view test-data/centrifuge_test/test4_tsv.html @ 4:12f0968f171c draft

planemo upload for repository https://github.com/galaxyproject/tools-iuc/blob/master/tools/recentrifuge commit fbb5d7bb68cbb5f497cdda3c0697b21b046a8262
author iuc
date Thu, 25 Jan 2024 17:02:43 +0000
parents fe733f05c2f8
children
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rel="stylesheet" href="https://fonts.googleapis.com/css?family=Ubuntu"><script id="notfound">window.onload=function(){document.body.innerHTML=""}</script><script language="javascript" type="text/javascript">{//----------------------------------------------------------------------------
// 
// PURPOSE
// 
// Krona is a flexible tool for exploring the relative proportions of
// hierarchical data, such as metagenomic classifications, using a
// radial, space-filling display. It is implemented using HTML5 and
// JavaScript, allowing charts to be explored locally or served over the
// Internet, requiring only a current version of any major web
// browser. Krona charts can be created using an Excel template or from
// common bioinformatic formats using the provided conversion scripts.
// 
// 
// COPYRIGHT LICENSE
// 
// Copyright (c) 2011, Battelle National Biodefense Institute (BNBI);
// all rights reserved. Authored by: Brian Ondov, Nicholas Bergman, and
// Adam Phillippy
// 
// This Software was prepared for the Department of Homeland Security
// (DHS) by the Battelle National Biodefense Institute, LLC (BNBI) as
// part of contract HSHQDC-07-C-00020 to manage and operate the National
// Biodefense Analysis and Countermeasures Center (NBACC), a Federally
// Funded Research and Development Center.
// 
// Redistribution and use in source and binary forms, with or without
// modification, are permitted provided that the following conditions are
// met:
// 
// * Redistributions of source code must retain the above copyright
//   notice, this list of conditions and the following disclaimer.
// 
// * Redistributions in binary form must reproduce the above copyright
//   notice, this list of conditions and the following disclaimer in the
//   documentation and/or other materials provided with the distribution.
// 
// * Neither the name of the Battelle National Biodefense Institute nor
//   the names of its contributors may be used to endorse or promote
//   products derived from this software without specific prior written
//   permission.
// 
// THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS
// "AS IS" AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT
// LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR
// A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT
// HOLDER OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL,
// SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT
// LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE,
// DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY
// THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT
// (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE
// OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
// 
// 
// TRADEMARK LICENSE
// 
// KRONA(TM) is a trademark of the Department of Homeland Security, and use
// of the trademark is subject to the following conditions:
// 
// * Distribution of the unchanged, official code/software using the
//   KRONA(TM) mark is hereby permitted by the Department of Homeland
//   Security, provided that the software is distributed without charge
//   and modification.
// 
// * Distribution of altered source code/software using the KRONA(TM) mark
//   is not permitted unless written permission has been granted by the
//   Department of Homeland Security.
// 
// 
// FOR MORE INFORMATION VISIT
// 
// https://github.com/marbl/Krona/wiki/
// 
//----------------------------------------------------------------------------
//
// Copyright (C) 2017-2024 Jose Manuel Martí Martínez, for the changes in
// this file from the Krona Javascript 2.0 release.
//
// Redistribution and use in source and binary forms, with or without
// modification, are permitted provided that the above copyright notice is
// reproduced and all the above conditions are met.
//
// The KRONA(TM) mark has been substituted in the generated charts by
// another logo in compliance with the above-stated conditions.
//
// FOR MORE INFORMATION VISIT
//
// https://github.com/khyox/recentrifuge/wiki/
//
//----------------------------------------------------------------------------
}

///////////////
// Variables //
///////////////

var canvas;
var canvasButtons = [];  // Keep trace of CanvasButton objects
var ChartEnum = Object.freeze({
    TAXOMIC: 'taxonomic',
    GENOMIC: 'genomic'
})
var chart = ChartEnum.TAXOMIC
var context;
var svg; // for snapshot mode
var collapse = true;
var collapseCheckBox;
var collapseLast;
var compress;
var compressCheckBox;
var maxAbsoluteDepthText;
var maxAbsoluteDepthButtonDecrease;
var maxAbsoluteDepthButtonIncrease;
var fontSize = 12;
var fontSizeText;
var fontSizeButtonDecrease;
var fontSizeButtonIncrease;
var fontSizeLast;
var bkgBright = "eeeeee";
var bkgBrightButtonDecrease;
var bkgBrightButtonIncrease;
var radiusButtonDecrease;
var radiusButtonIncrease;
var shorten;
var shortenCheckBox;
var maxAbsoluteDepth;
var backButton;
var upButton;
var forwardButton;
var snapshotButton;
var snapshotMode = false;
var details;
var detailsName;
var search;
var searchResults;
var nSearchResults;
var useHueCheckBox;
var useHueDiv;
var sortByScoreCheckBox;
var datasetDropDown;
var datasetButtonLast;
var datasetButtonPrev;
var datasetButtonNext;
var rankDropDown;
var keyControl;
var showKeys = true;
var linkButton;
var linkText;
var frame;

// Node references. Note that the meanings of 'selected' and 'focused' are
// swapped in the docs.
//
var head; // the root of the entire tree
var selectedNode = 0; // the root of the current view
var focusNode = 0; // a node chosen for more info (single-click)
var highlightedNode = 0; // mouse hover node
var highlightingHidden = false;
var nodes = new Array();  // Array with all the nodes
var nodesIndex;  // Index of nodes, points last using hue(score) buttons
var currentNodeID = 0; // to iterate while loading

var nodeHistory = new Array();
var nodeHistoryPosition = 0;

var dataEnabled = false; // true when supplemental files are present

// store non-Krona GET variables so they can be passed on to links
//
var getVariables = new Array();

// selectedNodeLast is separate from the history, since we need to check
// properties of the last node viewed when browsing through the history
//
var selectedNodeLast = 0;
var zoomOut = false;

// temporary zoom-in while holding the mouse button on a wedge
//
var quickLook = false; // true when in quick look state
var mouseDown = false;
var mouseDownTime; // to detect mouse button hold
var quickLookHoldLength = 200;

var imageWidth;
var imageHeight;
var centerX;
var centerY;
var gRadius;
var updateViewNeeded = false;

// Determines the angle that the pie chart starts at.  90 degrees makes the
// center label consistent with the children.
//
var rotationOffset = Math.PI / 2;

var buffer;
var bufferFactor = .1;

// The maps are the small pie charts showing the current slice being viewed.
//
var mapBuffer = 10;
var mapRadius = 0;
var maxMapRadius = 25;
var mapWidth = 150;
var maxLabelOverhang = Math.PI * 4.18;

// Keys are the labeled boxes for slices in the highest level that are too thin
// to label.
//
var maxKeySizeFactor = 2; // will be multiplied by font size
var keySize;
var keys;
var keyBuffer = 10;
var currentKey;
var keyMinTextLeft;
var keyMinAngle;

var minRingWidthFactor = 5; // will be multiplied by font size
var maxPossibleDepth; // the theoretical max that can be displayed
var maxDisplayDepth; // the actual depth that will be displayed
var headerHeight = 0;//document.getElementById('options').clientHeight;
var historySpacingFactor = 1.6; // will be multiplied by font size
var historyAlphaDelta = .25;

// appearance
//
var lineOpacity = 0.3;
var saturation = 0.5;
var lightnessBase = 0.6;
var lightnessMax = .8;
var thinLineWidth = .3;
var highlightLineWidth = 1.5;
var labelBoxBuffer = 6;
var labelBoxRounding = 15;
var labelWidthFudge = 1.05; // The width of unshortened labels are set slightly
                            // longer than the name width so the animation
                            // finishes faster.
var fontNormal;
var fontBold;
var fontFamily = 'sans-serif';
//var fontFaceBold = 'bold Arial';
var nodeRadius;
var angleFactor;
var tickLength;
var compressedRadii;

// colors
//
var highlightFill = 'rgba(255, 255, 255, .3)';
var colorUnclassified = 'rgb(220,220,220)';

// label staggering
//
var labelOffsets; // will store the current offset at each depth
//
// This will store pointers to the last node that had a label in each offset
// (or "track") of each depth.  These will be used to shorten neighboring
// labels that would overlap. The [nLabelNodes] index will store the last node
// with a radial label. labelFirstNodes is the same, but to check for going all
// the way around and overlapping the first labels.
//
var labelLastNodes;
var labelFirstNodes;
//
var nLabelOffsets = 3; // the number of offsets to use

var mouseX = -1;
var mouseY = -1;
var mouseXRel = -1;
var mouseYRel = -1;

// tweening
//
var progress = 0; // for tweening; goes from 0 to 1.
var progressLast = 0;
var tweenFactor = 0; // progress converted by a curve for a smoother effect.
var tweenLength = 850; // in ms
var tweenCurvature = 13;
//
// tweenMax is used to scale the sigmoid function so its range is [0,1] for the
// domain [0,1]
//
var tweenMax = 1 / (1 + Math.exp(-tweenCurvature / 2));
//
var tweenStartTime;

// for framerate debug
//
var tweenFrames = 0;
var fpsDisplay = document.getElementById('frameRate');

// Arrays to translate xml attribute names into displayable attribute names
//
var attributes = [];
//
var magnitudeIndex; // the index of attribute arrays used for magnitude
var membersAssignedIndex;
var membersSummaryIndex;

// For defining gradients
//
var hueDisplayName;
var hueStopPositions;
var hueStopHues;
var hueStopText;

// multiple datasets
//
const DEFAULT_RANK = 'SUMMARY';
const NO_RANK = 'NONE';
var currentRank = DEFAULT_RANK;
var currentDataset = 0;
var lastDataset = 0;
var datasets = 1;
var datasetNames;
const DATASET_MAX_SIZE = 20;  // Max size in rows of the dataset selection list
var datasetsVisible = 1; // Number of datasets not hidden
var datasetAlpha = new Tween(0, 0);
var datasetWidths = [];
var datasetChanged;
var datasetSelectWidth = 50;
var numRawSamples;
var stats;

window.onload = load;

var image;
var hiddenPattern;
var loadingImage;
var logoImage;

// Setup CSS-like style of tooltips for attributes
//
var csstring = '.CellWithTooltip{ position:relative; }\n' +
    '.Tooltip{ display:none;position:absolute;z-index:100;border:2px;' +
    'background-color:white;border-style:solid;border-width:2px;' +
    'border-color:red;padding:3px;color:red;top:20px;left:0px; }' +
    '.CellWithTooltip:hover span.Tooltip{ display:block; }';
var style = document.createElement('style');
if (style.styleSheet) {
    style.styleSheet.cssText = csstring;
} else {
    style.appendChild(document.createTextNode(csstring));
}
document.getElementsByTagName('head')[0].appendChild(style);

///////////////
// Functions //
///////////////

function backingScale() {
    if ('devicePixelRatio' in window) {
        if (window.devicePixelRatio > 1) {
            return window.devicePixelRatio;
        }
    }

    return 1;
}

function resize() {
    imageWidth = window.innerWidth;
    imageHeight = window.innerHeight;

    if (!snapshotMode) {
        context.canvas.width = imageWidth * backingScale();
        context.canvas.height = imageHeight * backingScale();
        context.canvas.style.width = imageWidth + "px"
        context.canvas.style.height = imageHeight + "px"
        context.scale(backingScale(), backingScale());
    }

    if (datasetDropDown) {
        var ratio =
            (datasetDropDown.offsetTop + datasetDropDown.clientHeight) * 2 /
            imageHeight;

        if (ratio > 1) {
            ratio = 1;
        }

        ratio = Math.sqrt(ratio);

        datasetSelectWidth =
            (datasetDropDown.offsetLeft + datasetDropDown.clientWidth) * ratio;
    }
    var leftMargin = datasets > 1 ? datasetSelectWidth + 30 : 0;
    var minDimension = imageWidth - mapWidth - leftMargin > imageHeight ?
        imageHeight :
        imageWidth - mapWidth - leftMargin;

    maxMapRadius = minDimension * .03;
    buffer = minDimension * bufferFactor;
    margin = minDimension * .015;
    centerX = (imageWidth - mapWidth - leftMargin) / 2 + leftMargin;
    centerY = imageHeight / 2;
    gRadius = minDimension / 2 - buffer;
    //context.font = '11px sans-serif';
}

function handleResize() {
    updateViewNeeded = true;
}

function Attribute() {
}

function SampleStats(sample, ictrl, sread, sclas, sfilt, scmin, scavg, scmax,
                     lnmin, lnavg, lnmax, tclas, tfilt, tfold) {
    // Class to store the statistics of a sample
    this.sample = sample;
    this.is_ctrl = (ictrl === 'True');
    this.sread = sread;
    this.sclas = sclas;
    this.sfilt = sfilt;
    this.scmin = scmin;
    this.scavg = scavg;
    this.scmax = scmax;
    this.lnmin = lnmin;
    this.lnavg = lnavg;
    this.lnmax = lnmax;
    this.tclas = tclas;
    this.tfilt = tfilt;
    this.tfold = tfold;
}

function CanvasButton(name, x, y, w, h, fill) {
    // Constructor for a button in the canvas
    this.name = name;
    this.x = x || 0;
    this.y = y || 0;
    this.w = w || 1;
    this.h = h || 1;
    this.fill = fill || '#000000';

    // Draws the button to a given context
    this.draw = function (ctx) {
        var oldAlpha = ctx.globalAlpha
        ctx.globalAlpha = 1;
        ctx.strokeStyle = '#' + bkgBright;
        ctx.lineWidth = 3;
        ctx.strokeRect(this.x, this.y, this.w, this.h);
        ctx.fillStyle = this.fill;
        ctx.fillRect(this.x, this.y, this.w, this.h);
        ctx.strokeStyle = '#000000';
        ctx.lineWidth = 0.5;
        ctx.strokeRect(this.x, this.y, this.w, this.h);
        // Draws symbols in buttons
        ctx.fillStyle = '#000000';
        ctx.globalAlpha = 0.7;
        switch (this.name) {
            case 'mostScore':
                ctx.beginPath();
                ctx.moveTo(this.x + 1 * this.w / 2, this.y + this.h / 8);
                ctx.lineTo(this.x + 1 * this.w / 6, this.y + this.h / 2);
                ctx.lineTo(this.x + 5 * this.w / 6, this.y + this.h / 2);
                ctx.fill();
            case 'moreScore':
                ctx.beginPath();
                ctx.moveTo(this.x + 1 * this.w / 2, this.y + 1 * this.h / 4);
                ctx.lineTo(this.x + 1 * this.w / 6, this.y + 3 * this.h / 4);
                ctx.lineTo(this.x + 5 * this.w / 6, this.y + 3 * this.h / 4);
                ctx.fill();
                break;
            case 'lestScore':
                ctx.beginPath();
                ctx.moveTo(this.x + 1 * this.w / 2, this.y + 7 * this.h / 8);
                ctx.lineTo(this.x + 1 * this.w / 6, this.y + 1 * this.h / 2);
                ctx.lineTo(this.x + 5 * this.w / 6, this.y + 1 * this.h / 2);
                ctx.fill();
            case 'lessScore':
                ctx.beginPath();
                ctx.moveTo(this.x + 1 * this.w / 2, this.y + 3 * this.h / 4);
                ctx.lineTo(this.x + 1 * this.w / 6, this.y + 1 * this.h / 4);
                ctx.lineTo(this.x + 5 * this.w / 6, this.y + 1 * this.h / 4);
                ctx.fill();
                break;
        }
        ctx.globalAlpha = oldAlpha
    };

    // Determine if a point is inside the button's bounds
    this.is_inside = function (mx, my) {
        // Check the Mouse X,Y fall in the button's area
        return (this.x <= mx) && (this.x + this.w >= mx) &&
            (this.y <= my) && (this.y + this.h >= my);
    }
}

function Tween(start, end) {
    this.start = start;
    this.end = end;
    this.current = this.start;

    this.current = function () {
        if (progress == 1 || this.start == this.end) {
            return this.end;
        }
        else {
            return this.start + tweenFactor * (this.end - this.start);
        }
    };

    this.setTarget = function (target) {
        this.start = this.current();
        this.end = target;
    }
}

function Node() {
    this.id = currentNodeID;
    currentNodeID++;
    nodes[this.id] = this;

    this.angleStart = new Tween(Math.PI, 0);
    this.angleEnd = new Tween(Math.PI, 0);
    this.radiusInner = new Tween(1, 1);
    this.labelRadius = new Tween(1, 1);
    this.labelWidth = new Tween(0, 0);
    this.scale = new Tween(1, 1); // TEMP
    this.radiusOuter = new Tween(1, 1);

    this.r = new Tween(255, 255);
    this.g = new Tween(255, 255);
    this.b = new Tween(255, 255);

    this.alphaLabel = new Tween(0, 1);
    this.alphaLine = new Tween(0, 1);
    this.alphaArc = new Tween(0, 0);
    this.alphaWedge = new Tween(0, 1);
    this.alphaOther = new Tween(0, 1);
    this.alphaPattern = new Tween(0, 0);
    this.children = Array();
    this.parent = 0;

    this.attributes = new Array(attributes.length);

    this.addChild = function (child) {
        this.children.push(child);
    };

    this.addLabelNode = function (depth, labelOffset) {
        if (labelHeadNodes[depth][labelOffset] == 0) {
            // this will become the head node for this list

            labelHeadNodes[depth][labelOffset] = this;
            this.labelPrev = this;
        }

        var head = labelHeadNodes[depth][labelOffset];

        this.labelNext = head;
        this.labelPrev = head.labelPrev;
        head.labelPrev.labelNext = this;
        head.labelPrev = this;
    }

    this.canDisplayDepth = function () {
        // whether this node is at a depth that can be displayed, according
        // to the max absolute depth

        return this.depth <= maxAbsoluteDepth;
    }

    this.canDisplayHistory = function () {
        var radiusInner;

        if (compress) {
            radiusInner = compressedRadii[0];
        }
        else {
            radiusInner = nodeRadius;
        }

        return (
            -this.labelRadius.end * gRadius +
            historySpacingFactor * fontSize / 2 <
            radiusInner * gRadius
        );
    }

    this.canDisplayLabelCurrent = function () {
        return (
            (this.angleEnd.current() - this.angleStart.current()) *
            (this.radiusInner.current() * gRadius + gRadius) >=
            minWidth());
    }

    this.checkHighlight = function () {
        if (this.children.length == 0 && this == focusNode) {
            //return false;
        }

        if (this.hide) {
            return false;
        }

        if (this.radiusInner.end == 1) {
            // compressed to the outside; don't check

            return false;
        }

        var highlighted = false;

        var angleStartCurrent = this.angleStart.current() + rotationOffset;
        var angleEndCurrent = this.angleEnd.current() + rotationOffset;
        var radiusInner = this.radiusInner.current() * gRadius;

        for (var i = 0; i < this.children.length; i++) {
            highlighted = this.children[i].checkHighlight();

            if (highlighted) {
                return true;
            }
        }

        if (this.radial) {
            var angleText = (angleStartCurrent + angleEndCurrent) / 2;
            var radiusText = (gRadius + radiusInner) / 2;

            context.rotate(angleText);
            context.beginPath();
            context.moveTo(radiusText, -fontSize);
            context.lineTo(radiusText, fontSize);
            context.lineTo(radiusText + centerX, fontSize);
            context.lineTo(radiusText + centerX, -fontSize);
            context.closePath();
            context.rotate(-angleText);

            if (context.isPointInPath(mouseXRel, mouseYRel)) {
                var label = String(this.getPercentage()) + '%' + '   '
                    + this.name;

                if (this.searchResultChildren()) {
                    label += searchResultString(this.searchResultChildren());
                }

                if
                (
                    Math.sqrt((mouseXRel) * (mouseXRel)
                        + (mouseYRel) * (mouseYRel)) / backingScale() <
                    radiusText + measureText(label)
                ) {
                    highlighted = true;
                }
            }
        }
        else {
            for (var i = 0; i < this.hiddenLabels.length; i++) {
                var hiddenLabel = this.hiddenLabels[i];

                context.rotate(hiddenLabel.angle);
                context.beginPath();
                context.moveTo(gRadius, -fontSize);
                context.lineTo(gRadius, fontSize);
                context.lineTo(gRadius + centerX, fontSize);
                context.lineTo(gRadius + centerX, -fontSize);
                context.closePath();
                context.rotate(-hiddenLabel.angle);

                if (context.isPointInPath(mouseXRel, mouseYRel)) {
                    var label = String(hiddenLabel.value) + ' more';

                    if (hiddenLabel.search) {
                        label += searchResultString(hiddenLabel.search);
                    }

                    if
                    (
                        Math.sqrt((mouseXRel) * (mouseXRel)
                            + (mouseYRel) * (mouseYRel)) / backingScale() <
                        gRadius + fontSize + measureText(label)
                    ) {
                        highlighted = true;
                        break;
                    }
                }
            }
        }

        if (!highlighted && this != selectedNode && !this.getCollapse()) {
            context.beginPath();
            context.arc(0, 0, radiusInner, angleStartCurrent, angleEndCurrent,
                false);
            context.arc(0, 0, gRadius, angleEndCurrent, angleStartCurrent,
                true);
            context.closePath();

            if (context.isPointInPath(mouseXRel, mouseYRel)) {
                highlighted = true;
            }

            if
            (
                !highlighted &&
                (angleEndCurrent - angleStartCurrent) *
                (radiusInner + gRadius) <
                minWidth() &&
                this.getDepth() == selectedNode.getDepth() + 1
            ) {
                if (showKeys && this.checkHighlightKey()) {
                    highlighted = true;
                }
            }
        }

        if (highlighted) {
            if (this != highlightedNode) {
                //	document.body.style.cursor='pointer';
            }

            highlightedNode = this;
        }

        return highlighted;
    }

    this.checkHighlightCenter = function () {
        if (!this.canDisplayHistory()) {
            return;
        }

        var cx = centerX;
        var cy = centerY - this.labelRadius.end * gRadius;
        //var dim = context.measureText(this.name);

        var width = this.nameWidth;

        if (this.searchResultChildren()) {
            var results = searchResultString(this.searchResultChildren());
            var dim = context.measureText(results);
            width += dim.width;
        }

        if
        (
            mouseX > cx - width / 2 &&
            mouseX < cx + width / 2 &&
            mouseY > cy - historySpacingFactor * fontSize / 2 &&
            mouseY < cy + historySpacingFactor * fontSize / 2
        ) {
            highlightedNode = this;
            return;
        }

        if (this.getParent()) {
            this.getParent().checkHighlightCenter();
        }
    }

    this.checkHighlightKey = function () {
        var offset = keyOffset();

        var xMin = imageWidth - keySize - margin - this.keyNameWidth
            - keyBuffer;
        var xMax = imageWidth - margin;
        var yMin = offset;
        var yMax = offset + keySize;

        currentKey++;

        return (
            mouseX > xMin &&
            mouseX < xMax &&
            mouseY > yMin &&
            mouseY < yMax);
    }

    this.checkHighlightMap = function () {
        if (this.parent) {
            this.parent.checkHighlightMap();
        }

        if (this.getCollapse() || this == focusNode) {
            return;
        }

        var box = this.getMapPosition();

        if
        (
            mouseX > box.x - mapRadius &&
            mouseX < box.x + mapRadius &&
            mouseY > box.y - mapRadius &&
            mouseY < box.y + mapRadius
        ) {
            highlightedNode = this;
        }
    }

