including the selected one.*/
function pileBackwards(p)
{
var i = piles.indexOf(p)
var mats = []
var num
if(p.size() == 1){
// console.log('pile matrices')
for(var j=i ; j>=0 ; j--){
if(j==0 || piles[j-1].size() > 1){
pile(mats, piles[j], $('#animateCheckBox').is(':checked'))
startAnimations()
return
}else{
mats.push.apply(mats, piles[j].getMatrices())
}
}
}else{
if(piles.indexOf(p) > 0){
pile(p.pileMatrices, piles[piles.indexOf(p)-1], $('#animateCheckBox').is(':checked'))
}
}
startAnimations()
}
function depile(pile, animated){
var startPos = {x:0, y:0}
var newPiles = []
if(animated){
startPos.x = pile.x
startPos.y = pile.y
}
var mats = [];
var ix = piles.indexOf(pile);
mats.push.apply(mats, pile.pileMatrices)
if(mats.length == 1) return;
for(var i=mats.length-1 ; i>0 ; i--){
pile.removeMatrices([mats[i]])
var pNew = new Pile(pileIDCount++, scene, allPileOrdering[orderMenu.selectedIndex], _zoomFac);
pNew.colored = pile.colored;
piles.splice(ix+1, 0, pNew);
pNew.addMatrices([mats[i]])
pNew.draw();
newPiles.push(pNew)
}
if(orderMenu.selectedIndex == ORDER_LOCAL)
pile.setNodeOrder(pile.calculateLocalOrder())
pile.draw()
this.updateLayout(0, true);
timeline.updateLayout();
if(animated){
console.log('depile animated')
pilingAnimations.push(new DepileAnimation(newPiles, startPos))
startAnimations()
}