    /*	this.collapse = function()
	{
		for (var i = 0; i < this.children.length; i++ )
		{
			this.children[i] = this.children[i].collapse();
		}

		if
		(
			this.children.length == 1 &&
			this.children[0].magnitude == this.magnitude
		)
		{
			this.children[0].parent = this.parent;
			this.children[0].getDepth() = this.parent.getDepth() + 1;
			return this.children[0];
		}
		else
		{
			return this;
		}
	}
*/
    this.draw = function (labelMode, selected, searchHighlighted) {
        var depth = this.getDepth() - selectedNode.getDepth() + 1;
//		var hidden = false;

        if (selectedNode == this) {
            selected = true;
        }

        var angleStartCurrent = this.angleStart.current() + rotationOffset;
        var angleEndCurrent = this.angleEnd.current() + rotationOffset;
        var radiusInner = this.radiusInner.current() * gRadius;
        var canDisplayLabelCurrent = this.canDisplayLabelCurrent();
        var hiddenSearchResults = false;

        /*		if ( ! this.hide )
		{
			for ( var i = 0; i < this.children.length; i++ )
			{
				if ( this.children[i].hide && this.children[i].searchResults )
				{
					hiddenSearchResults = true;
				}
			}
		}
*/
        var drawChildren =
            (!this.hide || !this.hidePrev && progress < 1) &&
            (!this.hideAlone || !this.hideAlonePrev && progress < 1);

//		if ( this.alphaWedge.current() > 0 || this.alphaLabel.current() > 0 )
        {
            var lastChildAngleEnd = angleStartCurrent;

            if (this.hasChildren())//canDisplayChildren )
            {
                lastChildAngleEnd =
                    this.children[this.children.length - 1].angleEnd.current()
                    + rotationOffset;
            }

            if (labelMode) {
                var drawRadial =
                    !(
                        this.parent &&
                        this.parent != selectedNode &&
                        angleEndCurrent == this.parent.angleEnd.current()
                        + rotationOffset
                    );

                //if ( angleStartCurrent != angleEndCurrent )
                {
                    this.drawLines(angleStartCurrent, angleEndCurrent,
                        radiusInner, drawRadial, selected);
                }

                var alphaOtherCurrent = this.alphaOther.current();
                var childRadiusInner;

                if (this == selectedNode || alphaOtherCurrent) {
                    childRadiusInner =
                        this.children.length ?
                            this.children[this.children.length
                            - 1].radiusInner.current() * gRadius
                            : radiusInner
                }

                if (this == selectedNode) {
                    this.drawReferenceRings(childRadiusInner);
                }

                if
                (
                    selected &&
                    !searchHighlighted &&
                    this != selectedNode &&
                    (
                        this.isSearchResult ||
                        this.hideAlone && this.searchResultChildren() ||
                        false
//						this.hide &&
//						this.containsSearchResult
                    )
                ) {
                    context.globalAlpha = this.alphaWedge.current();

                    drawWedge
                    (
                        angleStartCurrent,
                        angleEndCurrent,
                        radiusInner,
                        gRadius,
                        highlightFill,
                        0,
                        true
                    );

                    if
                    (
                        this.keyed &&
                        !showKeys &&
                        this.searchResults &&
                        !searchHighlighted &&
                        this != highlightedNode &&
                        this != focusNode
                    ) {
                        var angle = (angleEndCurrent + angleStartCurrent) / 2;
                        this.drawLabel(angle, true, false, true, true);
                    }

                    //this.drawHighlight(false);
                    searchHighlighted = true;
                }

                if
                (
                    this == selectedNode ||
                    //					true
                    //(canDisplayLabelCurrent) &&
                    this != highlightedNode &&
                    this != focusNode
                ) {
                    if (this.radial != this.radialPrev
                        && this.alphaLabel.end == 1) {
                        context.globalAlpha = tweenFactor;
                    }
                    else {
                        context.globalAlpha = this.alphaLabel.current();
                    }

                    this.drawLabel
                    (
                        (angleStartCurrent + angleEndCurrent) / 2,
                        this.hideAlone && this.searchResultChildren() ||
                        (this.isSearchResult || hiddenSearchResults) && selected,
                        this == selectedNode && !this.radial,
                        selected,
                        this.radial
                    );

                    if (this.radial != this.radialPrev
                        && this.alphaLabel.start == 1 && progress < 1) {
                        context.globalAlpha = 1 - tweenFactor;

                        this.drawLabel
                        (
                            (angleStartCurrent + angleEndCurrent) / 2,
                            (this.isSearchResult || hiddenSearchResults)
                            && selected,
                            this == selectedNodeLast && !this.radialPrev,
                            selected,
                            this.radialPrev
                        );
                    }
                }

                if
                (
                    alphaOtherCurrent &&
                    lastChildAngleEnd != null
                ) {
                    if
                    (
                        (angleEndCurrent - lastChildAngleEnd) *
                        (childRadiusInner + gRadius) >=
                        minWidth()
                    ) {
                        //context.font = fontNormal;
                        context.globalAlpha = this.alphaOther.current();

                        drawTextPolar
                        (
                            this.getUnclassifiedText(),
                            this.getUnclassifiedPercentage(),
                            (lastChildAngleEnd + angleEndCurrent) / 2,
                            (childRadiusInner + gRadius) / 2,
                            true,
                            false,
                            false,
                            0,
                            0
                        );
                    }
                }

                if (this == selectedNode && this.keyUnclassified && showKeys) {
                    this.drawKey
                    (
                        (lastChildAngleEnd + angleEndCurrent) / 2,
                        false,
                        false
                    );
                }
            }
            else {
                var alphaWedgeCurrent = this.alphaWedge.current();

                if (alphaWedgeCurrent || this.alphaOther.current()) {
                    var currentR = this.r.current();
                    var currentG = this.g.current();
                    var currentB = this.b.current();

                    var fill = rgbText(currentR, currentG, currentB);

                    var radiusOuter;
                    var lastChildAngle;
                    var truncateWedge =
                        (
                            (this.hasChildren() || this == selectedNode) &&
                            !this.keyed &&
                            (compress || depth < maxDisplayDepth) &&
                            drawChildren
                        );

                    if (truncateWedge) {
                        radiusOuter = this.children.length
                            ? this.children[0].radiusInner.current()
                            * gRadius : radiusInner;
                    }
                    else {
                        radiusOuter = gRadius;
                    }
                    /*
					if ( this.hasChildren() )
					{
						radiusOuter = this.children[0].getUncollapsed().radiusInner.current() * gRadius + 1;
					}
					else
					{ // TEMP
						radiusOuter = radiusInner + nodeRadius * gRadius;

						if ( radiusOuter > gRadius )
						{
							radiusOuter = gRadius;
						}
					}
					*/
                    context.globalAlpha = alphaWedgeCurrent;

                    if (radiusInner != radiusOuter || truncateWedge) {
                        drawWedge
                        (
                            angleStartCurrent,
                            angleEndCurrent,
                            radiusInner,
                            radiusOuter,//this.radiusOuter.current() * gRadius,
                            //'rgba(0, 200, 0, .1)',
                            fill,
                            this.alphaPattern.current()
                        );

                        if (truncateWedge) {
                            // fill in the extra space if the sum of our
                            // childrens' magnitudes is less than ours

                            if (lastChildAngleEnd < angleEndCurrent)
                            //&& false) // TEMP
                            {
                                if (radiusOuter > 1) {
                                    // overlap slightly to hide the seam

                                    //								radiusOuter -= 1;
                                }

                                if (alphaWedgeCurrent < 1) {
                                    context.globalAlpha
                                        = this.alphaOther.current();
                                    drawWedge
                                    (
                                        lastChildAngleEnd,
                                        angleEndCurrent,
                                        radiusOuter,
                                        gRadius,
                                        colorUnclassified,
                                        0
                                    );
                                    context.globalAlpha = alphaWedgeCurrent;
                                }

                                drawWedge
                                (
                                    lastChildAngleEnd,
                                    angleEndCurrent,
                                    radiusOuter,
                                    gRadius,
                                    //this.radiusOuter.current() * gRadius,
                                    //'rgba(200, 0, 0, .1)',
                                    fill,
                                    this.alphaPattern.current()
                                );
                            }
                        }

                        if (radiusOuter < gRadius) {
                            // patch up the seam
                            //
                            context.beginPath();
                            context.arc(0, 0, radiusOuter,
                                angleStartCurrent/*lastChildAngleEnd*/,
                                angleEndCurrent, false);
                            context.strokeStyle = fill;
                            context.lineWidth = 1;
                            context.stroke();
                        }
                    }

                    if (this.keyed && selected && showKeys)
                    //&& progress == 1 )
                    {
                        this.drawKey
                        (
                            (angleStartCurrent + angleEndCurrent) / 2,
                            (
                                this == highlightedNode ||
                                this == focusNode ||
                                this.searchResults
                            ),
                            this == highlightedNode || this == focusNode
                        );
                    }
                }
            }
        }

        this.hiddenLabels = Array();

        if (drawChildren) {
            // draw children
            //
            for (var i = 0; i < this.children.length; i++) {
                if (this.drawHiddenChildren(i, selected, labelMode,
                    searchHighlighted)) {
                    var childHiddenEnd = this.children[i].hiddenEnd;
                    if (childHiddenEnd > i) {  // Avoid infinite loop
                        i = childHiddenEnd;
                    }
                }
                else {
                    this.children[i].draw(labelMode, selected,
                        searchHighlighted);
                }
            }
        }
    };

    this.drawHiddenChildren = function
        (firstHiddenChild,
         selected,
         labelMode,
         searchHighlighted) {
        var firstChild = this.children[firstHiddenChild];

        if (firstChild.hiddenEnd == null
            || firstChild.radiusInner.current() == 1) {
            return false;
        }

        for (var i = firstHiddenChild; i < firstChild.hiddenEnd; i++) {
            if (!this.children[i].hide
                || !this.children[i].hidePrev && progress < 1) {
                return false;
            }
        }

        var angleStart = firstChild.angleStart.current() + rotationOffset;
        var lastChild = this.children[firstChild.hiddenEnd];
        var angleEnd = lastChild.angleEnd.current() + rotationOffset;
        var radiusInner = gRadius * firstChild.radiusInner.current();
        var hiddenChildren = firstChild.hiddenEnd - firstHiddenChild + 1;

        if (labelMode) {
            var hiddenSearchResults = 0;

            for (var i = firstHiddenChild; i <= firstChild.hiddenEnd; i++) {
                hiddenSearchResults += this.children[i].searchResults;

                if (this.children[i].magnitude == 0) {
                    hiddenChildren--;
                }
            }

            if
            (
                selected &&
                (angleEnd - angleStart) *
                (gRadius + gRadius) >=
                minWidth() ||
                this == highlightedNode &&
                hiddenChildren ||
                hiddenSearchResults
            ) {
                context.globalAlpha = this.alphaWedge.current();

                this.drawHiddenLabel
                (
                    angleStart,
                    angleEnd,
                    hiddenChildren,
                    hiddenSearchResults
                );
            }
        }

        var drawWedges = true;

        for (var i = firstHiddenChild; i <= firstChild.hiddenEnd; i++) {
            // all hidden children must be completely hidden to draw together

            if (this.children[i].alphaPattern.current()
                != this.children[i].alphaWedge.current()) {
                drawWedges = false;
                break;
            }
        }

        if (labelMode) {
            if (drawWedges) {
                var drawRadial = (angleEnd
                    < this.angleEnd.current() + rotationOffset);
                this.drawLines(angleStart, angleEnd, radiusInner, drawRadial);
            }

            if (hiddenSearchResults && !searchHighlighted) {
                drawWedge
                (
                    angleStart,
                    angleEnd,
                    radiusInner,
                    gRadius,//this.radiusOuter.current() * gRadius,
                    highlightFill,
                    0,
                    true
                );
            }
        }
        else if (drawWedges) {
            context.globalAlpha = this.alphaWedge.current();

            var fill = rgbText
            (
                firstChild.r.current(),
                firstChild.g.current(),
                firstChild.b.current()
            );

            drawWedge
            (
                angleStart,
                angleEnd,
                radiusInner,
                gRadius,//this.radiusOuter.current() * gRadius,
                fill,
                context.globalAlpha,
                false
            );
        }

        return drawWedges;
    }

    this.drawHiddenLabel = function (angleStart, angleEnd, value,
                                     hiddenSearchResults) {
        var textAngle = (angleStart + angleEnd) / 2;
        var labelRadius = gRadius + fontSize;//(radiusInner + radius) / 2;

        var hiddenLabel = Array();

        hiddenLabel.value = value;
        hiddenLabel.angle = textAngle;
        hiddenLabel.search = hiddenSearchResults;

        this.hiddenLabels.push(hiddenLabel);

        drawTick(gRadius - fontSize * .75, fontSize * 1.5, textAngle);
        drawTextPolar
        (
            value.toString() + ' more',
            0, // inner text
            textAngle,
            labelRadius,
            true, // radial
            hiddenSearchResults, // bubble
            this == highlightedNode || this == focusNode, // bold
            false,
            hiddenSearchResults
        );
    }

    this.drawHighlight = function (bold) {
        var angleStartCurrent = this.angleStart.current() + rotationOffset;
        var angleEndCurrent = this.angleEnd.current() + rotationOffset;
        var radiusInner = this.radiusInner.current() * gRadius;

        //this.setHighlightStyle();

        if (this == focusNode && this
            == highlightedNode && this.hasChildren()) {
//			context.fillStyle = "rgba(255, 255, 255, .3)";
            arrow
            (
                angleStartCurrent,
                angleEndCurrent,
                radiusInner
            );
        }
        else {
            drawWedge
            (
                angleStartCurrent,
                angleEndCurrent,
                radiusInner,
                gRadius,
                highlightFill,
                0,
                true
            );
        }

        // check if hidden children should be highlighted
        //
        for (var i = 0; i < this.children.length; i++) {
            if
            (
                this.children[i].getDepth() - selectedNode.getDepth() + 1 <=
                maxDisplayDepth &&
                this.children[i].hiddenEnd != null
            ) {
                var firstChild = this.children[i];
                var lastChild = this.children[firstChild.hiddenEnd];
                var hiddenAngleStart = firstChild.angleStart.current()
                    + rotationOffset;
                var hiddenAngleEnd = lastChild.angleEnd.current()
                    + rotationOffset;
                var hiddenRadiusInner = gRadius
                    * firstChild.radiusInner.current();

                drawWedge
                (
                    hiddenAngleStart,
                    hiddenAngleEnd,
                    hiddenRadiusInner,
                    gRadius,
                    'rgba(255, 255, 255, .3)',
                    0,
                    true
                );

                if (false && !this.searchResults) {
                    this.drawHiddenLabel
                    (
                        hiddenAngleStart,
                        hiddenAngleEnd,
                        firstChild.hiddenEnd - i + 1
                    );
                }

                i = firstChild.hiddenEnd;
            }
        }

//			context.strokeStyle = 'black';
        context.fillStyle = 'black';

        var highlight = !(progress < 1 && zoomOut
            && this == selectedNodeLast);

        var angle = (angleEndCurrent + angleStartCurrent) / 2;

        if (!(this.keyed && showKeys)) {
            this.drawLabel(angle, true, bold, true, this.radial);
        }
    }

    this.drawHighlightCenter = function () {
        if (!this.canDisplayHistory()) {
            return;
        }

        context.lineWidth = highlightLineWidth;
        context.strokeStyle = 'black';
        context.fillStyle = "rgba(255, 255, 255, .6)";

        context.fillStyle = 'black';
        this.drawLabel(3 * Math.PI / 2, true, true, false);
        context.font = fontNormal;
    }

    this.drawKey = function (angle, highlight, bold) {
        var offset = keyOffset();
        var color;
        var colorText = this.magnitude == 0 ? 'gray' : 'black';
        var patternAlpha = this.alphaPattern.end;
        var boxLeft = imageWidth - keySize - margin;
        var textY = offset + keySize / 2;

        var label;
        var keyNameWidth;

        if (this == selectedNode) {
            color = colorUnclassified;
            label =
                this.getUnclassifiedText() +
                '   ' +
                this.getUnclassifiedPercentage();
            keyNameWidth = measureText(label, false);
        }
        else {
            label = this.keyLabel;
            color = rgbText(this.r.end, this.g.end, this.b.end);

            if (highlight) {
                if (this.searchResultChildren()) {
                    label = label
                        + searchResultString(this.searchResultChildren());
                }

                keyNameWidth = measureText(label, bold);
            }
            else {
                keyNameWidth = this.keyNameWidth;
            }
        }

        var textLeft = boxLeft - keyBuffer - keyNameWidth - fontSize / 2;
        var labelLeft = textLeft;

        if (labelLeft > keyMinTextLeft - fontSize / 2) {
            keyMinTextLeft -= fontSize / 2;

            if (keyMinTextLeft < centerX - gRadius + fontSize / 2) {
                keyMinTextLeft = centerX - gRadius + fontSize / 2;
            }

            labelLeft = keyMinTextLeft;
        }

        var lineX = new Array();
        var lineY = new Array();

        var bendRadius;
        var keyAngle = Math.atan((textY - centerY) / (labelLeft - centerX));
        var arcAngle;

        if (keyAngle < 0) {
            keyAngle += Math.PI;
        }

        if (keyMinAngle == 0 || angle < keyMinAngle) {
            keyMinAngle = angle;
        }

        if (angle > Math.PI && keyMinAngle > Math.PI) {
            // allow lines to come underneath the chart

            angle -= Math.PI * 2;
        }

        lineX.push(Math.cos(angle) * gRadius);
        lineY.push(Math.sin(angle) * gRadius);

        if (angle < keyAngle
            && textY > centerY
            + Math.sin(angle) * (gRadius + buffer * (currentKey - 1)
                / (keys + 1) / 2 + buffer / 2)) {
            bendRadius = gRadius + buffer - buffer * currentKey
                / (keys + 1) / 2;
        }
        else {
            bendRadius = gRadius + buffer * currentKey
                / (keys + 1) / 2 + buffer / 2;
        }

        var outside =
            Math.sqrt
            (
                Math.pow(labelLeft - centerX, 2) +
                Math.pow(textY - centerY, 2)
            ) > bendRadius;

        if (!outside) {
            arcAngle = Math.asin((textY - centerY) / bendRadius);

            keyMinTextLeft = min(keyMinTextLeft, centerX
                + bendRadius * Math.cos(arcAngle) - fontSize / 2);

            if (labelLeft < textLeft && textLeft > centerX
                + bendRadius * Math.cos(arcAngle)) {
                lineX.push(textLeft - centerX);
                lineY.push(textY - centerY);
            }
        }
        else {
            keyMinTextLeft = min(keyMinTextLeft, labelLeft - fontSize / 2);

            if (angle < keyAngle) {
                // flip everything over y = x
                //
                arcAngle = Math.PI / 2 - keyLineAngle
                (
                    Math.PI / 2 - angle,
                    Math.PI / 2 - keyAngle,
                    bendRadius,
                    textY - centerY,
                    labelLeft - centerX,
                    lineY,
                    lineX
                );

            }
            else {
                arcAngle = keyLineAngle
                (
                    angle,
                    keyAngle,
                    bendRadius,
                    labelLeft - centerX,
                    textY - centerY,
                    lineX,
                    lineY
                );
            }
        }

        if (labelLeft > centerX + bendRadius * Math.cos(arcAngle) ||
            textY > centerY + bendRadius * Math.sin(arcAngle) + .01)
//		if ( outside ||  )
        {
            lineX.push(labelLeft - centerX);
            lineY.push(textY - centerY);

            if (textLeft != labelLeft) {
                lineX.push(textLeft - centerX);
                lineY.push(textY - centerY);
            }
        }

        context.globalAlpha = this.alphaWedge.current();

        if (snapshotMode) {
            var labelSVG;

            if (this == selectedNode) {
                labelSVG =
                    this.getUnclassifiedText() +
                    spacer() +
                    this.getUnclassifiedPercentage();
            }
            else {
                labelSVG = this.name + spacer() + this.getPercentage() + '%';
            }

            svg +=
                '<rect fill="' + color + '" ' +
                'x="' + boxLeft + '" y="' + offset +
                '" width="' + keySize + '" height="' + keySize + '"/>';

            if (patternAlpha) {
                svg +=
                    '<rect fill="url(#hiddenPattern)" style="stroke:none" ' +
                    'x="' + boxLeft + '" y="' + offset +
                    '" width="' + keySize + '" height="' + keySize + '"/>';
            }

            svg +=
                '<path class="line' +
                (highlight ? ' highlight' : '') +
                '" d="M ' + (lineX[0] + centerX) + ',' +
                (lineY[0] + centerY);

            if (angle != arcAngle) {
                svg +=
                    ' L ' + (centerX + bendRadius * Math.cos(angle)) + ',' +
                    (centerY + bendRadius * Math.sin(angle)) +
                    ' A ' + bendRadius + ',' + bendRadius + ' 0 ' +
                    '0,' + (angle > arcAngle ? '0' : '1') + ' ' +
                    (centerX + bendRadius * Math.cos(arcAngle)) + ',' +
                    (centerY + bendRadius * Math.sin(arcAngle));
            }

            for (var i = 1; i < lineX.length; i++) {
                svg +=
                    ' L ' + (centerX + lineX[i]) + ',' +
                    (centerY + lineY[i]);
            }

            svg += '"/>';

            if (highlight) {
                if (this.searchResultChildren()) {
                    labelSVG = labelSVG
                        + searchResultString(this.searchResultChildren());
                }

                drawBubbleSVG
                (
                    boxLeft - keyBuffer - keyNameWidth - fontSize / 2,
                    textY - fontSize,
                    keyNameWidth + fontSize,
                    fontSize * 2,
                    fontSize,
                    0
                );

                if (this.isSearchResult) {
                    drawSearchHighlights
                    (
                        label,
                        boxLeft - keyBuffer - keyNameWidth,
                        textY,
                        0
                    )
                }
            }

            svg += svgText(labelSVG, boxLeft - keyBuffer, textY, 'end', bold,
                colorText);
        }
        else {
            context.fillStyle = color;
            context.translate(-centerX, -centerY);
            context.strokeStyle = 'black';
            context.globalAlpha = 1;//this.alphaWedge.current();

            context.fillRect(boxLeft, offset, keySize, keySize);

            if (patternAlpha) {
                context.globalAlpha = patternAlpha;
                context.fillStyle = hiddenPattern;

                // make clipping box for Firefox performance
                context.beginPath();
                context.moveTo(boxLeft, offset);
                context.lineTo(boxLeft + keySize, offset);
                context.lineTo(boxLeft + keySize, offset + keySize);
                context.lineTo(boxLeft, offset + keySize);
                context.closePath();
                context.save();
                context.clip();

                context.fillRect(boxLeft, offset, keySize, keySize);
                context.fillRect(boxLeft, offset, keySize, keySize);

                context.restore(); // remove clipping region
            }

            if (highlight) {
                this.setHighlightStyle();
                context.fillRect(boxLeft, offset, keySize, keySize);
            }
            else {
                context.lineWidth = thinLineWidth;
            }

            context.strokeRect(boxLeft, offset, keySize, keySize);

            if (lineX.length) {
                context.beginPath();
                context.moveTo(lineX[0] + centerX, lineY[0] + centerY);

                context.arc(centerX, centerY, bendRadius, angle, arcAngle,
                    angle > arcAngle);

                for (var i = 1; i < lineX.length; i++) {
                    context.lineTo(lineX[i] + centerX, lineY[i] + centerY);
                }

                context.globalAlpha = this == selectedNode ?
                    this.children[0].alphaWedge.current() :
                    this.alphaWedge.current();
                context.lineWidth = highlight
                    ? highlightLineWidth : thinLineWidth;
                context.stroke();
                context.globalAlpha = 1;
            }

            if (highlight) {
                drawBubbleCanvas
                (
                    boxLeft - keyBuffer - keyNameWidth - fontSize / 2,
                    textY - fontSize,
                    keyNameWidth + fontSize,
                    fontSize * 2,
                    fontSize,
                    0
                );

                if (this.isSearchResult) {
                    drawSearchHighlights
                    (
                        label,
                        boxLeft - keyBuffer - keyNameWidth,
                        textY,
                        0
                    )
                }
            }

            drawText(label, boxLeft - keyBuffer, offset + keySize / 2, 0,
                'end', bold, colorText);

            context.translate(centerX, centerY);
        }

        currentKey++;
    }

    this.drawLabel = function (angle, bubble, bold, selected, radial) {
        if (context.globalAlpha == 0) {
            return;
        }

        var innerText;
        var label;
        var radius;

        if (radial) {
            radius = (this.radiusInner.current() + 1) * gRadius / 2;
        }
        else {
            radius = this.labelRadius.current() * gRadius;
        }

        if (radial && (selected || bubble)) {
            var percentage = this.getPercentage();
            innerText = percentage + '%';
        }

        if
        (
            !radial &&
            this != selectedNode &&
            !bubble &&
            (!zoomOut || this != selectedNodeLast)
        ) {
            label = this.shortenLabel();
        }
        else {
            label = this.name;
        }

        var flipped = drawTextPolar
        (
            label,
            innerText,
            angle,
            radius,
            radial,
            bubble,
            bold,
//			this.isSearchResult && this.shouldAddSearchResultsString() && (!selected || this == selectedNode || highlight),
            this.isSearchResult
            && (!selected || this == selectedNode || bubble),
            (this.hideAlone || !selected || this == selectedNode)
                ? this.searchResultChildren() : 0
        );

        var depth = this.getDepth() - selectedNode.getDepth() + 1;

        if
        (
            !radial &&
            !bubble &&
            this != selectedNode &&
            this.angleEnd.end != this.angleStart.end &&
            nLabelOffsets[depth - 2] > 2 &&
            this.labelWidth.current()
            > (this.angleEnd.end - this.angleStart.end) * Math.abs(radius) &&
            !(zoomOut && this == selectedNodeLast) &&
            this.labelRadius.end > 0
        ) {
            // name extends beyond wedge; draw tick mark towards the central
            // radius for easier identification

            var radiusCenter = compress ?
                (compressedRadii[depth - 1] + compressedRadii[depth - 2]) / 2 :
                (depth - .5) * nodeRadius;

            if (this.labelRadius.end > radiusCenter) {
                if (flipped) {
                    drawTick(radius - tickLength * 1.4, tickLength, angle);
                }
                else {
                    drawTick(radius - tickLength * 1.7, tickLength, angle);
                }
            }
            else {
                if (flipped) {
                    drawTick(radius + tickLength * .7, tickLength, angle);
                }
                else {
                    drawTick(radius + tickLength * .4, tickLength, angle);
                }
            }
        }
    }

    this.drawLines = function (angleStart, angleEnd, radiusInner, drawRadial,
                               selected) {
        if (snapshotMode) {
            if (this != selectedNode) {
                if (angleEnd == angleStart + Math.PI * 2) {
                    // fudge to prevent overlap, which causes arc ambiguity
                    //
                    angleEnd -= .1 / gRadius;
                }

                var longArc = angleEnd - angleStart > Math.PI ? 1 : 0;

                var x1 = centerX + radiusInner * Math.cos(angleStart);
                var y1 = centerY + radiusInner * Math.sin(angleStart);

                var x2 = centerX + gRadius * Math.cos(angleStart);
                var y2 = centerY + gRadius * Math.sin(angleStart);

                var x3 = centerX + gRadius * Math.cos(angleEnd);
                var y3 = centerY + gRadius * Math.sin(angleEnd);

                var x4 = centerX + radiusInner * Math.cos(angleEnd);
                var y4 = centerY + radiusInner * Math.sin(angleEnd);

                if (this.alphaArc.end) {
                    var dArray =
                        [
                            " M ", x4, ",", y4,
                            " A ", radiusInner, ",", radiusInner, " 0 ",
                            longArc,
                            " 0 ", x1, ",", y1
                        ];

                    svg += '<path class="line" d="' + dArray.join('') + '"/>';
                }

                if (drawRadial && this.alphaLine.end) {
                    svg += '<line x1="' + x3 + '" y1="' + y3 + '" x2="' + x4
                        + '" y2="' + y4 + '"/>';
                }
            }
        }
        else {
            context.lineWidth = thinLineWidth;
            context.strokeStyle = 'black';
            context.beginPath();
            context.arc(0, 0, radiusInner, angleStart, angleEnd, false);
            context.globalAlpha = this.alphaArc.current();
            context.stroke();

            if (drawRadial) {
                var x1 = radiusInner * Math.cos(angleEnd);
                var y1 = radiusInner * Math.sin(angleEnd);
                var x2 = gRadius * Math.cos(angleEnd);
                var y2 = gRadius * Math.sin(angleEnd);

                context.beginPath();
                context.moveTo(x1, y1);
                context.lineTo(x2, y2);

//				if ( this.getCollapse() )//( selected && this != selectedNode )
                {
                    context.globalAlpha = this.alphaLine.current();
                }

                context.stroke();
            }
        }
    }

    this.drawMap = function (child) {
        if (this.parent) {
            this.parent.drawMap(child);
        }

        if (this.getCollapse() && this != child || this == focusNode) {
            return;
        }

        var angleStart =
            (child.baseMagnitude - this.baseMagnitude) / this.magnitude
            * Math.PI * 2 + rotationOffset;
        var angleEnd =
            (child.baseMagnitude - this.baseMagnitude + child.magnitude) /
            this.magnitude * Math.PI * 2 +
            rotationOffset;

        var box = this.getMapPosition();

        context.save();
        context.fillStyle = 'black';
        context.textAlign = 'end';
        context.textBaseline = 'middle';

        var textX = box.x - mapRadius - mapBuffer;
        var percentage = getPercentage(child.magnitude / this.magnitude);

        var highlight = this == selectedNode || this == highlightedNode;

        if (highlight) {
            context.font = fontBold;
        }
        else {
            context.font = fontNormal;
        }

        context.fillText(percentage + '% of', textX, box.y - mapRadius / 3);
        context.fillText(this.name, textX, box.y + mapRadius / 3);

        if (highlight) {
            context.font = fontNormal;
        }

        if (this == highlightedNode && this != selectedNode) {
            context.fillStyle = 'rgb(245, 245, 245)';
//			context.fillStyle = 'rgb(200, 200, 200)';
        }
        else {
            context.fillStyle = 'rgb(255, 255, 255)';
        }

        context.beginPath();
        context.arc(box.x, box.y, mapRadius, 0, Math.PI * 2, true);
        context.closePath();
        context.fill();

        if (this == selectedNode) {
            context.lineWidth = 1;
            context.fillStyle = 'rgb(100, 100, 100)';
        }
        else {
            if (this == highlightedNode) {
                context.lineWidth = .2;
                context.fillStyle = 'rgb(190, 190, 190)';
            }
            else {
                context.lineWidth = .2;
                context.fillStyle = 'rgb(200, 200, 200)';
            }
        }

        var maxDepth = this.getMaxDepth();

        if (!compress && maxDepth > maxPossibleDepth + this.getDepth() - 1) {
            maxDepth = maxPossibleDepth + this.getDepth() - 1;
        }

        if (this.getDepth() < selectedNode.getDepth()) {
            if (child.getDepth() - 1 >= maxDepth) {
                maxDepth = child.getDepth();
            }
        }

        var radiusInner;

        if (compress) {
            radiusInner = 0;
//				Math.atan(child.getDepth() - this.getDepth()) /
//				Math.PI * 2 * .9;
        }
        else {
            radiusInner =
                (child.getDepth() - this.getDepth()) /
                (maxDepth - this.getDepth() + 1);
        }

        context.stroke();
        context.beginPath();

        if (radiusInner == 0) {
            context.moveTo(box.x, box.y);
        }
        else {
            context.arc(box.x, box.y, mapRadius * radiusInner, angleEnd,
                angleStart, true);
        }

        context.arc(box.x, box.y, mapRadius, angleStart, angleEnd, false);
        context.closePath();
        context.fill();

        if (this == highlightedNode && this != selectedNode) {
            context.lineWidth = 1;
            context.stroke();
        }

        context.restore();
    }

    this.drawReferenceRings = function (childRadiusInner) {
        if (snapshotMode) {
            svg +=
                '<circle cx="' + centerX + '" cy="' + centerY +
                '" r="' + childRadiusInner + '"/>';
            svg +=
                '<circle cx="' + centerX + '" cy="' + centerY +
                '" r="' + gRadius + '"/>';
        }
        else {
            context.globalAlpha = 1 - this.alphaLine.current();//this.getUncollapsed().alphaLine.current();
            context.beginPath();
            context.arc(0, 0, childRadiusInner, 0, Math.PI * 2, false);
            context.stroke();
            context.beginPath();
            context.arc(0, 0, gRadius, 0, Math.PI * 2, false);
            context.stroke();
        }
    }

    this.getCollapse = function () {
        return (
            collapse &&
            this.collapse &&
            this.depth != maxAbsoluteDepth
        );
    }

    this.getDepth = function () {
        if (collapse) {
            return this.depthCollapsed;
        }
        else {
            return this.depth;
        }
    };

    this.getHue = function () {
        return this.hues[currentDataset];
    };

    this.getMagnitude = function () {
        return this.attributes[magnitudeIndex][currentDataset];
    };

    this.getMapPosition = function () {
        return {
            x: (details.offsetLeft + details.clientWidth - mapRadius),
            y: ((focusNode.getDepth() - this.getDepth()) *
                (mapBuffer + mapRadius * 2) - mapRadius) +
            details.clientHeight + details.offsetTop
        };
    }

    this.getMaxDepth = function (limit) {
        var max;

        if (collapse) {
            return this.maxDepthCollapsed;
        }
        else {
            if (this.maxDepth > maxAbsoluteDepth) {
                return maxAbsoluteDepth;
            }
            else {
                return this.maxDepth;
            }
        }
    }

    this.getData = function (index, summary) {
        var files = new Array();

        if
        (
            this.attributes[index] != null &&
            this.attributes[index][currentDataset] != null &&
            this.attributes[index][currentDataset] != ''
        ) {
            files.push
            (
                document.location +
                '.files/' +
                this.attributes[index][currentDataset]
            );
        }

        if (summary) {
            for (var i = 0; i < this.children.length; i++) {
                files = files.concat(this.children[i].getData(index, true));
            }
        }

        return files;
    }

    this.getList = function (index, summary) {
        var list;

        if
        (
            this.attributes[index] != null &&
            this.attributes[index][currentDataset] != null
        ) {
            list = this.attributes[index][currentDataset];
        }
        else {
            list = new Array();
        }

        if (summary) {
            for (var i = 0; i < this.children.length; i++) {
                list = list.concat(this.children[i].getList(index, true));
            }
        }

        return list;
    }

    this.getParent = function () {
        // returns parent, accounting for collapsing or 0 if doesn't exist

        var parent = this.parent;

        while (parent != 0 && parent.getCollapse()) {
            parent = parent.parent;
        }

        return parent;
    }

    this.getPercentage = function () {
        return getPercentage(this.magnitude / selectedNode.magnitude);
    }

    this.getUnclassifiedPercentage = function () {
        if (this.children.length) {
            var lastChild = this.children[this.children.length - 1];

            return getPercentage
            (
                (
                    this.baseMagnitude +
                    this.magnitude -
                    lastChild.magnitude -
                    lastChild.baseMagnitude
                ) / this.magnitude
            ) + '%';
        }
        else {
            return '100%';
        }
    }

    this.getUnclassifiedText = function () {
        return '[other ' + this.name + ']';
    }

    this.getUncollapsed = function () {
        // recurse through collapsed children until uncollapsed node is found

        if (this.getCollapse()) {
            return this.children[0].getUncollapsed();
        }
        else {
            return this;
        }
    };

    this.hasChildren = function () {
        return this.depth < maxAbsoluteDepth && this.magnitude
            && this.children.length;
    };

    this.hasParent = function (parent) {
        if (this.parent) {
            if (this.parent === parent) {
                return true;
            }
            else {
                return this.parent.hasParent(parent);
            }
        }
        else {
            return false;
        }
    };

    this.isLeaf = function (_recursing) {
        // Returns true/1 for a real leave, false/0 otherwise, counting the
        //   non-empty leaves downstream and checking for positive counts.
        // Param _recursing is an internal auxiliar variable not to be used
        var leaves = 0;
        if (this.children.length) {  // Node has children -> recurse
            for (var i = 0; i < this.children.length; i++) {
                leaves += this.children[i].isLeaf(true);
            }
            if (_recursing) {
                return leaves ? leaves : +!!this.magnitude;
                // If this has no leaves but has magnitude, this is a leaf.
                // NOTE: +!!num is 0 for num=0 and is 1 otherwise
            } else {
                return !!this.magnitude && !leaves;
            }
        } else {  // Node has not children
            if (!this.magnitude) {
                return 0;  // Fake leaf (empty)
            } else {
                return 1;  // This is true leaf
            }
        }
    };

    this.maxVisibleDepth = function (maxDepth) {
        var childInnerRadius;
        var depth = this.getDepth() - selectedNode.getDepth() + 1;
        var currentMaxDepth = depth;

        if (this.hasChildren() && depth < maxDepth) {
            var lastChild = this.children[this.children.length - 1];

            if (lastChild.baseMagnitude + lastChild.magnitude <
                this.baseMagnitude + this.magnitude) {
                currentMaxDepth++;
            }

            if (compress) {
                childInnerRadius = compressedRadii[depth - 1];
            }
            else {
                childInnerRadius = (depth) / maxDepth;
            }

            for (var i = 0; i < this.children.length; i++) {
                if
                (//true ||
                    this.children[i].magnitude *
                    angleFactor *
                    (childInnerRadius + 1) *
                    gRadius >=
                    minWidth()
                ) {
                    var childMaxDepth
                        = this.children[i].maxVisibleDepth(maxDepth);

                    if (childMaxDepth > currentMaxDepth) {
                        currentMaxDepth = childMaxDepth;
                    }
                }
            }
        }

        return currentMaxDepth;
    }

    this.resetLabelWidth = function () {
        var nameWidthOld = this.nameWidth;

        if (true || !this.radial)//&& fontSize != fontSizeLast )
        {
            var dim = context.measureText(this.name);
            this.nameWidth = dim.width;
        }

        if (fontSize != fontSizeLast
            && this.labelWidth.end == nameWidthOld * labelWidthFudge) {
            // font size changed; adjust start of tween to match

            this.labelWidth.start = this.nameWidth * labelWidthFudge;
        }
        else {
            this.labelWidth.start = this.labelWidth.current();
        }

        this.labelWidth.end = this.nameWidth * labelWidthFudge;
    }

    this.restrictLabelWidth = function (width) {
        if (width < this.labelWidth.end) {
            this.labelWidth.end = width;
        }
    }

    this.search = function () {
        this.isSearchResult = false;
        this.searchResults = 0;

        if
        (
            !this.getCollapse() &&
            search.value !== '' &&
            this.name.toLowerCase().indexOf(search.value.toLowerCase()) !== -1
        ) {
            this.isSearchResult = true;
            this.searchResults = 1;
            nSearchResults++;
        }

        for (var i = 0; i < this.children.length; i++) {
            this.searchResults += this.children[i].search();
        }

        return this.searchResults;
    }

    this.searchResultChildren = function () {
        if (this.isSearchResult) {
            return this.searchResults - 1;
        }
        else {
            return this.searchResults;
        }
    }

    this.setDepth = function (depth, depthCollapsed) {
        this.depth = depth;
        this.depthCollapsed = depthCollapsed;

        if
        (
            this.children.length === 1 &&
            //			this.magnitude > 0 &&
            this.children[0].magnitude === this.magnitude &&
            (head.children.length > 1 || this.children[0].children.length)
        ) {
            this.collapse = true;
        }
        else {
            this.collapse = false;
            depthCollapsed++;
        }

        for (var i = 0; i < this.children.length; i++) {
            this.children[i].setDepth(depth + 1, depthCollapsed);
        }
    }

    this.setHighlightStyle = function () {
        context.lineWidth = highlightLineWidth;

        if (this.hasChildren() || this !== focusNode
            || this !== highlightedNode) {
            context.strokeStyle = 'black';
            context.fillStyle = "rgba(255, 255, 255, .3)";
        }
        else {
            context.strokeStyle = 'rgb(90,90,90)';
            context.fillStyle = "rgba(155, 155, 155, .3)";
        }
    }

    this.setLabelWidth = function (node) {
        if (!shorten || this.radial) {
            return; // don't need to set width
        }

        if (node.hide) {
            alert('wtf');
            return;
        }

        var angle = (this.angleStart.end + this.angleEnd.end) / 2;
        var a; // angle difference

        if (node == selectedNode) {
            a = Math.abs(angle - node.angleOther);
        }
        else {
            a = Math.abs(angle
                - (node.angleStart.end + node.angleEnd.end) / 2);
        }

        if (a == 0) {
            return;
        }

        if (a > Math.PI) {
            a = 2 * Math.PI - a;
        }

        if (node.radial || node == selectedNode) {
            var nodeLabelRadius;

            if (node == selectedNode) {
                // radial 'other' label

                nodeLabelRadius = (node.children[0].radiusInner.end + 1) / 2;
            }
            else {
                nodeLabelRadius = (node.radiusInner.end + 1) / 2;
            }

            if (a < Math.PI / 2) {
                var r = this.labelRadius.end * gRadius + .5 * fontSize
                var hypotenuse = r / Math.cos(a);
                var opposite = r * Math.tan(a);
                var fontRadius = .8 * fontSize;

                if
                (
                    nodeLabelRadius * gRadius < hypotenuse &&
                    this.labelWidth.end / 2 + fontRadius > opposite
                ) {
                    this.labelWidth.end = 2 * (opposite - fontRadius);
                }
            }
        }
        else if
        (
            this.labelRadius.end == node.labelRadius.end &&
            a < Math.PI / 4
        ) {
            // same radius with small angle; use circumferential approximation

            var dist = a * this.labelRadius.end * gRadius - fontSize
                * (1 - a * 4 / Math.PI) * 1.3;

            if (this.labelWidth.end < dist) {
                node.restrictLabelWidth((dist - this.labelWidth.end / 2) * 2);
            }
            else if (node.labelWidth.end < dist) {
                this.restrictLabelWidth((dist - node.labelWidth.end / 2) * 2);
            }
            else {
                // both labels reach halfway point; restrict both

                this.labelWidth.end = dist;
                node.labelWidth.end = dist
            }
        }
        else {
            var r1 = this.labelRadius.end * gRadius;
            var r2 = node.labelRadius.end * gRadius;

            // first adjust the radii to account for the height of the font
            // by shifting them toward each other
            //
            var fontFudge = .35 * fontSize;
            //
            if (this.labelRadius.end < node.labelRadius.end) {
                r1 += fontFudge;
                r2 -= fontFudge;
            }
            else if (this.labelRadius.end > node.labelRadius.end) {
                r1 -= fontFudge;
                r2 += fontFudge;
            }
            else {
                r1 -= fontFudge;
                r2 -= fontFudge;
            }

            var r1s = r1 * r1;
            var r2s = r2 * r2;

            // distance between the centers of the two labels
            //
            var dist = Math.sqrt(r1s + r2s - 2 * r1 * r2 * Math.cos(a));

            // angle at our label center between our radius and the line to the
            // other label center
            //
            var b = Math.acos((r1s + dist * dist - r2s) / (2 * r1 * dist));

            // distance from our label center to the intersection of the
            // two tangents
            //
            var l1 = Math.sin(a + b - Math.PI / 2) * dist / Math.sin(Math.PI - a);

            // distance from other label center the the intersection of the
            // two tangents
            //
            var l2 = Math.sin(Math.PI / 2 - b) * dist / Math.sin(Math.PI - a);

            l1 = Math.abs(l1) - .4 * fontSize;
            l2 = Math.abs(l2) - .4 * fontSize;
            /*
			// amount to shorten the distances because of height of the font
			//
			var l3 = 0;
			var fontRadius = fontSize * .55;
			//
			if ( l1 < 0 || l2 < 0 )
			{
				var l4 = fontRadius / Math.tan(a);
			l1 = Math.abs(l1);
			l2 = Math.abs(l2);

				l1 -= l4;
				l2 -= l4;
			}
			else
			{
				var c = Math.PI - a;

				l3 = fontRadius * Math.tan(c / 2);
			}
*/
            if (this.labelWidth.end / 2 > l1 && node.labelWidth.end / 2 > l2) {
                // shorten the farthest one from the intersection

                if (l1 > l2) {
                    this.restrictLabelWidth(2 * (l1));// - l3 - fontRadius));
                }
                else {
                    node.restrictLabelWidth(2 * (l2));// - l3 - fontRadius));
                }
            }
            /*
			else if ( this.labelWidth.end / 2 > l1 + l3 && node.labelWidth.end
			/ 2 > l2 - l3 )
			{
				node.restrictLabelWidth(2 * (l2 - l3));
			}
			else if ( this.labelWidth.end / 2 > l1 - l3 && node.labelWidth.end
			/ 2 > l2 + l3 )
			{
				this.restrictLabelWidth(2 * (l1 - l3));
			}*/
        }
    }

    this.setMagnitudes = function (baseMagnitude) {
        this.magnitude = this.getMagnitude();
        this.baseMagnitude = baseMagnitude;

        for (var i = 0; i < this.children.length; i++) {
            this.children[i].setMagnitudes(baseMagnitude);
            baseMagnitude += this.children[i].magnitude;
        }

        this.maxChildMagnitude = baseMagnitude;
    }

    this.setMaxDepths = function () {
        this.maxDepth = this.depth;
        this.maxDepthCollapsed = this.depthCollapsed;

        for (i in this.children) {
            var child = this.children[i];

            child.setMaxDepths();

            if (child.maxDepth > this.maxDepth) {
                this.maxDepth = child.maxDepth;
            }

            if
            (
                child.maxDepthCollapsed > this.maxDepthCollapsed &&
                (child.depth <= maxAbsoluteDepth || maxAbsoluteDepth == 0)
            ) {
                this.maxDepthCollapsed = child.maxDepthCollapsed;
            }
        }
    }

    this.setTargetLabelRadius = function () {
        var depth = this.getDepth() - selectedNode.getDepth() + 1;
        var index = depth - 2;
        var labelOffset = labelOffsets[index];

        if (this.radial) {
            //this.labelRadius.setTarget((this.radiusInner.end + 1) / 2);
            var max =
                depth == maxDisplayDepth ?
                    1 :
                    compressedRadii[index + 1];

            this.labelRadius.setTarget((compressedRadii[index] + max) / 2);
        }
        else {
            var radiusCenter;
            var width;

            if (compress) {
                if (nLabelOffsets[index] > 1) {
                    this.labelRadius.setTarget
                    (
                        lerp
                        (
                            labelOffset + .75,
                            0,
                            nLabelOffsets[index] + .5,
                            compressedRadii[index],
                            compressedRadii[index + 1]
                        )
                    );
                }
                else {
                    this.labelRadius.setTarget((compressedRadii[index]
                        + compressedRadii[index + 1]) / 2);
                }
            }
            else {
                radiusCenter =
                    nodeRadius * (depth - 1) +
                    nodeRadius / 2;
                width = nodeRadius;

                this.labelRadius.setTarget
                (
                    radiusCenter + width
                    * ((labelOffset + 1) / (nLabelOffsets[index] + 1) - .5)
                );
            }
        }

        if (!this.hide && !this.keyed && nLabelOffsets[index]) {
            // check last and first labels in each track for overlap

            for (var i = 0; i < maxDisplayDepth - 1; i++) {
                for (var j = 0; j <= nLabelOffsets[i]; j++) {
                    var last = labelLastNodes[i][j];
                    var first = labelFirstNodes[i][j];

                    if (last) {
                        if (j == nLabelOffsets[i]) {
                            // last is radial
                            this.setLabelWidth(last);
                        }
                        else {
                            last.setLabelWidth(this);
                        }
                    }

                    if (first) {
                        if (j == nLabelOffsets[i]) {
                            this.setLabelWidth(first);
                        }
                        else {
                            first.setLabelWidth(this);
                        }
                    }
                }
            }

            if (selectedNode.canDisplayLabelOther) {
                // in case there is an 'other' label
                this.setLabelWidth(selectedNode);
            }

            if (this.radial) {
                // use the last 'track' of this depth for radial

                labelLastNodes[index][nLabelOffsets[index]] = this;

                if (labelFirstNodes[index][nLabelOffsets[index]] == 0) {
                    labelFirstNodes[index][nLabelOffsets[index]] = this;
                }
            }
            else {
                labelLastNodes[index][labelOffset] = this;

                // update offset

                labelOffsets[index] += 1;

                if (labelOffsets[index] > nLabelOffsets[index]) {
                    labelOffsets[index] -= nLabelOffsets[index];

                    if (!(nLabelOffsets[index] & 1)) {
                        labelOffsets[index]--;
                    }
                }
                else if (labelOffsets[index] == nLabelOffsets[index]) {
                    labelOffsets[index] -= nLabelOffsets[index];

                    if (false && !(nLabelOffsets[index] & 1)) {
                        labelOffsets[index]++;
                    }
                }

                if (labelFirstNodes[index][labelOffset] == 0) {
                    labelFirstNodes[index][labelOffset] = this;
                }
            }
        }
        else if (this.hide) {
            this.labelWidth.end = 0;
        }
    }

    this.setTargets = function () {
        if (this == selectedNode) {
            this.setTargetsSelected
            (
                0,
                1,
                lightnessBase,
                false,
                false
            );
            return;
        }

        var depthRelative = this.getDepth() - selectedNode.getDepth();

        var parentOfSelected = selectedNode.hasParent(this);
        /*		(
//			! this.getCollapse() &&
			this.baseMagnitude <= selectedNode.baseMagnitude &&
			this.baseMagnitude + this.magnitude >=
			selectedNode.baseMagnitude + selectedNode.magnitude
		);
*/
        if (parentOfSelected) {
            this.resetLabelWidth();
        }
        else {
            //context.font = fontNormal;
            var dim = context.measureText(this.name);
            this.nameWidth = dim.width;
            //this.labelWidth.setTarget(this.labelWidth.end);
            this.labelWidth.setTarget(0);
        }

        // set angles
        //
        if (this.baseMagnitude <= selectedNode.baseMagnitude) {
            this.angleStart.setTarget(0);
        }
        else {
            this.angleStart.setTarget(Math.PI * 2);
        }
        //
        if
        (
            parentOfSelected ||
            this.baseMagnitude + this.magnitude >=
            selectedNode.baseMagnitude + selectedNode.magnitude
        ) {
            this.angleEnd.setTarget(Math.PI * 2);
        }
        else {
            this.angleEnd.setTarget(0);
        }

        // children
        //
        for (var i = 0; i < this.children.length; i++) {
            this.children[i].setTargets();
        }

        if (this.getDepth() <= selectedNode.getDepth()) {
            // collapse in

            this.radiusInner.setTarget(0);

            if (parentOfSelected) {
                this.labelRadius.setTarget
                (
                    (depthRelative) *
                    historySpacingFactor * fontSize / gRadius
                );
                //this.scale.setTarget(1 - (selectedNode.getDepth()
                // - this.getDepth()) / 18); // TEMP
            }
            else {
                this.labelRadius.setTarget(0);
                //this.scale.setTarget(1); // TEMP
            }
        }
        else if (depthRelative + 1 > maxDisplayDepth) {
            // collapse out

            this.radiusInner.setTarget(1);
            this.labelRadius.setTarget(1);
            //this.scale.setTarget(1); // TEMP
        }
        else {
            // don't collapse

            if (compress) {
                this.radiusInner.setTarget(compressedRadii[depthRelative - 1]);
            }
            else {
                this.radiusInner.setTarget(nodeRadius * (depthRelative));
            }

            //this.scale.setTarget(1); // TEMP

            if (this == selectedNode) {
                this.labelRadius.setTarget(0);
            }
            else {
                if (compress) {
                    this.labelRadius.setTarget
                    (
                        (compressedRadii[depthRelative - 1]
                            + compressedRadii[depthRelative]) / 2
                    );
                }
                else {
                    this.labelRadius.setTarget(nodeRadius * (depthRelative)
                        + nodeRadius / 2);
                }
            }
        }

//		this.r.start = this.r.end;
//		this.g.start = this.g.end;
//		this.b.start = this.b.end;

        this.r.setTarget(255);
        this.g.setTarget(255);
        this.b.setTarget(255);

        this.alphaLine.setTarget(0);
        this.alphaArc.setTarget(0);
        this.alphaWedge.setTarget(0);
        this.alphaPattern.setTarget(0);
        this.alphaOther.setTarget(0);

        if (parentOfSelected && !this.getCollapse()) {
            var alpha =
                (
                    1 -
                    (selectedNode.getDepth() - this.getDepth()) /
                    (Math.floor((compress ? compressedRadii[0] : nodeRadius)
                        * gRadius / (historySpacingFactor * fontSize) - .5) + 1)
                );

            if (alpha < 0) {
                alpha = 0;
            }

            this.alphaLabel.setTarget(alpha);
            this.radial = false;
        }
        else {
            this.alphaLabel.setTarget(0);
        }

        this.hideAlonePrev = this.hideAlone;
        this.hidePrev = this.hide;

        if (parentOfSelected) {
            this.hideAlone = false;
            this.hide = false;
        }

        if (this.getParent() == selectedNode.getParent()) {
            this.hiddenEnd = null;
        }

        this.radialPrev = this.radial;
    }

    this.setTargetsSelected = function (hueMin, hueMax, lightness, hide,
                                        nextSiblingHidden) {
        var collapse = this.getCollapse();
        var depth = this.getDepth() - selectedNode.getDepth() + 1;
        var canDisplayChildLabels = false;
        var lastChild;

        if (this.hasChildren())//&& ! hide )
        {
            lastChild = this.children[this.children.length - 1];
            this.hideAlone = true;
        }
        else {
            this.hideAlone = false;
        }

        // set child wedges
        //
        for (var i = 0; i < this.children.length; i++) {
            this.children[i].setTargetWedge();

            if
            (
                !this.children[i].hide &&
                (collapse || depth < maxDisplayDepth) &&
                this.depth < maxAbsoluteDepth
            ) {
                canDisplayChildLabels = true;
                this.hideAlone = false;
            }
        }

        if (this == selectedNode || lastChild && lastChild.angleEnd.end
            < this.angleEnd.end - .01) {
            this.hideAlone = false;
        }

        if (this.hideAlonePrev == undefined) {
            this.hideAlonePrev = this.hideAlone;
        }

        if (this == selectedNode) {
            var otherArc =
                this.children.length ?
                    angleFactor *
                    (
                        this.baseMagnitude + this.magnitude -
                        lastChild.baseMagnitude - lastChild.magnitude
                    )
                    : this.baseMagnitude + this.magnitude;
            this.canDisplayLabelOther =
                this.children.length ?
                    otherArc *
                    (this.children[0].radiusInner.end + 1) * gRadius >=
                    minWidth()
                    : true;

            this.keyUnclassified = false;

            if (this.canDisplayLabelOther) {
                this.angleOther = Math.PI * 2 - otherArc / 2;
            }
            else if (otherArc > 0.0000000001) {
                this.keyUnclassified = true;
                keys++;
            }

            this.angleStart.setTarget(0);
            this.angleEnd.setTarget(Math.PI * 2);

            if (this.children.length) {
                this.radiusInner.setTarget(0);
            }
            else {
                this.radiusInner.setTarget(compressedRadii[0]);
            }

            this.hidePrev = this.hide;
            this.hide = false;
            this.hideAlonePrev = this.hideAlone;
            this.hideAlone = false;
            this.keyed = false;
        }

        if (hueMax - hueMin > 1 / 12) {
            hueMax = hueMin + 1 / 12;
        }

        // set lightness
        //
        if (!(hide || this.hideAlone)) {
            if (useHue()) {
                lightness = (lightnessBase + lightnessMax) / 2;
            }
            else {
                lightness = lightnessBase + (depth - 1) * lightnessFactor;

                if (lightness > lightnessMax) {
                    lightness = lightnessMax;
                }
            }
        }

        if (hide) {
            this.hide = true;
        }

        if (this.hidePrev == undefined) {
            this.hidePrev = this.hide;
        }

        var hiddenStart = -1;
        var hiddenHueNumer = 0;
        var hiddenHueDenom = 0;


        if (!this.hide) {
            this.hiddenEnd = null;
        }

        for (var i = 0; true; i++) {
            if (!this.hideAlone && !hide && (i == this.children.length
                || !this.children[i].hide)) {
                // reached a non-hidden child or the end; set targets for
                // previous group of hidden children (if any) using their
                // average hue

                if (hiddenStart != -1) {
                    var hiddenHue = hiddenHueDenom ? hiddenHueNumer
                        / hiddenHueDenom : hueMin;

                    for (var j = hiddenStart; j < i; j++) {
                        this.children[j].setTargetsSelected
                        (
                            hiddenHue,
                            null,
                            lightness,
                            false,
                            j < i - 1
                        );

                        this.children[j].hiddenEnd = null;
                    }

                    this.children[hiddenStart].hiddenEnd = i - 1;
                }
            }

            if (i == this.children.length) {
                break;
            }

            var child = this.children[i];
            var childHueMin;
            var childHueMax;

            if (this.magnitude > 0 && !this.hide && !this.hideAlone) {
                if (useHue()) {
                    childHueMin = child.hues[currentDataset];
                }
                else if (this == selectedNode) {
                    var min = 0.0;
                    var max = 1.0;

                    if (this.children.length > 6) {
                        childHueMin = lerp((1 - Math.pow(
                            1 - i / this.children.length, 1.4)) * .95,
                            0, 1, min, max);
                        childHueMax = lerp((1 - Math.pow(
                            1 - (i + .55) / this.children.length, 1.4)) * .95,
                            0, 1, min, max);
                    }
                    else {
                        childHueMin = lerp(i / this.children.length, 0, 1,
                            min, max);
                        childHueMax = lerp((i + .55) / this.children.length,
                            0, 1, min, max);
                    }
                }
                else {
                    childHueMin = lerp
                    (
                        child.baseMagnitude,
                        this.baseMagnitude,
                        this.baseMagnitude + this.magnitude,
                        hueMin,
                        hueMax
                    );
                    childHueMax = lerp
                    (
                        child.baseMagnitude + child.magnitude * .99,
                        this.baseMagnitude,
                        this.baseMagnitude + this.magnitude,
                        hueMin,
                        hueMax
                    );
                }
            }
            else {
                childHueMin = hueMin;
                childHueMax = hueMax;
            }

            if (!this.hideAlone && !hide && !this.hide && child.hide) {
                if (hiddenStart == -1) {
                    hiddenStart = i;
                }

                if (useHue()) {
                    hiddenHueNumer += childHueMin * child.magnitude;
                    hiddenHueDenom += child.magnitude;
                }
                else {
                    hiddenHueNumer += childHueMin;
                    hiddenHueDenom++;
                }
            }
            else {
                hiddenStart = -1;

                this.children[i].setTargetsSelected
                (
                    childHueMin,
                    childHueMax,
                    lightness,
                    hide || this.keyed || this.hideAlone
                    || this.hide && !collapse,
                    false
                );
            }
        }

        if (this.hue && this.magnitude) {
            this.hue.setTarget(this.hues[currentDataset]);

            if (this.attributes[magnitudeIndex][lastDataset] == 0) {
                this.hue.start = this.hue.end;
            }
        }

        this.radialPrev = this.radial;

        if (this == selectedNode) {
            this.resetLabelWidth();
            this.labelWidth.setTarget(this.nameWidth * labelWidthFudge);
            this.alphaWedge.setTarget(0);
            this.alphaLabel.setTarget(1);
            this.alphaOther.setTarget(1);
            this.alphaArc.setTarget(0);
            this.alphaLine.setTarget(0);
            this.alphaPattern.setTarget(0);
            this.r.setTarget(255);
            this.g.setTarget(255);
            this.b.setTarget(255);
            this.radial = false;
            this.labelRadius.setTarget(0);
        }
        else {
            var rgb = hslToRgb
            (
                hueMin,
                saturation,
                lightness
            );

            this.r.setTarget(rgb.r);
            this.g.setTarget(rgb.g);
            this.b.setTarget(rgb.b);
            this.alphaOther.setTarget(0);

            this.alphaWedge.setTarget(1);

            if (this.hide || this.hideAlone) {
                this.alphaPattern.setTarget(1);
            }
            else {
                this.alphaPattern.setTarget(0);
            }

            // set radial
            //
            if (!(hide || this.hide))//&& ! this.keyed )
            {
                if (this.hideAlone) {
                    this.radial = true;
                }
                else if (false && canDisplayChildLabels) {
                    this.radial = false;
                }
                else {
                    this.radial = true;

                    if (this.hasChildren() && depth < maxDisplayDepth) {
                        var lastChild = this.children[this.children.length - 1];

                        if
                        (
                            lastChild.angleEnd.end == this.angleEnd.end ||
                            (
                                (this.angleStart.end + this.angleEnd.end) / 2 -
                                lastChild.angleEnd.end
                            ) * (this.radiusInner.end + 1) * gRadius * 2 <
                            minWidth()
                        ) {
                            this.radial = false;
                        }
                    }
                }
            }

            // set alphaLabel
            //
            if
            (
                collapse ||
                hide ||
                this.hide ||
                this.keyed ||
                depth > maxDisplayDepth ||
                !this.canDisplayDepth()
            ) {
                this.alphaLabel.setTarget(0);
            }
            else {
                if
                (
                    (this.radial || nLabelOffsets[depth - 2])
                ) {
                    this.alphaLabel.setTarget(1);
                }
                else {
                    this.alphaLabel.setTarget(0);

                    if (this.radialPrev) {
                        this.alphaLabel.start = 0;
                    }
                }
            }

            // set alphaArc
            //
            if
            (
                collapse ||
                hide ||
                depth > maxDisplayDepth ||
                !this.canDisplayDepth()
            ) {
                this.alphaArc.setTarget(0);
            }
            else {
                this.alphaArc.setTarget(1);
            }

            // set alphaLine
            //
            if
            (
                hide ||
                this.hide && nextSiblingHidden ||
                depth > maxDisplayDepth ||
                !this.canDisplayDepth()
            ) {
                this.alphaLine.setTarget(0);
            }
            else {
                this.alphaLine.setTarget(1);
            }

            //if (  ! this.radial )
            {
                this.resetLabelWidth();
            }

            // set labelRadius target
            //
            if (collapse) {
                this.labelRadius.setTarget(this.radiusInner.end);
            }
            else {
                if (depth > maxDisplayDepth || !this.canDisplayDepth()) {
                    this.labelRadius.setTarget(1);
                }
                else {
                    this.setTargetLabelRadius();
                }
            }
        }
    }

    this.setTargetWedge = function () {
        var depth = this.getDepth() - selectedNode.getDepth() + 1;

        // set angles
        //
        var baseMagnitudeRelative = this.baseMagnitude
            - selectedNode.baseMagnitude;
        //
        this.angleStart.setTarget(baseMagnitudeRelative * angleFactor);
        this.angleEnd.setTarget((baseMagnitudeRelative + this.magnitude)
            * angleFactor);

        // set radiusInner
        //
        if (depth > maxDisplayDepth || !this.canDisplayDepth()) {
            this.radiusInner.setTarget(1);
        }
        else {
            if (compress) {
                this.radiusInner.setTarget(compressedRadii[depth - 2]);
            }
            else {
                this.radiusInner.setTarget(nodeRadius * (depth - 1));
            }
        }

        if (this.hide != undefined) {
            this.hidePrev = this.hide;
        }

        if (this.hideAlone != undefined) {
            this.hideAlonePrev = this.hideAlone;
        }

        // set hide
        //
        if
        (
            (this.angleEnd.end - this.angleStart.end) *
            (this.radiusInner.end * gRadius + gRadius) <
            minWidth()
        ) {
            if (depth == 2 && !this.getCollapse() && this.depth
                <= maxAbsoluteDepth) {
                this.keyed = true;
                keys++;
                this.hide = false;

                var percentage = this.getPercentage();
                this.keyLabel = this.name + '   ' + percentage + '%';
                var dim = context.measureText(this.keyLabel);
                this.keyNameWidth = dim.width;
            }
            else {
                this.keyed = false;
                this.hide = depth > 2;
            }
        }
        else {
            this.keyed = false;
            this.hide = false;
        }
    }

    this.shortenLabel = function () {
        var label = this.name;

        var labelWidth = this.nameWidth;
        var maxWidth = this.labelWidth.current();
        var minEndLength = 0;

        if (labelWidth > maxWidth && label.length > minEndLength * 2) {
            var endLength =
                Math.floor((label.length - 1) * maxWidth / labelWidth / 2);

            if (endLength < minEndLength) {
                endLength = minEndLength;
            }

            return (
                label.substring(0, endLength) +
                '...' +
                label.substring(label.length - endLength));
        }
        else {
            return label;
        }
    }

    /*	this.shouldAddSearchResultsString = function()
	{
		if ( this.isSearchResult )
		{
			return this.searchResults > 1;
		}
		else
		{
			return this.searchResults > 0;
		}
	}
*/
    this.sort = function () {
        this.children.sort(function (a, b) {
            if (sortByScoreCheckBox.checked) {
                return b.getHue() - a.getHue()
            } else {
                return b.getMagnitude() - a.getMagnitude()
            }
        });

        for (var i = 0; i < this.children.length; i++) {
            this.children[i].sort();
        }
    }
}

var options;

function addOptionElement(position, innerHTML, title, padding) {
    var div = document.createElement("div");
//	div.style.position = 'absolute';
//	div.style.top = position + 'px';
    div.innerHTML = innerHTML;
//	div.style.display = 'block';
    div.style.padding = padding || '2px';

    if (title) {
        div.title = title;
    }

    options.appendChild(div);
    var height = 0;//div.clientHeight;
    return position + height;
}

function addOptionElements(hueName, hueDefault) {
    options = document.createElement('div');
    options.style.position = 'absolute';
    options.style.top = '0px';
    options.addEventListener('mousedown', function (e) {
        mouseClick(e)
    }, false);
//	options.onmouseup = function(e) {mouseUp(e)}
    document.body.appendChild(options);

    if (chart === ChartEnum.TAXOMIC) {
        document.body.style.font = '11px Ubuntu';
    } else {
        document.body.style.font = '12px Saira Semi Condensed';
    }
    var position = 5;

    function logLoaded(fontFace) {
        console.log(fontFace.family, 'loaded successfully.');
    }

// Loading FontFaces via JavaScript is alternative to using CSS's @font-face rule.
//     var ubuntuMonoFontFace = new FontFace('Ubuntu Mono', 'url(https://fonts.gstatic.com/s/ubuntumono/v7/KFOjCneDtsqEr0keqCMhbCc6CsTYl4BO.woff2)');
//     document.fonts.add(ubuntuMonoFontFace);
//     ubuntuMonoFontFace.loaded.then(logLoaded);
//     var oxygenFontFace = new FontFace('Oxygen', 'url(https://fonts.gstatic.com/s/oxygen/v5/qBSyz106i5ud7wkBU-FrPevvDin1pK8aKteLpeZ5c0A.woff2)');
//     document.fonts.add(oxygenFontFace);
//     oxygenFontFace.loaded.then(logLoaded);
    var oxygenMonoFontFace = new FontFace('Oxygen Mono', 'url(https://fonts.gstatic.com/s/oxygenmono/v5/h0GsssGg9FxgDgCjLeAd7hjYx-6tPUUv.woff2)');
    document.fonts.add(oxygenMonoFontFace);
    oxygenMonoFontFace.loaded.then(logLoaded);
    var sairaCondensedFontFace = new FontFace('Saira Condensed', 'url(https://fonts.gstatic.com/s/sairacondensed/v3/EJROQgErUN8XuHNEtX81i9TmEkrvoutF2o-Srg.woff2)');
    document.fonts.add(sairaCondensedFontFace);
    sairaCondensedFontFace.loaded.then(logLoaded);
    var sairaSemiCondensedFontFace = new FontFace('Saira Semi Condensed', 'url(https://fonts.gstatic.com/s/sairasemicondensed/v3/U9MD6c-2-nnJkHxyCjRcnMHcWVWV1cWRRX8MaOY8q3T_.woff2)');
    document.fonts.add(sairaSemiCondensedFontFace);
    sairaSemiCondensedFontFace.loaded.then(logLoaded);

// The .ready promise resolves when all fonts that have been previously requested
// are loaded and layout operations are complete.
    document.fonts.ready.then(function () {
        console.log('There are', document.fonts.size, 'FontFaces loaded.\n');

        // document.fonts has a Set-like interface. Here, we're iterating over its values.
        for (var fontFace of document.fonts.values()) {
            console.log('FontFace:');
            for (var property in fontFace) {
                console.log('  ' + property + ': ' + fontFace[property]);
            }
            console.log('\n');
        }
    });

    details = document.createElement('div');
    details.style.position = 'absolute';
    details.style.top = '1%';
    details.style.right = '2%';
    details.style.textAlign = 'right';
    document.body.insertBefore(details, canvas);
//<div id="details" style="position:absolute;top:1%;right:2%;text-align:right;">

    details.innerHTML = '\
<span id="detailsName" style="font-weight:bold"></span>&nbsp;\
<input type="button" id="detailsExpand" onclick="expand(focusNode);"\
value="&harr;" title="Expand this wedge to become the new focus of the chart"/><br/>\
<div id="detailsInfo" style="float:right"></div>';

    keyControl = document.createElement('input');
    keyControl.type = 'button';
    keyControl.value = showKeys ? 'x' : '…';
    keyControl.style.position = '';
    keyControl.style.position = 'fixed';
    keyControl.style.visibility = 'hidden';

    document.body.insertBefore(keyControl, canvas);

    var logoElement = document.getElementById('logo');

    if (logoElement) {
        logoImage = logoElement.src;
    }
    else {
        logoImage = 'https://raw.githubusercontent.com/khyox/recentrifuge/master/recentrifuge/img/logo-rcf-mini.uri';
    }
    var placeholderTit;
    if (chart === ChartEnum.GENOMIC) {
        placeholderTit = "Complete or partial function, process, component...";
    } else {
        placeholderTit = "Taxon scientific name, complete or partial name...";
    }
    position = addOptionElement
    (
        position,
        '<a style="margin:2px" target="_blank" href="http://www.recentrifuge.org"><img style="vertical-align:middle;width:136px;height:32px;padding:8px 10px 6px 10px" src="' + logoImage + '"/></a><input type="button" id="back" value="&larr;" title="Go back (Shortcut: &larr;)"/>\
<input type="button" id="forward" value="&rarr;" title="Go forward (Shortcut: &rarr;)"/> \
&nbsp;&nbsp;&nbsp;Search: <input type="text" placeholder="' + placeholderTit + '" size="45" id="search"/>\
<input id="searchClear" type="button" value="x" onclick="clearSearch()"/> \
<span id="searchResults"></span>'
    );

    if (datasets > 1) {
        var size = datasets < DATASET_MAX_SIZE ? datasets : DATASET_MAX_SIZE;

        var select =
            '<table style="border-collapse:collapse;margin-left:10px"><tr><td style="padding:0px">' +
            '<select id="datasets" style="min-width:100px" size="' + size + '" onchange="onDatasetChange()">';

        for (var i = 0; i < datasetNames.length; i++) {
            select += '<option>' + datasetNames[i] + '</option>';
        }
        select +=
            '</select></td><td style="vertical-align:top;padding:2px;">' +
            '<input style="display:block" title="Previous dataset ' +
            '(Shortcut: &uarr;)" id="prevDataset" type="button"' +
            ' value="&uarr;" onclick="prevDataset()" disabled="true"/>' +
            '<input title="Next dataset (Shortcut: &darr;)" ' +
            'id="nextDataset" type="button" value="&darr;" ' +
            'onclick="nextDataset()"/><br/></td>' +
            '<td style="vertical-align:top;padding:2px;">' +
            '<input style="display:block" ' +
            'title="Switch to the prior dataset that was viewed ' +
            '(Shortcut: TAB)" id="lastDataset" type="button" ' +
            'style="font:11px Ubuntu" value="prior" ' +
            'onclick="selectLastDataset()"/>' +
            '<select id="ranks" onchange="onRankChange()" ' +
            'title="Filter samples by taxonomic rank">' +
            '<option value="SUMMARY">SUMMARY</option>' +
            '<option value="strain">strain</option>' +
            '<option value="species">species</option>' +
            '<option value="genus">genus</option>' +
            '<option value="family">family</option>' +
            '<option value="order">order</option>' +
            '<option value="class">class</option>' +
            '<option value="phylum">phylum</option>' +
            '<option value="kingdom">kingdom</option>' +
            '<option value="domain">domain</option>' +
            '<option value="ALL">ALL</option>' +
            '<option value="NONE">NONE</option>' +
            '</select></td></tr></table>';

        position = addOptionElement(position + 5, select);

        datasetDropDown = document.getElementById('datasets');
        datasetButtonLast = document.getElementById('lastDataset');
        datasetButtonPrev = document.getElementById('prevDataset');
        datasetButtonNext = document.getElementById('nextDataset');
        rankDropDown = document.getElementById('ranks');
        if (chart === ChartEnum.GENOMIC) {
            for (i = 1; i < 10; i++) {
                rankDropDown.remove(1);  // Remove taxonomic ranks from options
            }
            datasetDropDown.style.color='#FFFFFF'
            datasetDropDown.style.backgroundColor='#555555'  // #B20DFF22'
        }
        position += datasetDropDown.clientHeight;
    }

    position = addOptionElement
    (
        position + 5,
        '<input type="button" id="maxAbsoluteDepthDecrease" style="margin:1px 4px 0 10px" value="-"/>\
<span id="maxAbsoluteDepth"></span>\
&nbsp;<input type="button" id="maxAbsoluteDepthIncrease" style="margin:2px 1px 0 2px" value="+"/> Max depth',
        'Maximum depth to display, counted from the top level \
and including collapsed wedges.'
    );

    position = addOptionElement
    (
        position,
        '<input type="button" id="fontSizeDecrease" style="margin:0 4px 0 10px" value="-"/>\
<span id="fontSize"></span>\
&nbsp;<input type="button" id="fontSizeIncrease" style="margin:0 2px 0 2px" value="+"/> Font size'
    );

    position = addOptionElement
    (
        position,
        '<input type="button" id="radiusDecrease" style="margin:0 4px 0 10px" value="-"/>\
<input type="button" id="radiusIncrease" style="margin:0 2px 0 1px" value="+"/> Chart size'
    );

    position = addOptionElement
    (
        position,
        '<input type="button" id="bkgBrightDecrease" style="margin:0 4px 5px 10px" value="-"/>\
<input type="button" id="bkgBrightIncrease" style="margin:0 2px 5px 1px" value="+"/> Bkg bright'
    );

    if (hueName) {
        hueDisplayName = attributes[attributeIndex(hueName)].displayName;

        position = addOptionElement
        (
            position + 5,
            '<input type="checkbox" id="useHue" style="float:left; ' +
            'margin:1px 4px 0 12px"/><div>Color by ' + hueDisplayName +
            '</div>'
        );

        useHueCheckBox = document.getElementById('useHue');
        useHueCheckBox.checked = hueDefault;
        useHueCheckBox.onclick = handleResize;
        useHueCheckBox.onmousedown = suppressEvent;

        position = addOptionElement
        (
            position,
            '<input type="checkbox" id="sortByScore"/> Use to sort',
            'Activates sorting the taxa by this magnitude',
            '0px 2px 2px 25px'
        );

        sortByScoreCheckBox = document.getElementById('sortByScore');
        sortByScoreCheckBox.onclick = onSortChange;
        sortByScoreCheckBox.onmousedown = suppressEvent;
    }

    position = addOptionElement
    (
        position,
        '<input type="checkbox" id="collapse" style="margin:4px 4px 0 12px" ' +
        'checked="checked"/>Collapse',
        'Collapse wedges that are redundant (entirely composed of another ' +
        'wedge). Also affects score navigation, restricting to lowest level.'
    );

    /*
	position = addOptionElement
	(
		position,
		'&nbsp;<input type="checkbox" id="shorten" checked="checked" />Shorten labels</div>',
		'Prevent labels from overlapping by shortening them'
	);

	position = addOptionElement
	(
		position,
		'&nbsp;<input type="checkbox" id="compress" checked="checked" />Compress',
		'Compress wedges if needed to show the entire depth'
	);
    */

    position = addOptionElement
    (
        position,
        '<input type="button" id="snapshot" style="margin:5px 2px 0 10px"\
         value="Snapshot" title="Render the current view as SVG (Scalable \
Vector Graphics), a vectorial publication-quality format that can be saved or \
printed as PDF"/> <input type="button" id="help" value="?"\
    onclick="window.open(\'https://github.com/khyox/recentrifuge/wiki\',\
     \'help\')" title="Help"/>');

    position = addOptionElement
    (
        position + 5,
        '<input type="button" id="linkButton" style="margin:5px 2px 0 10px"  value="Link"/>\
<input type="text" size="30" id="linkText"/>',
        'Show a link to this view that can be copied for bookmarking or sharing'
    );
}

function arrow(angleStart, angleEnd, radiusInner) {
    if (context.globalAlpha == 0) {
        return;
    }

    var angleCenter = (angleStart + angleEnd) / 2;
    var radiusArrowInner = radiusInner - gRadius / 10;//nodeRadius * gRadius;
    var radiusArrowOuter = gRadius * 1.1;//(1 + nodeRadius);
    var radiusArrowCenter = (radiusArrowInner + radiusArrowOuter) / 2;
    var pointLength = (radiusArrowOuter - radiusArrowInner) / 5;

    context.fillStyle = highlightFill;
    context.lineWidth = highlightLineWidth;

    // First, mask out the first half of the arrow.  This will prevent the tips
    // from superimposing if the arrow goes most of the way around the circle.
    // Masking is done by setting the clipping region to the inverse of the
    // half-arrow, which is defined by cutting the half-arrow out of a large
    // rectangle
    //
    context.beginPath();
    context.arc(0, 0, radiusInner, angleCenter, angleEnd, false);
    context.lineTo
    (
        radiusArrowInner * Math.cos(angleEnd),
        radiusArrowInner * Math.sin(angleEnd)
    );
    context.lineTo
    (
        radiusArrowCenter * Math.cos(angleEnd)
        - pointLength * Math.sin(angleEnd),
        radiusArrowCenter * Math.sin(angleEnd)
        + pointLength * Math.cos(angleEnd)
    );
    context.lineTo
    (
        radiusArrowOuter * Math.cos(angleEnd),
        radiusArrowOuter * Math.sin(angleEnd)
    );
    context.arc(0, 0, gRadius, angleEnd, angleCenter, true);
    context.closePath();
    context.moveTo(-imageWidth, -imageHeight);
    context.lineTo(imageWidth, -imageHeight);
    context.lineTo(imageWidth, imageHeight);
    context.lineTo(-imageWidth, imageHeight);
    context.closePath();
    context.save();
    context.clip();

    // Next, draw the other half-arrow with the first half masked out
    //
    context.beginPath();
    context.arc(0, 0, radiusInner, angleCenter, angleStart, true);
    context.lineTo
    (
        radiusArrowInner * Math.cos(angleStart),
        radiusArrowInner * Math.sin(angleStart)
    );
    context.lineTo
    (
        radiusArrowCenter * Math.cos(angleStart)
        + pointLength * Math.sin(angleStart),
        radiusArrowCenter * Math.sin(angleStart)
        - pointLength * Math.cos(angleStart)
    );
    context.lineTo
    (
        radiusArrowOuter * Math.cos(angleStart),
        radiusArrowOuter * Math.sin(angleStart)
    );
    context.arc(0, 0, gRadius, angleStart, angleCenter, false);
    context.fill();
    context.stroke();

    // Finally, remove the clipping region and draw the first half-arrow.  This
    // half is extended slightly to fill the seam.
    //
    context.restore();
    context.beginPath();
    context.arc(0, 0, radiusInner, angleCenter
        - 2 / (2 * Math.PI * radiusInner), angleEnd, false);
    context.lineTo
    (
        radiusArrowInner * Math.cos(angleEnd),
        radiusArrowInner * Math.sin(angleEnd)
    );
    context.lineTo
    (
        radiusArrowCenter * Math.cos(angleEnd)
        - pointLength * Math.sin(angleEnd),
        radiusArrowCenter * Math.sin(angleEnd)
        + pointLength * Math.cos(angleEnd)
    );
    context.lineTo
    (
        radiusArrowOuter * Math.cos(angleEnd),
        radiusArrowOuter * Math.sin(angleEnd)
    );
    context.arc(0, 0, gRadius, angleEnd, angleCenter - 2
        / (2 * Math.PI * gRadius), true);
    context.fill();
    context.stroke();
}

function attributeIndex(aname) {
    for (var i = 0; i < attributes.length; i++) {
        if (aname == attributes[i].name) {
            return i;
        }
    }

    return null;
}

function bkgBrightDecrease() {
    var bkgBrightInt = parseInt(bkgBright, 16)
    if (bkgBrightInt > parseInt('555555', 16)) {
        bkgBright = (bkgBrightInt - 0x111111).toString(16)
        document.body.style.backgroundColor = '#' + bkgBright
        updateViewNeeded = true;
    }
}

function bkgBrightIncrease() {
    var bkgBrightInt = parseInt(bkgBright, 16)
    if (bkgBrightInt < parseInt('ffffff', 16)) {
        bkgBright = (bkgBrightInt + 0x111111).toString(16)
        document.body.style.backgroundColor = '#' + bkgBright
        updateViewNeeded = true;
    }
}

function checkHighlight() {
    var lastHighlightedNode = highlightedNode;
    var lastHighlightingHidden = highlightingHidden;

    highlightedNode = selectedNode;
    resetKeyOffset();

    if (progress == 1) {
        selectedNode.checkHighlight();
        if (selectedNode.getParent()) {
            selectedNode.getParent().checkHighlightCenter();
        }

        focusNode.checkHighlightMap();
    }

    if (highlightedNode != selectedNode) {
        if (highlightedNode == focusNode) {
//			canvas.style.display='none';
//			window.resizeBy(1,0);
//			canvas.style.cursor='ew-resize';
//			window.resizeBy(-1,0);
//			canvas.style.display='inline';
        }
        else {
//			canvas.style.cursor='pointer';
        }
    }
    else {
//		canvas.style.cursor='auto';
    }

    if
    (
        (
            true ||
            highlightedNode != lastHighlightedNode ||
            highlightingHidden != highlightingHiddenLast
        ) &&
        progress == 1
    ) {
        draw(); // TODO: handle in update()
    }
}

function checkSelectedCollapse() {
    var newNode = selectedNode;

    while (newNode.getCollapse()) {
        newNode = newNode.children[0];
    }

    if (newNode.children.length == 0 && newNode.getParent()) {
        newNode = newNode.getParent();
    }

    if (newNode != selectedNode) {
        selectNode(newNode);
    }
}

function clearSearch() {
    if (search.value != '') {
        search.value = '';
        nodesIndex = undefined;
        onSearchChange();
    }
}

function createSVG() {
    svgNS = "http://www.w3.org/2000/svg";
    var SVG = {};
    SVG.xlinkns = "http://www.w3.org/1999/xlink";

    var newSVG = document.createElementNS(svgNS, "svg:svg");

    newSVG.setAttribute("id", "canvas");
    // How big is the canvas in pixels
    newSVG.setAttribute("width", '100%');
    newSVG.setAttribute("height", '100%');
    // Set the coordinates used by drawings in the canvas
//	newSVG.setAttribute("viewBox", "0 0 " + imageWidth + " " + imageHeight);
    // Define the XLink namespace that SVG uses
    newSVG.setAttributeNS
    (
        "http://www.w3.org/2000/xmlns/",
        "xmlns:xlink",
        SVG.xlinkns
    );

    return newSVG;
}

function degrees(radians) {
    return radians * 180 / Math.PI;
}

function draw() {
    tweenFrames++;
    //resize();
//	context.fillRect(0, 0, imageWidth, imageHeight);
    context.clearRect(0, 0, imageWidth, imageHeight);

    context.font = fontNormal;
    context.textBaseline = 'middle';

    //context.strokeStyle = 'rgba(0, 0, 0, 0.3)';
    context.translate(centerX, centerY);

    resetKeyOffset();

    head.draw(false, false); // draw pie slices
    head.draw(true, false); // draw labels

    var pathRoot = selectedNode;

    if (focusNode != 0 && focusNode != selectedNode) {
        context.globalAlpha = 1;
        focusNode.drawHighlight(true);
        pathRoot = focusNode;
    }

    if
    (
        highlightedNode &&
        highlightedNode.getDepth() >= selectedNode.getDepth() &&
        highlightedNode != focusNode
    ) {
        if
        (
            progress == 1 &&
            highlightedNode != selectedNode &&
            (
                highlightedNode != focusNode ||
                focusNode.children.length > 0
            )
        ) {
            context.globalAlpha = 1;
            highlightedNode.drawHighlight(true);
        }

        //pathRoot = highlightedNode;
    }
    else if
    (
        progress == 1 &&
        highlightedNode.getDepth() < selectedNode.getDepth()
    ) {
        context.globalAlpha = 1;
        highlightedNode.drawHighlightCenter();
    }

    if (quickLook && false) // TEMP
    {
        context.globalAlpha = 1 - progress / 2;
        selectedNode.drawHighlight(true);
    }
    else if (progress < 1)//&& zoomOut() )
    {
        if (!zoomOut)//() )
        {
            context.globalAlpha = selectedNode.alphaLine.current();
            selectedNode.drawHighlight(true);
        }
        else if (selectedNodeLast) {
            context.globalAlpha = 1 - 4 * Math.pow(progress - .5, 2);
            selectedNodeLast.drawHighlight(false);
        }
    }

    drawDatasetName();

    //drawHistory();

    context.translate(-centerX, -centerY);
    context.globalAlpha = 1;

    mapRadius =
        (imageHeight / 2 - details.clientHeight - details.offsetTop) /
        (pathRoot.getDepth() - 1) * 3 / 4 / 2;

    if (mapRadius > maxMapRadius) {
        mapRadius = maxMapRadius;
    }

    mapBuffer = mapRadius / 2;

    //context.font = fontNormal;
    pathRoot.drawMap(pathRoot);

    if (hueDisplayName && useHue()) {
        drawLegend();
    }
}

function drawBubble(angle, radius, width, radial, flip) {
    var height = fontSize * 2;
    var x;
    var y;

    width = width + fontSize;

    if (radial) {
        y = -fontSize;

        if (flip) {
            x = radius - width + fontSize / 2;
        }
        else {
            x = radius - fontSize / 2;
        }
    }
    else {
        x = -width / 2;
        y = -radius - fontSize;
    }

    if (snapshotMode) {
        drawBubbleSVG(x + centerX, y + centerY, width, height, fontSize, angle);
    }
    else {
        drawBubbleCanvas(x, y, width, height, fontSize, angle);
    }
}

function drawBubbleCanvas(x, y, width, height, radius, rotation) {
    context.strokeStyle = 'black';
    context.lineWidth = highlightLineWidth;
    context.fillStyle = 'rgba(255, 255, 255, .75)';
    context.rotate(rotation);
    roundedRectangle(x, y, width, fontSize * 2, fontSize);
    context.fill();
    context.stroke();
    context.rotate(-rotation);
}

function drawBubbleSVG(x, y, width, height, radius, rotation) {
    svg +=
        '<rect x="' + x + '" y="' + y +
        '" width="' + width +
        '" height="' + height +
        '" rx="' + radius +
        '" ry="' + radius +
        '" fill="rgba(255, 255, 255, .75)' +
        '" class="highlight" ' +
        'transform="rotate(' +
        degrees(rotation) + ',' + centerX + ',' + centerY +
        ')"/>';
}

function drawDatasetName() {
    var alpha = datasetAlpha.current();

    if (alpha > 0) {
        var radius = gRadius * compressedRadii[0] / -2;

        if (alpha > 1) {
            alpha = 1;
        }

        context.globalAlpha = alpha;

        drawBubble(0, -radius, datasetWidths[currentDataset], false, false);
        drawText(datasetNames[currentDataset], 0, radius, 0, 'center', true);
    }
}

function drawHistory() {
    var alpha = 1;
    context.textAlign = 'center';

    for (var i = 0; i < nodeHistoryPosition && alpha > 0; i++) {

        context.globalAlpha = alpha - historyAlphaDelta * tweenFactor;
        context.fillText
        (
            nodeHistory[nodeHistoryPosition - i - 1].name,
            0,
            (i + tweenFactor) * historySpacingFactor * fontSize - 1
        );

        if (alpha > 0) {
            alpha -= historyAlphaDelta;
        }
    }

    context.globalAlpha = 1;
}

function drawLegend() {
    var width = imageHeight * .0265;
    var side = width * 0.9
    var left_buttons = imageWidth * .008;
    var left = left_buttons + side + fontSize;
    var height = imageHeight * .15;
    var top = imageHeight - fontSize * 3.5 - height;
    var textLeft = left + width + fontSize / 2;
    var delta = (height - side) / 3;

    canvasButtons = []  // Delete previous buttons
    var buttonMost = new CanvasButton('mostScore', left_buttons,
        top, side, side, '#c87cca');
    var buttonLest = new CanvasButton('lestScore', left_buttons,
        top + 3 * delta, side, side, '#d38381');
    canvasButtons.push(buttonMost, buttonLest);
    if (nodesIndex !== undefined) {
        var buttonMore = new CanvasButton('moreScore', left_buttons,
            top + delta, side, side, '#81c8d3');
        var buttonLess = new CanvasButton('lessScore', left_buttons,
            top + 2 * delta, side, side, '#96d281');
        canvasButtons.push(buttonMore, buttonLess)
    }
    canvasButtons.forEach(function (element) {
        element.draw(context);
    });
    context.fillStyle = 'black';
    context.textAlign = 'start';
    context.font = fontNormal;
    context.fillText(hueDisplayName, left_buttons, imageHeight - fontSize * 1.5);

    var gradient = context.createLinearGradient(0, top + height, 0, top);

    for (var i = 0; i < hueStopPositions.length; i++) {
        gradient.addColorStop(hueStopPositions[i], hueStopHsl[i]);

        var textY = top + (1 - hueStopPositions[i]) * height;

        if
        (
            i === 0 ||
            i === hueStopPositions.length - 1 ||
            textY > top + fontSize && textY < top + height - fontSize
        ) {
            context.fillText(hueStopText[i], textLeft, textY);
        }
    }

    context.fillStyle = gradient;
    context.fillRect(left, top, width, height);
    context.lineWidth = thinLineWidth;
    context.strokeRect(left, top, width, height);

    // Sample statistics
    if (currentDataset < numRawSamples) {
        var stat = stats[currentDataset];
        // Define aux position variables
        var statsX = textLeft + 2 * width;
        var statsY = top;
        var rad = width;
        context.font = "Bold 11px Ubuntu";
        var statLabelText;
        if (chart === ChartEnum.GENOMIC) {
            context.fillStyle = 'rgba(170, 20, 255, 1)';
            statLabelText = 'Functional sample statistics';
        } else if (stat.is_ctrl) {
            context.fillStyle = 'rgba(50, 50, 200, 1)';
            statLabelText = 'Control statistics';
        } else {
            context.fillStyle = 'rgba(200, 50, 50, 1)';
            statLabelText = 'Sample statistics';
        }
        context.fillText(statLabelText, statsX + width,
            imageHeight - fontSize * 1.5);
        // Get the set of strings
        var oldFont = context.font;
        context.font = "10.5px monospace";  // In case the next line fails
        context.font = "10.5px Oxygen Mono";
        var readTit;
        var nodeTit;
        if (chart === ChartEnum.GENOMIC) {
            readTit = 'Annotations read: '
            nodeTit = 'GOs'
        } else {
            readTit = 'Sequences read: '
            nodeTit = 'TaxIDs'
        }
        var statsStrs = [
            readTit + stat.sread,
            '  those classified: ' + (
                stat.sclas / stat.sread * 100).toPrecision(3) + '%',
            '    those accepted: '
            + (stat.sfilt / stat.sclas * 100).toPrecision(3) + '%',
            'Score average: ' + parseFloat(stat.scavg).toFixed(1),
            '  min: ' + parseFloat(stat.scmin).toFixed(1) +
            '  max: ' + parseFloat(stat.scmax).toFixed(1),
            'Length average: ' + stat.lnavg,
            '  min: ' + stat.lnmin + '  max: ' + stat.lnmax,
            nodeTit + ' by classifier: ' + stat.tclas,
            '  those accepted: ' +
            (stat.tfilt / stat.tclas * 100).toPrecision(3) + '%',
            '    final: '  +
            (stat.tfold / stat.tfilt * 100).toPrecision(3) + '% ['
            + stat.tfold + ']'
        ];
        var maxTextWidth = Math.max.apply(null, statsStrs.map(function (text) {
            return context.measureText(text).width
        }));
        // Draw the rounded rectangle
        context.lineWidth = 3;
        if (chart === ChartEnum.GENOMIC) {
            context.strokeStyle = '#B20DFF';
            context.fillStyle = 'rgba(180, 100, 255, 0.2)';
        } else if (stat.is_ctrl) {
            context.strokeStyle = '#3333CC';
            context.fillStyle = 'rgba(0, 255, 255, 0.2)';
        } else {
            context.strokeStyle = '#CC3333';
            context.fillStyle = 'rgba(255, 255, 0, 0.2)';
        }
        var box = new roundedRectangle(
            statsX, statsY, 1.2 * maxTextWidth, height, {tr: rad, bl: rad});
        context.stroke();
        context.fill();
        context.fillStyle = context.strokeStyle = '#222222';
        // Write the stats inside
        var statsNum = statsStrs.length;
        var statsLeft = statsX + maxTextWidth * 0.1;
        var statsDelta = height / (statsNum + 1);
        for (i = 0; i < statsNum; i++) {
            context.fillText(statsStrs[i],
                statsLeft, top + i * statsDelta + fontSize);
        }
        // Restore font
        context.font = oldFont;
    }
}

function drawLegendSVG() {
    var left = imageWidth * .01;
    var width = imageHeight * .0265;
    var height = imageHeight * .15;
    var top = imageHeight - fontSize * 3.5 - height;
    var textLeft = left + width + fontSize / 2;

    var text = '';

    text += svgText(hueDisplayName, left, imageHeight - fontSize * 1.5);

    var svgtest =
        '<linearGradient id="gradient" x1="0%" y1="100%" x2="0%" y2="0%">';

    for (var i = 0; i < hueStopPositions.length; i++) {
        svgtest +=
            '<stop offset="' + round(hueStopPositions[i] * 100) +
            '%" style="stop-color:' + hueStopHsl[i] + '"/>';

        var textY = top + (1 - hueStopPositions[i]) * height;

        if
        (
            i == 0 ||
            i == hueStopPositions.length - 1 ||
            textY > top + fontSize && textY < top + height - fontSize
        ) {
            text += svgText(hueStopText[i], textLeft, textY);
        }
    }

    svgtest += '</linearGradient>';
    //alert(svgtest);
    svg += svgtest;
    svg +=
        '<rect style="fill:url(#gradient)" x="' + left + '" y="' + top +
        '" width="' + width + '" height="' + height + '"/>';

    svg += text;
}

function drawSearchHighlights(label, bubbleX, bubbleY, rotation, center) {
    var index = -1;
    var labelLength = label.length;

    bubbleX -= fontSize / 4;

    do {
        index = label.toLowerCase().indexOf(search.value.toLowerCase(),
            index + 1);

        if (index != -1 && index < labelLength) {
            var dim = context.measureText(label.substr(0, index));
            var x = bubbleX + dim.width;

            dim = context.measureText(label.substr(index, search.value.length));

            var y = bubbleY - fontSize * 3 / 4;
            var width = dim.width + fontSize / 2;
            var height = fontSize * 3 / 2;
            var radius = fontSize / 2;

            if (snapshotMode) {
                if (center) {
                    x += centerX;
                    y += centerY;
                }

                svg +=
                    '<rect x="' + x + '" y="' + y +
                    '" width="' + width +
                    '" height="' + height +
                    '" rx="' + radius +
                    '" ry="' + radius +
                    '" class="searchHighlight' +
                    '" transform="rotate(' +
                    degrees(rotation) + ',' + centerX + ',' + centerY +
                    ')"/>';
            }
            else {
                context.fillStyle = 'rgb(255, 255, 100)';
                context.rotate(rotation);
                roundedRectangle(x, y, width, height, radius);
                context.fill();
                context.rotate(-rotation);
            }
        }
    }
    while (index != -1 && index < labelLength);
}

function drawText(text, x, y, angle, anchor, bold, color) {
    if (color == undefined) {
        color = 'black';
    }

    if (snapshotMode) {
        svg +=
            '<text x="' + (centerX + x) + '" y="' + (centerY + y) +
            '" text-anchor="' + anchor + '" style="font-color:' + color
            + ';font-weight:' + (bold ? 'bold' : 'normal') +
            '" transform="rotate(' + degrees(angle) + ',' + centerX
            + ',' + centerY + ')">' +
            text + '</text>';
    }
    else {
        context.fillStyle = color;
        context.textAlign = anchor;
        context.font = bold ? fontBold : fontNormal;
        context.rotate(angle);
        context.fillText(text, x, y);
        context.rotate(-angle);
    }
}

function drawTextPolar
(text,
 innerText,
 angle,
 radius,
 radial,
 bubble,
 bold,
 searchResult,
 searchResults) {
    var anchor;
    var textX;
    var textY;
    var spacer;
    var totalText = text;
    var flip;

    if (snapshotMode) {
        spacer = '&#160;&#160;&#160;';
    }
    else {
        spacer = '   ';
    }

    if (radial) {
        flip = angle < 3 * Math.PI / 2;

        if (flip) {
            angle -= Math.PI;
            radius = -radius;
            anchor = 'end';

            if (innerText) {
                totalText = text + spacer + innerText;
            }
        }
        else {
            anchor = 'start';

            if (innerText) {
                totalText = innerText + spacer + text;
            }
        }

        textX = radius;
        textY = 0;
    }
    else {
        flip = angle < Math.PI || angle > 2 * Math.PI;
        var label;

        anchor = snapshotMode ? 'middle' : 'center';

        if (flip) {
            angle -= Math.PI;
            radius = -radius;
        }

        angle += Math.PI / 2;
        textX = 0;
        textY = -radius;
    }

    if (bubble) {
        var textActual = totalText;

        if (innerText && snapshotMode) {
            if (flip) {
                textActual = text + '   ' + innerText;
            }
            else {
                textActual = innerText + '   ' + text;
            }
        }

        if (searchResults) {
            textActual = textActual + searchResultString(searchResults);
        }

        var textWidth = measureText(textActual, bold);

        var x = textX;

        if (anchor == 'end') {
            x -= textWidth;
        }
        else if (anchor != 'start') {
            // centered
            x -= textWidth / 2;
        }

        drawBubble(angle, radius, textWidth, radial, flip);

        if (searchResult) {
            drawSearchHighlights
            (
                textActual,
                x,
                textY,
                angle,
                true
            )
        }
    }

    if (searchResults) {
        totalText = totalText + searchResultString(searchResults);
    }

    drawText(totalText, textX, textY, angle, anchor, bold);

    return flip;
}

function drawTick(start, length, angle) {
    if (snapshotMode) {
        svg +=
            '<line x1="' + (centerX + start) +
            '" y1="' + centerY +
            '" x2="' + (centerX + start + length) +
            '" y2="' + centerY +
            '" class="tick" transform="rotate(' +
            degrees(angle) + ',' + centerX + ',' + centerY +
            ')"/>';
    }
    else {
        context.rotate(angle);
        context.beginPath();
        context.moveTo(start, 0);
        context.lineTo(start + length, 0);
        context.lineWidth = thinLineWidth * 2;
        context.stroke();
        context.rotate(-angle);
    }
}

function drawWedge
(angleStart,
 angleEnd,
 radiusInner,
 radiusOuter,
 color,
 patternAlpha,
 highlight) {
    if (context.globalAlpha == 0) {
        return;
    }

    if (snapshotMode) {
        if (angleEnd == angleStart + Math.PI * 2) {
            // fudge to prevent overlap, which causes arc ambiguity
            //
            angleEnd -= .1 / gRadius;
        }

        var longArc = angleEnd - angleStart > Math.PI ? 1 : 0;

        var x1 = centerX + radiusInner * Math.cos(angleStart);
        var y1 = centerY + radiusInner * Math.sin(angleStart);

        var x2 = centerX + gRadius * Math.cos(angleStart);
        var y2 = centerY + gRadius * Math.sin(angleStart);

        var x3 = centerX + gRadius * Math.cos(angleEnd);
        var y3 = centerY + gRadius * Math.sin(angleEnd);

        var x4 = centerX + radiusInner * Math.cos(angleEnd);
        var y4 = centerY + radiusInner * Math.sin(angleEnd);

        var dArray =
            [
                " M ", x1, ",", y1,
                " L ", x2, ",", y2,
                " A ", gRadius, ",", gRadius, " 0 ", longArc, ",1 ", x3
                , ",", y3,
                " L ", x4, ",", y4,
                " A ", radiusInner, ",", radiusInner, " 0 ", longArc,
                " 0 ", x1, ",", y1,
                " Z "
            ];

        svg +=
            '<path class="' + (highlight ? 'highlight' : 'wedge')
            + '" fill="' + color +
            '" d="' + dArray.join('') + '"/>';

        if (patternAlpha > 0) {
            svg +=
                '<path class="wedge" fill="url(#hiddenPattern)" d="' +
                dArray.join('') + '"/>';
        }
    }
    else {
        // fudge to prevent seams during animation
        //
        angleEnd += 1 / gRadius;

        context.fillStyle = color;
        context.beginPath();
        context.arc(0, 0, radiusInner, angleStart, angleEnd, false);
        context.arc(0, 0, radiusOuter, angleEnd, angleStart, true);
        context.closePath();
        context.fill();

        if (patternAlpha > 0) {
            context.save();
            context.clip();
            context.globalAlpha = patternAlpha;
            context.fillStyle = hiddenPattern;
            context.fill();
            context.restore();
        }

        if (highlight) {
            context.lineWidth = highlight ? highlightLineWidth : thinLineWidth;
            context.strokeStyle = 'black';
            context.stroke();
        }
    }
}

function expand(node) {
    selectNode(node);
    updateView();
}

function focusLost() {
    mouseX = -1;
    mouseY = -1;
    checkHighlight();
    document.body.style.cursor = 'auto';
}

function fontSizeDecrease() {
    if (fontSize > 1) {
        fontSize--;
        updateViewNeeded = true;
    }
}

function fontSizeIncrease() {
    fontSize++;
    updateViewNeeded = true;
}

function getGetString(name, value, bool) {
    return name + '=' + (bool ? value ? 'true' : 'false' : value);
}

function hideLink() {
    hide(linkText);
    show(linkButton);
}

function show(object) {
    object.style.display = 'inline';
}

function hide(object) {
    object.style.display = 'none';
}

function showLink() {
    var urlHalves = String(document.location).split('?');
    var newGetVariables = new Array();

    newGetVariables.push
    (
        getGetString('dataset', currentDataset, false),
        getGetString('node', selectedNode.id, false),
        getGetString('collapse', collapse, true),
        getGetString('color', useHue(), true),
        getGetString('depth', maxAbsoluteDepth - 1, false),
        getGetString('font', fontSize, false),
        getGetString('key', showKeys, true)
    );

    hide(linkButton);
    show(linkText);
    linkText.value = urlHalves[0] + '?'
        + getVariables.concat(newGetVariables).join('&');
    //linkText.disabled = false;
    linkText.focus();
    linkText.select();
    //linkText.disabled = true;
//	document.location = urlHalves[0] + '?' + getVariables.join('&');
}

function getFirstChild(element) {
    element = element.firstChild;

    if (element && element.nodeType != 1) {
        element = getNextSibling(element);
    }

    return element;
}

function getNextSibling(element) {
    do {
        element = element.nextSibling;
    }
    while (element && element.nodeType != 1);

    return element;
}

function getPercentage(fraction) {
    return round(fraction * 100);
}

function hslText(hue) {
    if (1 || snapshotMode) {
        // Safari doesn't seem to allow hsl() in SVG

        var rgb = hslToRgb(hue, saturation, (lightnessBase + lightnessMax) / 2);

        return rgbText(rgb.r, rgb.g, rgb.b);
    }
    else {
        var hslArray =
            [
                'hsl(',
                Math.floor(hue * 360),
                ',',
                Math.floor(saturation * 100),
                '%,',
                Math.floor((lightnessBase + lightnessMax) * 50),
                '%)'
            ];

        return hslArray.join('');
    }
}

function hslToRgb(h, s, l) {
    var m1, m2;
    var r, g, b;

    if (s == 0) {
        r = g = b = Math.floor((l * 255));
    }
    else {
        if (l <= 0.5) {
            m2 = l * (s + 1);
        }
        else {
            m2 = l + s - l * s;
        }

        m1 = l * 2 - m2;

        r = Math.floor(hueToRgb(m1, m2, h + 1 / 3));
        g = Math.floor(hueToRgb(m1, m2, h));
        b = Math.floor(hueToRgb(m1, m2, h - 1 / 3));
    }

    return {r: r, g: g, b: b};
}

function hueToRgb(m1, m2, hue) {
    var v;

    while (hue < 0) {
        hue += 1;
    }

    while (hue > 1) {
        hue -= 1;
    }

    if (6 * hue < 1)
        v = m1 + (m2 - m1) * hue * 6;
    else if (2 * hue < 1)
        v = m2;
    else if (3 * hue < 2)
        v = m1 + (m2 - m1) * (2 / 3 - hue) * 6;
    else
        v = m1;

    return 255 * v;
}

function interpolateHue(hueStart, hueEnd, valueStart, valueEnd) {
    // since the gradient will be RGB based, we need to add stops to hit all the
    // colors in the hue spectrum

    function selective_round(value){
        // Selective round depending on the hue scale width
        if(valueEnd - valueStart < 10){
            return(value.toFixed(1))
        } else {
            return(round(value))
        }
    }

    hueStopPositions = new Array();
    hueStopHsl = new Array();
    hueStopText = new Array();

    hueStopPositions.push(0);
    hueStopHsl.push(hslText(hueStart));
    hueStopText.push(selective_round(valueStart));

    for
    (
        var i = (hueStart > hueEnd ? 5 / 6 : 1 / 6);
        (hueStart > hueEnd ? i > 0 : i < 1);
        i += (hueStart > hueEnd ? -1 : 1) / 6
    ) {
        if
        (
            hueStart > hueEnd ?
                i > hueEnd && i < hueStart :
                i > hueStart && i < hueEnd
        ) {
            hueStopPositions.push(lerp(i, hueStart, hueEnd, 0, 1));
            hueStopHsl.push(hslText(i));
            hueStopText.push(selective_round(lerp(
                i, hueStart, hueEnd, valueStart, valueEnd)));
        }
    }

    hueStopPositions.push(1);
    hueStopHsl.push(hslText(hueEnd));
    hueStopText.push(selective_round(valueEnd));
}

function keyLineAngle(angle, keyAngle, bendRadius, keyX, keyY, pointsX,
                      pointsY) {
    if (angle < Math.PI / 2 && keyY < bendRadius * Math.sin(angle)
        || angle > Math.PI / 2 && keyY < bendRadius) {
        return Math.asin(keyY / bendRadius);
    }
    else {
        // find the angle of the normal to a tangent line that goes to
        // the label

        var textDist = Math.sqrt
        (
            Math.pow(keyX, 2) +
            Math.pow(keyY, 2)
        );

        var tanAngle = Math.acos(bendRadius / textDist) + keyAngle;

        if (angle < tanAngle || angle < Math.PI / 2)//|| labelLeft < centerX )
        {
            // angle doesn't reach far enough for tangent; collapse and
            // connect directly to label

            if (keyY / Math.tan(angle) > 0) {
                pointsX.push(keyY / Math.tan(angle));
                pointsY.push(keyY);
            }
            else {
                pointsX.push(bendRadius * Math.cos(angle));
                pointsY.push(bendRadius * Math.sin(angle));
            }

            return angle;
        }
        else {
            return tanAngle;
        }
    }
}

function keyOffset() {
    return imageHeight - (keys - currentKey + 1) * (keySize + keyBuffer) +
        keyBuffer - margin;
}

function lerp(value, fromStart, fromEnd, toStart, toEnd) {
    // Rescale value from source scale [fromStart, fromEnd]
    //  to target scale [toStart, toEnd]
    return (value - fromStart) *
        (toEnd - toStart) /
        (fromEnd - fromStart) +
        toStart;
}

function createCanvas() {
    canvas = document.createElement('canvas');
    document.body.appendChild(canvas);
    context = canvas.getContext('2d');
}

function load() {
    document.body.style.overflow = "hidden";
    document.body.style.margin = 0;
    document.body.style.backgroundColor = '#' + bkgBright;
    createCanvas();

    if (context == undefined) {
        document.body.innerHTML = '\
<br/>Recentrifuge: Sorry, this browser does not support HTML5 (please see \
<a href="https://github.com/khyox/recentrifuge/wiki/Browser-support">Browser support</a>).\
	';
        return;
    }

    if (typeof context.fillText != 'function') {
        document.body.innerHTML = '\
<br/>Recentrifuge: Sorry, this browser does not support HTML5 canvas text (please see \
<a href="https://github.com/khyox/recentrifuge/wiki/Browser-support">Browser support</a>).\
	';
        return;
    }

    resize();

    var kronaElement = document.getElementsByTagName('krona')[0];

    var magnitudeName;
    var hueName;
    var hueDefault;
    var hueStart;
    var hueEnd;
    var valueStart;
    var valueEnd;

    if (kronaElement.getAttribute('collapse') !== undefined) {
        collapse = kronaElement.getAttribute('collapse') === 'true';
    }

    if (kronaElement.getAttribute('key') !== undefined) {
        showKeys = kronaElement.getAttribute('key') === 'true';
    }

    if (kronaElement.getAttribute('chart') !== undefined) {
         switch (kronaElement.getAttribute('chart')) {
             case 'TAXOMIC':
                 chart = ChartEnum.TAXOMIC;
                 fontFamily = 'Ubuntu'
                 fontSize = 11
                 break;
             case 'GENOMIC':
                 chart = ChartEnum.GENOMIC;
                 fontFamily = 'Saira Condensed'
                 fontSize = 12
                 break;
         }
    }

    for
    (
        var element = getFirstChild(kronaElement);
        element;
        element = getNextSibling(element)
    ) {
        switch (element.tagName.toLowerCase()) {
            case 'attributes':
                magnitudeName = element.getAttribute('magnitude');
                //
                for
                (
                    var attributeElement = getFirstChild(element);
                    attributeElement;
                    attributeElement = getNextSibling(attributeElement)
                ) {
                    var tag = attributeElement.tagName.toLowerCase();

                    if (tag == 'attribute') {
                        var attribute = new Attribute();
                        attribute.name =
                            attributeElement.firstChild.nodeValue.toLowerCase();
                        attribute.displayName =
                            attributeElement.getAttribute('display');

                        if (attributeElement.getAttribute('tip')) {
                            attribute.tip =
                                attributeElement.getAttribute('tip');
                        }

                        if (attributeElement.getAttribute('hrefBase')) {
                            attribute.hrefBase =
                                attributeElement.getAttribute('hrefBase');
                        }

                        if (attributeElement.getAttribute('target')) {
                            attribute.target =
                                attributeElement.getAttribute('target');
                        }

                        if (attribute.name === magnitudeName) {
                            magnitudeIndex = attributes.length;
                        }

                        if (attributeElement.getAttribute('listAll')) {
                            attribute.listAll =
                                attributeElement.getAttribute('listAll').toLowerCase();
                        }
                        else if (attributeElement.getAttribute('listNode')) {
                            attribute.listNode =
                                attributeElement.getAttribute('listNode').toLowerCase();
                        }
                        else if (attributeElement.getAttribute('dataAll')) {
                            attribute.dataAll =
                                attributeElement.getAttribute('dataAll').toLowerCase();
                        }
                        else if (attributeElement.getAttribute('dataNode')) {
                            attribute.dataNode =
                                attributeElement.getAttribute('dataNode').toLowerCase();
                        }

                        if (attributeElement.getAttribute('postUrl')) {
                            attribute.postUrl =
                                attributeElement.getAttribute('postUrl');
                        }

                        if (attributeElement.getAttribute('postVar')) {
                            attribute.postVar =
                                attributeElement.getAttribute('postVar');
                        }

                        if (attributeElement.getAttribute('mono')) {
                            attribute.mono = true;
                        }

                        attributes.push(attribute);
                    }
                    else if (tag == 'list') {
                        var attribute = new Attribute();

                        attribute.name = attributeElement.firstChild.nodeValue;
                        attribute.list = true;
                        attributes.push(attribute);
                    }
                    else if (tag == 'data') {
                        var attribute = new Attribute();

                        attribute.name = attributeElement.firstChild.nodeValue;
                        attribute.data = true;
                        attributes.push(attribute);

                        var enableScript = document.createElement('script');
                        var date = new Date();
                        enableScript.src =
                            attributeElement.getAttribute('enable') + '?' +
                            date.getTime();
                        document.body.appendChild(enableScript);
                    }
                }
                break;

            case 'color':
                hueName = element.getAttribute('attribute');
                hueStart = Number(element.getAttribute('hueStart')) / 360;
                hueEnd = Number(element.getAttribute('hueEnd')) / 360;
                valueStart = Number(element.getAttribute('valueStart'));
                valueEnd = Number(element.getAttribute('valueEnd'));
                //
                interpolateHue(hueStart, hueEnd, valueStart, valueEnd);
                //
                if (element.getAttribute('default') == 'true') {
                    hueDefault = true;
                }
                break;

            case 'datasets':
                datasetNames = [];
                stats = [];
                numRawSamples = element.getAttribute('rawSamples');
                var i = 0;
                for (var j = getFirstChild(element); j; j = getNextSibling(j)) {
                    var datasetName = j.firstChild.nodeValue;
                    datasetNames.push(datasetName);
                    if (i < numRawSamples) {  // Get stats of raw samples
                        var stat = new SampleStats(
                            datasetName,
                            j.getAttribute('isctr'),
                            j.getAttribute('sread'),
                            j.getAttribute('sclas'),
                            j.getAttribute('sfilt'),
                            j.getAttribute('scmin'),
                            j.getAttribute('scavg'),
                            j.getAttribute('scmax'),
                            j.getAttribute('lnmin'),
                            j.getAttribute('lnavg'),
                            j.getAttribute('lnmax'),
                            j.getAttribute('tclas'),
                            j.getAttribute('tfilt'),
                            j.getAttribute('tfold')
                        );
                        stats.push(stat)
                    }
                }
                datasets = datasetNames.length;
                break;

            case 'n':
            case 'node':
                head = loadTreeDOM
                (
                    element,
                    magnitudeName,
                    hueName,
                    hueStart,
                    hueEnd,
                    valueStart,
                    valueEnd
                );
                break;
        }
    }

    // get GET options
    //
    var urlHalves = String(document.location).split('?');
    var datasetDefault = 0;
    var maxDepthDefault;
    var nodeDefault = 0;
    //
    if (urlHalves[1]) {
        var vars = urlHalves[1].split('&');

        for (i = 0; i < vars.length; i++) {
            var pair = vars[i].split('=');

            switch (pair[0]) {
                case 'collapse':
                    collapse = pair[1] == 'true';
                    break;

                case 'color':
                    hueDefault = pair[1] == 'true';
                    break;

                case 'dataset':
                    datasetDefault = Number(pair[1]);
                    break;

                case 'depth':
                    maxDepthDefault = Number(pair[1]) + 1;
                    break;

                case 'key':
                    showKeys = pair[1] == 'true';
                    break;

                case 'font':
                    fontSize = Number(pair[1]);
                    break;

                case 'n':
                case 'node':
                    nodeDefault = Number(pair[1]);
                    break;

                default:
                    getVariables.push(pair[0] + '=' + pair[1]);
                    break;
            }
        }
    }

    addOptionElements(hueName, hueDefault);
    if (datasets > 1) {
        if (datasets > numRawSamples) {  // Check for cross-analysis samples
            selectRank(DEFAULT_RANK);
        } else {
            selectRank(NO_RANK);
        }
    }
    setCallBacks();

    head.sort();
    maxAbsoluteDepth = 0;
    selectDataset(datasetDefault);

    if (maxDepthDefault && maxDepthDefault < head.maxDepth) {
        maxAbsoluteDepth = maxDepthDefault;
    }
    else {
        maxAbsoluteDepth = head.maxDepth;
    }

    selectNode(nodes[nodeDefault]);

    setInterval(update, 20);

    window.onresize = handleResize;
    updateMaxAbsoluteDepth();
    updateViewNeeded = true;
}

function loadTreeDOM
(domNode,
 magnitudeName,
 hueName,
 hueStart,
 hueEnd,
 valueStart,
 valueEnd) {
    var newNode = new Node();

    newNode.name = domNode.getAttribute('name');

    if (domNode.getAttribute('href')) {
        newNode.href = domNode.getAttribute('href');
    }
    else {
        newNode.href = 'https://www.google.com/search?q=' + newNode.name
    }

    if (hueName) {
        newNode.hues = new Array();
    }

    for (var i = getFirstChild(domNode); i; i = getNextSibling(i)) {
        switch (i.tagName.toLowerCase()) {
            case 'n':
            case 'node':
                var newChild = loadTreeDOM
                (
                    i,
                    magnitudeName,
                    hueName,
                    hueStart,
                    hueEnd,
                    valueStart,
                    valueEnd
                );
                newChild.parent = newNode;
                newNode.children.push(newChild);
                break;

            default:
                var attributeName = i.tagName.toLowerCase();
                var index = attributeIndex(attributeName);
                //
                newNode.attributes[index] = new Array();
                //
                for (var j = getFirstChild(i); j; j = getNextSibling(j)) {
                    if (attributes[index] == undefined) {
                        var x = 5;
                    }
                    if (attributes[index].list) {
                        newNode.attributes[index].push(new Array());

                        for (var k = getFirstChild(j); k; k = getNextSibling(k)) {
                            newNode.attributes[index][
                            newNode.attributes[
                                index].length - 1].push(
                                k.firstChild.nodeValue);
                        }
                    }
                    else {
                        var value = j.firstChild ? j.firstChild.nodeValue : '';

                        if (j.getAttribute('href')) {
                            var target;

                            if (attributes[index].target) {
                                target = ' target="'
                                    + attributes[index].target + '"';
                            }

                            value = '<a href="' + attributes[index].hrefBase
                                + j.getAttribute('href') + '"'
                                + target + '>' + value + '</a>';
                        }

                        newNode.attributes[index].push(value);
                    }
                }
                //
                if (attributeName == magnitudeName
                    || attributeName == hueName) {
                    for (j = 0; j < datasets; j++) {
                        // j is the dataset index (goes from 0 to datasets-1)
                        var value = newNode.attributes[index][j]
                        == undefined ? 0 : Number(newNode.attributes[index][j]);

                        newNode.attributes[index][j] = value;

                        if (attributeName == hueName) {
                            var hue = lerp
                            (
                                value,
                                valueStart,
                                valueEnd,
                                hueStart,
                                hueEnd
                            );

                            if (hue < hueStart == hueStart < hueEnd) {
                                hue = hueStart;
                            }
                            else if (hue > hueEnd == hueStart < hueEnd) {
                                hue = hueEnd;
                            }

                            newNode.hues[j] = hue;
                        }
                    }

                    if (attributeName == hueName) {
                        newNode.hue = new Tween(newNode.hues[0],
                            newNode.hues[0]);
                    }
                }
                break;
        }
    }

    return newNode;
}

function maxAbsoluteDepthDecrease() {
    if (maxAbsoluteDepth > 2) {
        maxAbsoluteDepth--;
        head.setMaxDepths();
        handleResize();
    }
}

function maxAbsoluteDepthIncrease() {
    if (maxAbsoluteDepth < head.maxDepth) {
        maxAbsoluteDepth++;
        head.setMaxDepths();
        handleResize();
    }
}

function measureText(text, bold) {
    context.font = bold ? fontBold : fontNormal;
    var dim = context.measureText(text);
    return dim.width;
}

function min(a, b) {
    return a < b ? a : b;
}

function minWidth() {
    // Min wedge width (at center) for displaying a node (or for displaying a
    // label if it's at the highest level being viewed, multiplied by 2 to make
    // further calculations simpler

    return (fontSize * 2.3);
}

function mouseMove(e) {
    mouseX = e.pageX;
    mouseY = e.pageY - headerHeight;
    mouseXRel = (mouseX - centerX) * backingScale()
    mouseYRel = (mouseY - centerY) * backingScale()

    if (head && !quickLook) {
        checkHighlight();
    }
}

function mouseClick(e) {
    // Event listener function for mouse click on CANVAS
    if (highlightedNode == focusNode && focusNode != selectedNode
        || selectedNode.hasParent(highlightedNode)) {
        if (highlightedNode.hasChildren()) {
            expand(highlightedNode);
        }
    }
    else if (progress == 1)//( highlightedNode != selectedNode )
    {
        setFocus(highlightedNode);
//		document.body.style.cursor='ew-resize';
        draw();
        checkHighlight();
        var date = new Date();
        mouseDownTime = date.getTime();
        mouseDown = true;
        var button = undefined;
        for (var i = 0; i < canvasButtons.length; i++) {
            if (canvasButtons[i].is_inside(e.pageX, e.pageY)) {
                context.strokeStyle = '#CC0000';
                context.lineWidth = 2;
                button = canvasButtons[i];
                context.strokeRect(button.x, button.y, button.w, button.h);
            }
        }
        if (button) {
            // Reorder the array of nodes only when needed
            if (nodesIndex === undefined || !nodes.reduce(
                function (acc, current, index) {
                    // Calculate deviation from id == index for every node
                    return acc + Math.abs(current.id - index)
                }, 0)) {
                nodes.sort(function (a, b) {
                    return b.getHue() - a.getHue()
                });
            }

            function lookForLeaf(testIndex, reverse) {
                // Look for nodes without children but with counts
                for (; testIndex >= 0 && testIndex <= nodes.length - 1
                       && !nodes[testIndex].isLeaf();
                       reverse ? testIndex-- : testIndex++) {
                }
                if (testIndex >= 0 && testIndex <= nodes.length - 1
                    && nodes[testIndex].isLeaf()) nodesIndex = testIndex;
            }

            function lookForNode(testIndex, reverse) {
                // Look for nodes with counts
                for (; testIndex >= 0 && testIndex <= nodes.length - 1
                       && nodes[testIndex].getHue() <= 0;
                       reverse ? testIndex-- : testIndex++) {
                }
                if (testIndex >= 0 && testIndex <= nodes.length - 1
                    && nodes[testIndex].getHue() > 0)
                    nodesIndex = testIndex;
            }

            switch (button.name) {
                case 'mostScore':
                    nodesIndex = 0;
                    if (collapseCheckBox.checked) {
                        lookForLeaf(nodesIndex, false);
                    } else {
                        lookForNode(nodesIndex, false);
                    }
                    break;
                case 'moreScore':
                    if (collapseCheckBox.checked) {
                        lookForLeaf(nodesIndex - 1, true);
                    } else {
                        lookForNode(nodesIndex - 1, true);
                    }
                    break;
                case 'lessScore':
                    if (collapseCheckBox.checked) {
                        lookForLeaf(nodesIndex + 1, false);
                    } else {
                        lookForNode(nodesIndex + 1, false);
                    }
                    break;
                case 'lestScore':
                    nodesIndex = nodes.length - 1;
                    if (collapseCheckBox.checked) {
                        lookForLeaf(nodesIndex, true);
                    } else {
                        lookForNode(nodesIndex, true);
                    }
                    break;
                default:
                    alert('ERROR! Unknown button in canvas. Ignoring!')
            }
            search.value = nodes[nodesIndex].name;
            onSearchChange();
            context.strokeStyle = '#CC0000';
            context.lineWidth = 2;
            context.strokeRect(button.x, button.y, button.w, button.h);
            setTimeout(function () {
                drawLegend()
            }, 700)
        }
    }
}

function mouseUp(e) {
    if (quickLook) {
        navigateBack();
        quickLook = false;
    }

    mouseDown = false;
}

function navigateBack() {
    if (nodeHistoryPosition > 0) {
        nodeHistory[nodeHistoryPosition] = selectedNode;
        nodeHistoryPosition--;

        if (nodeHistory[nodeHistoryPosition].collapse) {
            collapseCheckBox.checked = collapse = false;
        }

        setSelectedNode(nodeHistory[nodeHistoryPosition]);
        updateDatasetButtons();
        updateView();
    }
}

function navigateUp() {
    if (selectedNode.getParent()) {
        selectNode(selectedNode.getParent());
        updateView();
    }
}

function navigateForward() {
    if (nodeHistoryPosition < nodeHistory.length - 1) {
        nodeHistoryPosition++;
        var newNode = nodeHistory[nodeHistoryPosition];

        if (newNode.collapse) {
            collapseCheckBox.checked = collapse = false;
        }

        if (nodeHistoryPosition == nodeHistory.length - 1) {
            // this will ensure the forward button is disabled

            nodeHistory.length = nodeHistoryPosition;
        }

        setSelectedNode(newNode);
        updateDatasetButtons();
        updateView();
    }
}

function nextDataset() {
    var newDataset = currentDataset;

    do {
        if (newDataset === datasets - 1) {
            newDataset = 0;
        }
        else {
            newDataset++;
        }
    }
    while (datasetDropDown.options[newDataset].disabled
    || datasetDropDown.options[newDataset].hidden)

    selectDataset(newDataset);
}

function onDatasetChange() {
    selectDataset(datasetDropDown.selectedIndex);
    nodesIndex = undefined;
}

function onKeyDown(event) {
    if
    (
        event.keyCode == 37 &&
        document.activeElement.id != 'search' &&
        document.activeElement.id != 'linkText'
    ) {
        navigateBack();
        event.preventDefault();
    }
    else if
    (
        event.keyCode == 39 &&
        document.activeElement.id != 'search' &&
        document.activeElement.id != 'linkText'
    ) {
        navigateForward();
        event.preventDefault();
    }
    else if (event.keyCode == 38 && datasets > 1) {
        prevDataset();

        //if ( document.activeElement.id == 'datasets' )
        {
            event.preventDefault();
        }
    }
    else if (event.keyCode == 40 && datasets > 1) {
        nextDataset();

        //if ( document.activeElement.id == 'datasets' )
        {
            event.preventDefault();
        }
    }
    else if (event.keyCode == 9 && datasets > 1) {
        selectLastDataset();
        event.preventDefault();
    }
    else if (event.keyCode == 83) {
        progress += .2;
    }
    else if (event.keyCode == 66) {
        progress -= .2;
    }
    else if (event.keyCode == 70) {
        progress = 1;
    }
}

function onKeyPress(event) {
    if (event.keyCode == 38 && datasets > 1) {
//		prevDataset();

        //if ( document.activeElement.id == 'datasets' )
        {
            event.preventDefault();
        }
    }
    else if (event.keyCode == 40 && datasets > 1) {
//		nextDataset();

        //if ( document.activeElement.id == 'datasets' )
        {
            event.preventDefault();
        }
    }
}

function onKeyUp(event) {
    if (event.keyCode == 27 && document.activeElement.id == 'search') {
        search.value = '';
        onSearchChange();
    }
    else if (event.keyCode == 38 && datasets > 1) {
//		prevDataset();

        //if ( document.activeElement.id == 'datasets' )
        {
            event.preventDefault();
        }
    }
    else if (event.keyCode == 40 && datasets > 1) {
//		nextDataset();

        //if ( document.activeElement.id == 'datasets' )
        {
            event.preventDefault();
        }
    }
}

function onRankChange() {
    selectRank(rankDropDown.value);
}

function onSearchChange() {
    nSearchResults = 0;
    head.search();

    if (search.value == '') {
        searchResults.innerHTML = '';
    }
    else {
        searchResults.innerHTML = nSearchResults + ' results';
    }

    setFocus(selectedNode);
    draw();
}

function onSortChange() {
    head.sort();
    head.setMagnitudes(0);
    handleResize();
}

function post(url, variable, value, postWindow) {
    var form = document.createElement('form');
    var input = document.createElement('input');
    var inputDataset = document.createElement('input');

    form.appendChild(input);
    form.appendChild(inputDataset);

    form.method = "POST";
    form.action = url;

    if (postWindow == undefined) {
        form.target = '_blank';
        postWindow = window;
    }

    input.type = 'hidden';
    input.name = variable;
    input.value = value;

    inputDataset.type = 'hidden';
    inputDataset.name = 'dataset';
    inputDataset.value = currentDataset;

    postWindow.document.body.appendChild(form);
    form.submit();
}

function prevDataset() {
    var newDataset = currentDataset;

    do {
        if (newDataset == 0) {
            newDataset = datasets - 1;
        }
        else {
            newDataset--;
        }
    }
    while (datasetDropDown.options[newDataset].disabled
    || datasetDropDown.options[newDataset].hidden);

    selectDataset(newDataset);
}

function radiusDecrease() {
    if (bufferFactor < .309) {
        bufferFactor += .03;
        updateViewNeeded = true;
    }
}

function radiusIncrease() {
    if (bufferFactor > .041) {
        bufferFactor -= .03;
        updateViewNeeded = true;
    }
}

function resetKeyOffset() {
    currentKey = 1;
    keyMinTextLeft = centerX + gRadius + buffer - buffer / (keys + 1) /
        2 + fontSize / 2;
    keyMinAngle = 0;
}

function rgbText(r, g, b) {
    var rgbArray =
        [
            "rgb(",
            Math.floor(r),
            ",",
            Math.floor(g),
            ",",
            Math.floor(b),
            ")"
        ];

    return rgbArray.join('');
}

function round(number) {
    if (number >= 1 || number <= -1) {
        return number.toFixed(0);
    }
    else {
        return number.toPrecision(1);
    }
}

function roundedRectangle(x, y, width, height, radius, fill, stroke) {
    // Optionals: radius, stroke, fill
    if (typeof stroke === 'undefined') {
        stroke = true;
    }
    if (typeof radius === 'undefined') {
        radius = 5;
    } else if (typeof radius === 'number') {
        if (radius * 2 > width) {
            radius = width / 2;
        }
        if (radius * 2 > height) {
            radius = height / 2;
        }
        radius = {tl: radius, tr: radius, br: radius, bl: radius};
    } else {
        var defaultRadius = {tl: 0, tr: 0, br: 0, bl: 0};
        for (var side in defaultRadius) {
            radius[side] = radius[side] || defaultRadius[side];
        }
    }

    context.beginPath();
    context.arc(x + radius.tl, y + radius.tl, radius.tl,
        Math.PI, Math.PI * 3 / 2, false);
    context.lineTo(x + width - radius.tr, y);
    context.arc(x + width - radius.tr, y + radius.tr, radius.tr,
        Math.PI * 3 / 2, Math.PI * 2, false);
    context.lineTo(x + width, y + height - radius.br);
    context.arc(x + width - radius.br, y + height - radius.br, radius.br,
        0, Math.PI / 2, false);
    context.lineTo(x + radius.bl, y + height);
    context.arc(x + radius.bl, y + height - radius.bl, radius.bl,
        Math.PI / 2, Math.PI, false);
    context.lineTo(x, y + radius.tl);

    if (fill) {
        context.fill();
    }
    if (stroke) {
        context.stroke();
    }
}

function passClick(e) {
    mouseClick(e);
}

function searchResultString(results) {
    var searchResults = this.searchResults;

    if (this.isSearchResult) {
        // don't count ourselves
        searchResults--;
    }

    return ' - ' + results + (results > 1 ? ' results' : ' result');
}

function setCallBacks() {
    canvas.onselectstart = function () {
        return false;
    } // prevent unwanted highlighting
    options.onselectstart = function () {
        return false;
    } // prevent unwanted highlighting
    document.onmousemove = mouseMove;
    window.onblur = focusLost;
    window.onmouseout = focusLost;
    document.onkeyup = onKeyUp;
    document.onkeydown = onKeyDown;
    canvas.onmousedown = mouseClick;
    document.onmouseup = mouseUp;
    keyControl.onclick = toggleKeys;
    collapseCheckBox = document.getElementById('collapse');
    collapseCheckBox.checked = collapse;
    collapseCheckBox.onclick = handleResize;
    collapseCheckBox.onmousedown = suppressEvent;
    maxAbsoluteDepthText = document.getElementById('maxAbsoluteDepth');
    maxAbsoluteDepthButtonDecrease =
        document.getElementById('maxAbsoluteDepthDecrease');
    maxAbsoluteDepthButtonIncrease =
        document.getElementById('maxAbsoluteDepthIncrease');
    maxAbsoluteDepthButtonDecrease.onclick = maxAbsoluteDepthDecrease;
    maxAbsoluteDepthButtonIncrease.onclick = maxAbsoluteDepthIncrease;
    maxAbsoluteDepthButtonDecrease.onmousedown = suppressEvent;
    maxAbsoluteDepthButtonIncrease.onmousedown = suppressEvent;
    fontSizeText = document.getElementById('fontSize');
    fontSizeButtonDecrease = document.getElementById('fontSizeDecrease');
    fontSizeButtonIncrease = document.getElementById('fontSizeIncrease');
    fontSizeButtonDecrease.onclick = fontSizeDecrease;
    fontSizeButtonIncrease.onclick = fontSizeIncrease;
    fontSizeButtonDecrease.onmousedown = suppressEvent;
    fontSizeButtonIncrease.onmousedown = suppressEvent;
    bkgBrightButtonDecrease = document.getElementById('bkgBrightDecrease');
    bkgBrightButtonIncrease = document.getElementById('bkgBrightIncrease');
    bkgBrightButtonDecrease.onclick = bkgBrightDecrease;
    bkgBrightButtonIncrease.onclick = bkgBrightIncrease;
    bkgBrightButtonDecrease.onmousedown = suppressEvent;
    bkgBrightButtonIncrease.onmousedown = suppressEvent;
    radiusButtonDecrease = document.getElementById('radiusDecrease');
    radiusButtonIncrease = document.getElementById('radiusIncrease');
    radiusButtonDecrease.onclick = radiusDecrease;
    radiusButtonIncrease.onclick = radiusIncrease;
    radiusButtonDecrease.onmousedown = suppressEvent;
    radiusButtonIncrease.onmousedown = suppressEvent;
    maxAbsoluteDepth = 0;
    backButton = document.getElementById('back');
    backButton.onclick = navigateBack;
    backButton.onmousedown = suppressEvent;
    forwardButton = document.getElementById('forward');
    forwardButton.onclick = navigateForward;
    forwardButton.onmousedown = suppressEvent;
    snapshotButton = document.getElementById('snapshot');
    snapshotButton.onclick = snapshot;
    snapshotButton.onmousedown = suppressEvent;
    detailsName = document.getElementById('detailsName');
    detailsExpand = document.getElementById('detailsExpand');
    detailsInfo = document.getElementById('detailsInfo');
    search = document.getElementById('search');
    search.onkeyup = onSearchChange;
    search.onmousedown = suppressEvent;
    searchResults = document.getElementById('searchResults');
    useHueDiv = document.getElementById('useHueDiv');
    linkButton = document.getElementById('linkButton');
    linkButton.onclick = showLink;
    linkButton.onmousedown = suppressEvent;
    linkText = document.getElementById('linkText');
    linkText.onblur = hideLink;
    linkText.onmousedown = suppressEvent;
    hide(linkText);
    var helpButton = document.getElementById('help');
    helpButton.onmousedown = suppressEvent;
    var searchClear = document.getElementById('searchClear');
    searchClear.onmousedown = suppressEvent;
    if (datasets > 1) {
        datasetDropDown.onmousedown = suppressEvent;
        var prevDatasetButton = document.getElementById('prevDataset');
        prevDatasetButton.onmousedown = suppressEvent;
        var nextDatasetButton = document.getElementById('nextDataset');
        nextDatasetButton.onmousedown = suppressEvent;
        var lastDatasetButton = document.getElementById('lastDataset');
        lastDatasetButton.onmousedown = suppressEvent;
    }

    image = document.getElementById('hiddenImage');

    if (image.complete) {
        hiddenPattern = context.createPattern(image, 'repeat');
    }
    else {
        image.onload = function () {
            hiddenPattern = context.createPattern(image, 'repeat');
        }
    }

    var loadingImageElement = document.getElementById('loadingImage');

    if (loadingImageElement) {
        loadingImage = loadingImageElement.src;
    }
}

function selectDataset(newDataset) {
    lastDataset = currentDataset;
    currentDataset = newDataset
    if (datasets > 1) {
        datasetDropDown.selectedIndex = currentDataset;
        updateDatasetButtons();
        datasetAlpha.start = 1.5;
        datasetChanged = true;
    }
    head.setMagnitudes(0);
    head.setDepth(1, 1);
    head.setMaxDepths();
    handleResize();
}

function selectLastDataset() {
    selectDataset(lastDataset);
}

function selectNode(newNode) {
    if (selectedNode != newNode) {
        // truncate history at current location to create a new branch
        //
        nodeHistory.length = nodeHistoryPosition;

        if (selectedNode != 0) {
            nodeHistory.push(selectedNode);
            nodeHistoryPosition++;
        }

        setSelectedNode(newNode);
        //updateView();
    }

    updateDatasetButtons();
}

function selectRank(rank) {
    rankDropDown.value = rank;
    currentRank = rank;
    datasetsVisible = 0;
    for (var i = 0; i < datasets; i++) {
        if (currentRank === 'ALL'
            || i < numRawSamples
            || (currentRank !== NO_RANK && (
                datasetNames[i].endsWith('EXCLUSIVE_' + currentRank) ||
                datasetNames[i].endsWith('SHARED_' + currentRank) ||
                datasetNames[i].endsWith('CONTROL_SHARED' + currentRank) ||
                datasetNames[i].endsWith('CTRL_' + currentRank)))) {
            datasetDropDown.options[i].hidden = false;
            datasetsVisible++;
        } else {
            datasetDropDown.options[i].hidden = true;
        }
    }
    if (datasetDropDown.options[currentDataset].hidden === true) {
        selectDataset(0);
    } else {
        selectDataset(currentDataset);
    }
    datasetDropDown.size = (datasetsVisible < DATASET_MAX_SIZE ?
        datasetsVisible : DATASET_MAX_SIZE);
}

function setFocus(node) {
    if (node == focusNode) {
//		return;
    }

    focusNode = node;

    if (node.href) {
        detailsName.innerHTML =
            '<a target="_blank" href="' + node.href + '">' + node.name + '</a>';
    }
    else {
        detailsName.innerHTML = node.name;
    }

    var table = '<table>';

    table += '<tr><td></td></tr>';

    for (var i = 0; i < node.attributes.length; i++) {
        if (attributes[i].displayName && node.attributes[i] != undefined) {
            var index = node.attributes[i].length == 1
            && attributes[i].mono ? 0 : currentDataset;

            if (typeof node.attributes[i][currentDataset] == 'number'
                || node.attributes[i][index] != undefined
                && node.attributes[i][currentDataset] != '') {
                var value = node.attributes[i][index];

                if (attributes[i].listNode != undefined) {
                    value =
                        '<a href="" onclick="showList(' +
                        attributeIndex(attributes[i].listNode) + ',' + i +
                        ',false);return false;" title="Show list">' +
                        value + '</a>';
                }
                else if (attributes[i].listAll != undefined) {
                    value =
                        '<a href="" onclick="showList(' +
                        attributeIndex(attributes[i].listAll) + ',' + i +
                        ',true);return false;" title="Show list">' +
                        value + '</a>';
                }
                else if (attributes[i].dataNode != undefined && dataEnabled) {
                    value =
                        '<a href="" onclick="showData(' +
                        attributeIndex(attributes[i].dataNode) + ',' + i +
                        ',false);return false;" title="Show data">' +
                        value + '</a>';
                }
                else if (attributes[i].dataAll != undefined && dataEnabled) {
                    value =
                        '<a href="" onclick="showData(' +
                        attributeIndex(attributes[i].dataAll) + ',' + i +
                        ',true);return false;" title="Show data">' +
                        value + '</a>';
                }

                table +=
                    '<tr><td class="CellWithTooltip">' +
                    '<strong>' + attributes[i].displayName + ':</strong>' +
                    '<span class="Tooltip">' +
                    attributes[i].tip + '</span>' +
                    '</td><td>' + value + '</td></tr>';
            }
        }
    }

    table += '</table>';
    detailsInfo.innerHTML = table;

    detailsExpand.disabled = !focusNode.hasChildren()
        || focusNode == selectedNode;
}

function setSelectedNode(newNode) {
    if (selectedNode && selectedNode.hasParent(newNode)) {
        zoomOut = true;
    }
    else {
        zoomOut = false;
    }

    selectedNodeLast = selectedNode;
    selectedNode = newNode;

    //if ( focusNode != selectedNode )
    {
        setFocus(selectedNode);
    }
}

function waitForData(dataWindow, target, title, time, postUrl, postVar) {
    if (nodeData.length == target) {
        if (postUrl != undefined) {
            for (var i = 0; i < nodeData.length; i++) {
                nodeData[i] = nodeData[i].replace(/\n/g, ',');
            }

            var postString = nodeData.join('');
            postString = postString.slice(0, -1);

            dataWindow.document.body.removeChild(dataWindow.document.getElementById('loading'));
            document.body.removeChild(document.getElementById('data'));

            post(postUrl, postVar, postString, dataWindow);
        }
        else {
            //dataWindow.document.body.removeChild(dataWindow.document.getElementById('loading'));
            //document.body.removeChild(document.getElementById('data'));

            dataWindow.document.open();
            dataWindow.document.write('<pre>' + nodeData.join('') + '</pre>');
            dataWindow.document.close();
        }

        dataWindow.document.title = title; // replace after document.write()
    }
    else {
        var date = new Date();

        if (date.getTime() - time > 10000) {
            dataWindow.document.body.removeChild(dataWindow.document.getElementById('loading'));
            document.body.removeChild(document.getElementById('data'));
            dataWindow.document.body.innerHTML =
                'Timed out loading supplemental files for:<br/>' + document.location;
        }
        else {
            setTimeout(function () {
                waitForData(dataWindow, target, title, time, postUrl, postVar);
            }, 100);
        }
    }
}

function data(newData) {
    nodeData.push(newData);
}

function enableData() {
    dataEnabled = true;
}

function showData(indexData, indexAttribute, summary) {
    var dataWindow = window.open('', '_blank');
    var title = 'Re@ - ' + attributes[indexAttribute].displayName
        + ' - ' + focusNode.name;
    dataWindow.document.title = title;

    nodeData = new Array();

    if (dataWindow && dataWindow.document && dataWindow.document.body != null) {
        //var loadImage = document.createElement('img');
        //loadImage.src = "file://localhost/Users/ondovb/Krona/KronaTools/img/loading.gif";
        //loadImage.id = "loading";
        //loadImage.alt = "Loading...";
        //dataWindow.document.body.appendChild(loadImage);
        dataWindow.document.body.innerHTML =
            '<img id="loading" src="' + loadingImage + '" alt="Loading..."></img>';
    }

    var scripts = document.createElement('div');
    scripts.id = 'data';
    document.body.appendChild(scripts);

    var files = focusNode.getData(indexData, summary);

    var date = new Date();
    var time = date.getTime();

    for (var i = 0; i < files.length; i++) {
        var script = document.createElement('script');
        script.src = files[i] + '?' + time;
        scripts.appendChild(script);
    }

    waitForData(dataWindow, files.length, title, time,
        attributes[indexAttribute].postUrl, attributes[indexAttribute].postVar);

    return false;
}

function showList(indexList, indexAttribute, summary) {
    var list = focusNode.getList(indexList, summary);

    if (attributes[indexAttribute].postUrl != undefined) {
        post(attributes[indexAttribute].postUrl,
            attributes[indexAttribute].postVar, list.join(','));
    }
    else {
        var dataWindow = window.open('', '_blank');

        if (true || navigator.appName == 'Microsoft Internet Explorer') // :(
        {
            dataWindow.document.open();
            dataWindow.document.write('<pre>' + list.join('\n') + '</pre>');
            dataWindow.document.close();
        }
        else {
            var pre = document.createElement('pre');
            dataWindow.document.body.appendChild(pre);
            pre.innerHTML = list;
        }

        dataWindow.document.title = 'Re@ - ' +
            attributes[indexAttribute].displayName + ' - ' + focusNode.name;
    }
}

function snapshot() {
    svg = svgHeader();

    resetKeyOffset();

    snapshotMode = true;

    selectedNode.draw(false, true);
    selectedNode.draw(true, true);

    if (focusNode != 0 && focusNode != selectedNode) {
        context.globalAlpha = 1;
        focusNode.drawHighlight(true);
    }

    if (hueDisplayName && useHue()) {
        drawLegendSVG();
    }

    snapshotMode = false;

    svg += svgFooter();

   	var snapshotWindow = window.open('', '_blank', '', 'replace=false');
	snapshotWindow.document.write('<html><body>' +
        '<button title="Download Rec@ntrifuge snapshot as SVG file" ' +
        'onclick="document.getElementById(\'link\').click()">' +
        'Download</button><a id="link" href="data:image/svg+xml,' +
        encodeURIComponent(svg) + '" download="Recfg_snapshot.svg" hidden>' +
        'Download</a><br></html></body>');
    snapshotWindow.document.title = 'Re@ [snapshot] ' +
       location.href.split("/").slice(-1)[0].split(".html")[0];
	snapshotWindow.document.write(svg);
}

function save() {
    alert(document.body.innerHTML);
}

function spacer() {
    if (snapshotMode) {
        return '&#160;&#160;&#160;';
    }
    else {
        return '   ';
    }
}

function suppressEvent(e) {
    e.cancelBubble = true;
    if (e.stopPropagation) e.stopPropagation();
}

function svgFooter() {
    return '</svg>';
}

function svgHeader() {
    var patternWidth = fontSize * .6;//radius / 50;

    return '\
<?xml version="1.0" standalone="no"?>\
<!DOCTYPE svg PUBLIC "-//W3C//DTD SVG 1.1//EN" \
	"http://www.w3.org/Graphics/SVG/1.1/DTD/svg11.dtd">\
<svg width="' + imageWidth + '" height="' + imageHeight + '" version="1.1"\
	xmlns="http://www.w3.org/2000/svg">\
<title>Rec@ntrifuge (snapshot) - ' +
        (datasets > 1 ? datasetNames[currentDataset] + ' - ' : '')
        + selectedNode.name +
        '</title>\
<defs>\
	<style type="text/css">\
	@import url("https://fonts.googleapis.com/css?family=' + fontFamily + '");\
	text {font-size: ' + fontSize + 'px; font-family: ' + fontFamily
        + '; dominant-baseline:central}\
	path {stroke-width:' + thinLineWidth * fontSize / 12 + ';}\
	path.wedge {stroke:none}\
	path.line {fill:none;stroke:black;}\
	line {stroke:black;stroke-width:' + thinLineWidth * fontSize / 12 + ';}\
	line.tick {stroke-width:' + thinLineWidth * fontSize / 6 + ';}\
	line.pattern {stroke-width:' + thinLineWidth * fontSize / 18 + ';}\
	circle {fill:none;stroke:black;stroke-width:' + thinLineWidth
        * fontSize / 12 + ';}\
	rect {stroke:black;stroke-width:' + thinLineWidth * fontSize / 12 + ';}\
	.highlight {stroke:black;stroke-width:' + highlightLineWidth
        * fontSize / 12 + ';}\
	.searchHighlight {fill:rgb(255, 255, 100);stroke:none;}\
	</style>\
<pattern id="hiddenPattern" patternUnits="userSpaceOnUse" \
x="0" y="0" width="' + patternWidth + '" height="' + patternWidth + '">\
<line class="pattern" x1="0" y1="0" x2="' + patternWidth / 2 + '" y2="'
        + patternWidth / 2 + '"/>\
<line class="pattern" x1="' + patternWidth / 2 + '" y1="' + patternWidth +
        '" x2="' + patternWidth + '" y2="' + patternWidth / 2 + '"/>\
</pattern>\
</defs>\
';
}

function svgText(text, x, y, anchor, bold, color) {
    if (typeof(anchor) == 'undefined') {
        anchor = 'start';
    }

    if (color == undefined) {
        color = 'black';
    }

    return '<text x="' + x + '" y="' + y +
        '" style="font-color:' + color + ';font-weight:'
        + (bold ? 'bold' : 'normal') +
        '" text-anchor="' + anchor + '">' + text + '</text>';
}

function toggleKeys() {
    if (showKeys) {
        keyControl.value = '…';
        showKeys = false;
    }
    else {
        keyControl.value = 'x';
        showKeys = true;
    }

    updateKeyControl();

    if (progress == 1) {
        draw();
    }
}

function update() {
    if (!head) {
        return;
    }

    if (mouseDown && focusNode != selectedNode) {
        var date = new Date();

        if (date.getTime() - mouseDownTime > quickLookHoldLength) {
            if (focusNode.hasChildren()) {
                expand(focusNode);
                quickLook = true;
            }
        }
    }

    if (updateViewNeeded) {
        resize();
        mouseX = -1;
        mouseY = -1;

        collapse = collapseCheckBox.checked;
        compress = true;//compressCheckBox.checked;
        shorten = true;//shortenCheckBox.checked;

        checkSelectedCollapse();
        updateMaxAbsoluteDepth();

        if (focusNode.getCollapse() || focusNode.depth > maxAbsoluteDepth) {
            setFocus(selectedNode);
        }
        else {
            setFocus(focusNode);
        }

        updateView();

        updateViewNeeded = false;
    }

    var date = new Date();
    progress = (date.getTime() - tweenStartTime) / tweenLength;
//	progress += .01;

    if (progress >= 1) {
        progress = 1;
    }

    if (progress != progressLast) {
        tweenFactor =// progress;
            (1 / (1 + Math.exp(-tweenCurvature * (progress - .5))) - .5) /
            (tweenMax - .5) / 2 + .5;

        if (progress == 1) {
            snapshotButton.disabled = false;
            zoomOut = false;

            //updateKeyControl();

            if (!quickLook) {
                //checkHighlight();
            }


            if (fpsDisplay) {
                fpsDisplay.innerHTML = 'fps: '
                    + Math.round(tweenFrames * 1000 / tweenLength);
            }
        }

        draw();
    }

    progressLast = progress;
}

function updateDatasetButtons() {
    if (datasets == 1) {
        return;
    }

    var node = selectedNode ? selectedNode : head;

    datasetButtonLast.disabled =
        node.attributes[magnitudeIndex][lastDataset] == 0;

    datasetButtonPrev.disabled = true;
    datasetButtonNext.disabled = true;

    for (var i = 0; i < datasets; i++) {
        var disable = node.attributes[magnitudeIndex][i] == 0;

        datasetDropDown.options[i].disabled = disable;

        if (!disable) {
            if (i != currentDataset) {
                datasetButtonPrev.disabled = false;
                datasetButtonNext.disabled = false;
            }
        }
    }
}

function updateDatasetWidths() {
    if (datasets > 1) {
        for (var i = 0; i < datasets; i++) {
            context.font = fontBold;
            var dim = context.measureText(datasetNames[i]);
            datasetWidths[i] = dim.width;
        }
    }
}

function updateKeyControl() {
    if (keys == 0)//|| progress != 1 )
    {
        keyControl.style.visibility = 'hidden';
    }
    else {
        keyControl.style.visibility = 'visible';
        keyControl.style.right = margin + 'px';

        if (showKeys) {
            keyControl.style.top =
                imageHeight -
                (
                    keys * (keySize + keyBuffer) -
                    keyBuffer +
                    margin +
                    keyControl.clientHeight * 1.5
                ) + 'px';
        }
        else {
            keyControl.style.top =
                (imageHeight - margin - keyControl.clientHeight) + 'px';
        }
    }
}

function updateView() {
    if (selectedNode.depth > maxAbsoluteDepth - 1) {
        maxAbsoluteDepth = selectedNode.depth + 1;
    }

    highlightedNode = selectedNode;

    angleFactor = 2 * Math.PI / (selectedNode.magnitude);

    maxPossibleDepth = Math.floor(gRadius / (fontSize * minRingWidthFactor));

    if (maxPossibleDepth < 4) {
        maxPossibleDepth = 4;
    }

    var minRadiusInner = fontSize * 8 / gRadius;
    var minRadiusFirst = fontSize * 6 / gRadius;
    var minRadiusOuter = fontSize * 5 / gRadius;

    if (.25 < minRadiusInner) {
        minRadiusInner = .25;
    }

    if (.15 < minRadiusFirst) {
        minRadiusFirst = .15;
    }

    if (.15 < minRadiusOuter) {
        minRadiusOuter = .15;
    }

    // visibility of nodes depends on the depth they are displayed at,
    // so we need to set the max depth assuming they can all be displayed
    // and iterate it down based on the deepest child node we can display
    //
    var maxDepth;
    var newMaxDepth = selectedNode.getMaxDepth() - selectedNode.getDepth() + 1;
    //
    do {
        maxDepth = newMaxDepth;

        if (!compress && maxDepth > maxPossibleDepth) {
            maxDepth = maxPossibleDepth;
        }

        if (compress) {
            compressedRadii = new Array(maxDepth);

            compressedRadii[0] = minRadiusInner;

            var offset = 0;

            while
                (
                lerp
                (
                    Math.atan(offset + 2),
                    Math.atan(offset + 1),
                    Math.atan(maxDepth + offset - 1),
                    minRadiusInner,
                    1 - minRadiusOuter
                ) - minRadiusInner > minRadiusFirst &&
                offset < 10
                ) {
                offset++;
            }

            offset--;

            for (var i = 1; i < maxDepth; i++) {
                compressedRadii[i] = lerp
                (
                    Math.atan(i + offset),
                    Math.atan(offset),
                    Math.atan(maxDepth + offset - 1),
                    minRadiusInner,
                    1 - minRadiusOuter
                )
            }
        }
        else {
            nodeRadius = 1 / maxDepth;
        }

        newMaxDepth = selectedNode.maxVisibleDepth(maxDepth);

        if (compress) {
            if (newMaxDepth <= maxPossibleDepth) {
//				compress
            }
        }
        else {
            if (newMaxDepth > maxPossibleDepth) {
                newMaxDepth = maxPossibleDepth;
            }
        }
    }
    while (newMaxDepth < maxDepth);

    maxDisplayDepth = maxDepth;

    lightnessFactor = (lightnessMax - lightnessBase)
        / (maxDepth > 8 ? 8 : maxDepth);
    keys = 0;

    nLabelOffsets = new Array(maxDisplayDepth - 1);
    labelOffsets = new Array(maxDisplayDepth - 1);
    labelLastNodes = new Array(maxDisplayDepth - 1);
    labelFirstNodes = new Array(maxDisplayDepth - 1);

    for (var i = 0; i < maxDisplayDepth - 1; i++) {
        if (compress) {
            if (i == maxDisplayDepth - 1) {
                nLabelOffsets[i] = 0;
            }
            else {
                var width =
                    (compressedRadii[i + 1] - compressedRadii[i]) *
                    gRadius;

                nLabelOffsets[i] = Math.floor(width / fontSize / 1.2);

                if (nLabelOffsets[i] > 2) {
                    nLabelOffsets[i] = min
                    (
                        Math.floor(width / fontSize / 1.75),
                        5
                    );
                }
            }
        }
        else {
            nLabelOffsets[i] = Math.max
            (
                Math.floor(Math.sqrt((nodeRadius * gRadius / fontSize)) * 1.5),
                3
            );
        }

        labelOffsets[i] = Math.floor((nLabelOffsets[i] - 1) / 2);
        labelLastNodes[i] = new Array(nLabelOffsets[i] + 1);
        labelFirstNodes[i] = new Array(nLabelOffsets[i] + 1);

        for (var j = 0; j <= nLabelOffsets[i]; j++) {
            // these arrays will allow nodes with neighboring labels to link to
            // each other to determine max label length

            labelLastNodes[i][j] = 0;
            labelFirstNodes[i][j] = 0;
        }
    }

    fontSizeText.innerHTML = fontSize;
    fontNormal = fontSize + 'px ' + fontFamily;
    context.font = fontNormal;
    fontBold = 'bold ' + fontSize + 'px ' + fontFamily;
    tickLength = fontSize * .7;

    head.setTargets(0);

    keySize = ((imageHeight - margin * 3) * 1 / 2) / keys * 3 / 4;

    if (keySize > fontSize * maxKeySizeFactor) {
        keySize = fontSize * maxKeySizeFactor;
    }

    keyBuffer = keySize / 3;

    fontSizeLast = fontSize;

    if (datasetChanged) {
        datasetChanged = false;
    }
    else {
        datasetAlpha.start = 0;
    }

    var date = new Date();
    tweenStartTime = date.getTime();
    progress = 0;
    tweenFrames = 0;

    updateKeyControl();
    updateDatasetWidths();

    document.title = ('Re@ - ' +
        location.href.split("/").slice(-1)[0].split(".html")[0]);
    updateNavigationButtons();
    snapshotButton.disabled = true;

    maxAbsoluteDepthText.innerHTML = maxAbsoluteDepth - 1;

    maxAbsoluteDepthButtonDecrease.disabled = (maxAbsoluteDepth == 2);
    maxAbsoluteDepthButtonIncrease.disabled =
        (maxAbsoluteDepth == head.maxDepth);

    bkgBrightButtonDecrease.disabled = (bkgBright == '555555');
    bkgBrightButtonIncrease.disabled = (bkgBright == 'ffffff');

    if (collapse != collapseLast && search.value != '') {
        onSearchChange();
        collapseLast = collapse;
    }
}

function updateMaxAbsoluteDepth() {
    while (maxAbsoluteDepth > 1 && selectedNode.depth > maxAbsoluteDepth - 1) {
        selectedNode = selectedNode.getParent();
    }
}

function updateNavigationButtons() {
    backButton.disabled = (nodeHistoryPosition == 0);
//	upButton.disabled = (selectedNode.getParent() == 0);
    forwardButton.disabled = (nodeHistoryPosition == nodeHistory.length);
}

function useHue() {
    return useHueCheckBox && useHueCheckBox.checked;
}

/*
function zoomOut()
{
	return (
		selectedNodeLast != 0 &&
		selectedNodeLast.getDepth() < selectedNode.getDepth());
}
*/</script></head><body><img id="hiddenImage" src="data:image/png;base64,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" style="display:none"><img id="loadingImage" 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
" style="display:none"><noscript>Javascript must be enabled to view this page.</noscript><div style="display:none"><krona collapse="true" key="true" chart="TAXOMIC"><attributes magnitude="cnt"><attribute display="Count" dataAll="members" tip="Number of reads assigned to this and child taxa">cnt</attribute><attribute display="Unassigned" dataNode="members" tip="Number of reads assigned specifically to this taxon">una</attribute><attribute display="TaxID" mono="true" hrefBase="https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&amp;id=" tip="Taxonomic identifier">tid</attribute><attribute display="Rank" mono="true" tip="Taxonomic rank/level">rnk</attribute><attribute display="Read length (avg)" tip="Averaged score of reads assigned to this and child taxa">sco</attribute></attributes><datasets rawSamples="3"><dataset isctr="False" sread="10999" sclas="10354" sfilt="10354" scmin="23.0" scavg="190.73954464627033" scmax="400.1051804377604" lnmin="70 nt" lnavg="387 nt" lnmax="602 nt" tclas="215" tfilt="215" tfold="5" sclim="None" totnt="4.22 Mnt">input_dir/centrifuge_1_out</dataset><dataset isctr="False" sread="10999" sclas="10354" sfilt="10354" scmin="23.0" scavg="190.73954464627033" scmax="400.1051804377604" lnmin="70 nt" lnavg="387 nt" lnmax="602 nt" tclas="215" tfilt="215" tfold="5" sclim="None" totnt="4.22 Mnt">input_dir/centrifuge_2_out</dataset><dataset isctr="False" sread="10999" sclas="10354" sfilt="10354" scmin="23.0" scavg="190.73954464627033" scmax="400.1051804377604" lnmin="70 nt" lnavg="387 nt" lnmax="602 nt" tclas="215" tfilt="215" tfold="5" sclim="None" totnt="4.22 Mnt">input_dir/centrifuge_out</dataset><dataset>SHARED_species</dataset><dataset>SHARED_genus</dataset><dataset>SHARED_family</dataset><dataset>SHARED_order</dataset><dataset>SHARED_class</dataset><dataset>SHARED_phylum</dataset><dataset>SHARED_SUMMARY</dataset></datasets><color attribute="sco" hueStart="0" hueEnd="300" valueStart="390.6" valueEnd="494.0" default="true"> </color><n name="root"><cnt><val>75</val><val>75</val><val>75</val><val>31</val><val>35</val><val>67</val><val>73</val><val>75</val><val>75</val><val>75</val></cnt><una><val></val><val></val><val></val><val></val><val></val><val></val><val></val><val></val><val></val><val></val></una><tid><val href="1">1</val></tid><rnk><val>no_rank</val></rnk><sco><val>392.59</val><val>392.59</val><val>392.59</val><val>488.35</val><val>489.00</val><val>446.66</val><val>442.05</val><val>440.73</val><val>440.73</val><val>440.73</val></sco><n name="Bacteria"><cnt><val>75</val><val>75</val><val>75</val><val>31</val><val>35</val><val>67</val><val>73</val><val>75</val><val>75</val><val>75</val></cnt><una><val></val><val></val><val></val><val></val><val></val><val></val><val></val><val></val><val></val><val></val></una><tid><val href="2">2</val></tid><rnk><val>superkingdom</val></rnk><sco><val>392.59</val><val>392.59</val><val>392.59</val><val>488.35</val><val>489.00</val><val>446.66</val><val>442.05</val><val>440.73</val><val>440.73</val><val>440.73</val></sco><n name="Proteobacteria"><cnt><val>75</val><val>75</val><val>75</val><val>31</val><val>35</val><val>67</val><val>73</val><val>75</val><val>75</val><val>75</val></cnt><una><val></val><val></val><val></val><val></val><val></val><val></val><val></val><val></val><val>75</val><val></val></una><tid><val href="1224">1224</val></tid><rnk><val>phylum</val></rnk><sco><val>392.59</val><val>392.59</val><val>392.59</val><val>488.35</val><val>489.00</val><val>446.66</val><val>442.05</val><val>440.73</val><val>440.73</val><val>440.73</val></sco><n name="Gammaproteobacteria"><cnt><val>75</val><val>75</val><val>75</val><val>31</val><val>35</val><val>67</val><val>73</val><val>75</val><val></val><val>75</val></cnt><una><val>2</val><val>2</val><val>2</val><val></val><val></val><val></val><val></val><val>75</val><val></val><val>2</val></una><tid><val href="1236">1236</val></tid><rnk><val>class</val></rnk><sco><val>392.59</val><val>392.59</val><val>392.59</val><val>488.35</val><val>489.00</val><val>446.66</val><val>442.05</val><val>440.73</val><val>0</val><val>440.73</val></sco><n name="Enterobacteriales"><cnt><val>73</val><val>73</val><val>73</val><val>31</val><val>35</val><val>67</val><val>73</val><val></val><val></val><val>73</val></cnt><una><val>6</val><val>6</val><val>6</val><val></val><val></val><val></val><val>73</val><val></val><val></val><val>6</val></una><tid><val href="91347">91347</val></tid><rnk><val>order</val></rnk><sco><val>390.56</val><val>390.56</val><val>390.56</val><val>488.35</val><val>489.00</val><val>446.66</val><val>442.05</val><val>0</val><val>0</val><val>442.05</val></sco><n name="Enterobacteriaceae"><cnt><val>67</val><val>67</val><val>67</val><val>31</val><val>35</val><val>67</val><val></val><val></val><val></val><val>67</val></cnt><una><val>32</val><val>32</val><val>32</val><val></val><val></val><val>67</val><val></val><val></val><val></val><val>32</val></una><tid><val href="543">543</val></tid><rnk><val>family</val></rnk><sco><val>400.34</val><val>400.34</val><val>400.34</val><val>488.35</val><val>489.00</val><val>446.66</val><val>0</val><val>0</val><val>0</val><val>446.66</val></sco><n name="Escherichia"><cnt><val>35</val><val>35</val><val>35</val><val>31</val><val>35</val><val></val><val></val><val></val><val></val><val>35</val></cnt><una><val>4</val><val>4</val><val>4</val><val></val><val>35</val><val></val><val></val><val></val><val></val><val>4</val></una><tid><val href="561">561</val></tid><rnk><val>genus</val></rnk><sco><val>494.03</val><val>494.03</val><val>494.03</val><val>488.35</val><val>489.00</val><val>0</val><val>0</val><val>0</val><val>0</val><val>489.00</val></sco><n name="Escherichia coli"><cnt><val>31</val><val>31</val><val>31</val><val>31</val><val></val><val></val><val></val><val></val><val></val><val>31</val></cnt><una><val>31</val><val>31</val><val>31</val><val>31</val><val></val><val></val><val></val><val></val><val></val><val>31</val></una><tid><val href="562">562</val></tid><rnk><val>species</val></rnk><sco><val>488.35</val><val>488.35</val><val>488.35</val><val>488.35</val><val>0</val><val>0</val><val>0</val><val>0</val><val>0</val><val>488.35</val></sco></n></n></n></n></n></n></n></n></krona></div></body></html>