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{"group":11256, "nodes":[["Foreign Investors Rush to Sell Japanese Stocks",5,14663]], "links":[]},
{"group":12792, "nodes":[["Trading Winds Blow Cold for Some Hot Stocks",5,16761],["Trading Winds Blow Cold for Some Hot Stocks",5,16750]], "links":[[16750,16761,0.0018866947]]},
{"group":16377, "nodes":[["Asian Stock Hedge Funds Flat in First Quarter",5,21496]], "links":[]},
{"group":27646, "nodes":[["Thailand to Sell Large Stocks of Natural Rubber",5,40953],["Thailand to Sell Large Stocks of Natural Rubber",5,40605]], "links":[[40605,40953,0.0008271124]]}]

index.html

<!DOCTYPE html>
<title>News Story Graph View</title>
<meta charset="utf8">
<script src="http://d3js.org/d3.v3.min.js"></script>
<script src="view.js"></script>
<link href="style.css" rel="stylesheet">

<body>
    <header id="input"><input placeholder="Search" type="text" disabled></header>
    <section id="main">
      <svg id="graph"></svg>
      <aside>
        <div id="status"></div>
        <div id="nodes"></div>
        <div id="details">
            <div class="details-doc"></div>
        </div>
      </aside>
    </section>
</body>

style.css

/* reset */

html, body {
  margin: 0;
  padding: 0;
  height: 100%;
  font: 12px sans-serif;
  line-height: 14px;
}

/* layout */
body {
  display: flex;
  flex-direction: column;
 }

#main {
  display: flex;
  flex-flow: row wrap;
  align-items: stretch;

  height: 100%;
}

#graph {
  flex: 0 0 960px;
  display: block;
}

aside {
  flex: 1;
}

/* main input */
#input {
  padding: 20px 30px 0 30px;
  border-bottom: 1px solid #555;

  background: rgb(250, 250, 250);
}

#input input[type=text] {
  box-sizing: border-box;
  -webkit-appearance: none;

  width: 100%;
  height: 32px;

  padding: 7px 0 0 0;
  margin: 0;
  border: none;

  line-height: 20px;
  font-size: 20px;
  color: #333;
  outline: 0;
  background: transparent;
}

/* main graph */

#graph {
  background: steelblue;
  padding: 0;
  margin: 0 auto;
  display: block;
  overflow: visible;
}

/* main nodes view */
aside {
  background: rgb(237, 237, 237);
  height: 100%;
  box-sizing: border-box;
  height: calc(100% - 51px);
}

/* status view */
#status {
  height: 40px;
  border-bottom: 1px solid gray;
  line-height: 40px;
  text-align: center;
  background: rgb(250, 250, 250);
}

/* list view */
#nodes {
    height: calc(100% - 41px - 151px);
    overflow: scroll;
    border-bottom: 1px solid gray;
}

#nodes div.group {
  margin-left: 5px;
}

#nodes div.group::before {
  content: '▼';
  font-size: 10px;
  line-height: 14px;
  padding-right: 3px;
  color: #666;
}

#nodes div.node {
  margin: 0 10px 0 20px;
  padding: 2px 5px;
}

#nodes div.node.highlight {
    background: white;
    border-radius: 14px;
}

#nodes div.node span.nodecolor::before {
  content: '●';
  padding-right: 3px;

  font-size: 14px;
  line-height: 14px;
  -webkit-text-stroke: 1px rgba(0,0,0,0.8);
}

/* details view */
#details {
    height: 150px;
    background: rgb(250, 250, 250);
    overflow: hidden;
    position: relative;
}

#details table {
    width: 100%;
}
#details table tr td:first-of-type {
    text-align: right;
}
#details table tr td:first-of-type::after {
    content: ':'
}

#details div.details-doc {
    height: 100%;
}

/* d3 */
svg .node {
  stroke: #fff;
  stroke-width: 1.5px;
}

svg .node.highlight {
    stroke: #000;
}

svg .link {
  stroke: #fff;
  stroke-opacity: 0.2;
  stroke-width: 1px;
}

view.js

(function (d3, undefined) {
    document.addEventListener('DOMContentLoaded', function () {
        window.viewer = new Viewer();
    });

    //
    // Manage the view
    //
    function Viewer() {
        if (!(this instanceof Viewer)) return new Viewer();
        var self = this;

        this._graph = new GraphViewer();
        this._status = document.querySelector('#status');
        this._list = new ListViewer();
        this._details = new DetailsView(this);
        this._handler = new NodeEventHandler(this);

        this._data = new DataContainer([], {
            _group2index: {}
        });

        this.status('wait', 'Loading ...');
        d3.json('graph.json', function (error, data) {
            if (error) return self._viewer.status('error', 'Request error: ' + error.statusText);
            self.status('none');
            self.update(data);
      });
    }

    Viewer.prototype.status = function (key, message) {
        var colormap = {
            'error': 'rgb(172, 65, 35)',
            'wait': 'rgb(121, 132, 18)',
            'none': 'rgb(255, 255, 255)'
        };

        this._status.innerHTML = message || '';
        this._status.style.color = colormap[key];
    };

    Viewer.prototype.update = function (data) {
        this._data = new DataContainer(data, this._data);

        this._list.update(this._data);
        this._graph.update(this._data);
    };

    //
    // Manage events on nodes
    //
    function NodeEventHandler(watcher) {
        this._watcher = watcher;
        this._detailsViewer = this._watcher._details;
        this._listViewer = this._watcher._list;
        this._graphViewer = this._watcher._graph;

        this._highlight = null;

        this.addEventListener('click', this._click.bind(this));
    }

    NodeEventHandler.prototype.addEventListener = function (eventName, fn) {
        var self = this;
        function handler(d, i) {
            var list = self._listViewer.getNode(d);
            var graph = self._graphViewer.getNode(d);
            fn(d, list, graph);
        }

        this._listViewer.addEventListener(eventName, handler);
        this._graphViewer.addEventListener(eventName, handler);
    };

    NodeEventHandler.prototype._click = function (d, listNode, graphNode) {
        if (this._highlight) {
            this._highlight.list.classList.remove('highlight');
            this._highlight.graph.classList.remove('highlight');
        }
        listNode.classList.add('highlight');
        graphNode.classList.add('highlight');

        this._highlight = { 'list': listNode, 'graph': graphNode };
        if (!isElementVisible(listNode)) listNode.scrollIntoView(true);

        this._detailsViewer.update(d);
    };

    //
    // Holds and unpack the data
    //
    function LinkContainer(source, target, distance) {
        this.source = source;
        this.target = target;
        this.distance = distance;
    }

    function NodeContainer(data) {
        this.title = data[0];
        this.website = data[1];
        this.id = data[2];
    }

    function GroupContainer(data) {
        this._id2index = {};

        this.group = data.group;
        this.nodes = [];
        this.links = [];

        var i = 0;

        // Create node list
        for (i=0; i < data.nodes.length; i++) {
            var node = data.nodes[i];
            this._id2index[node[2]] = i;
            this.nodes.push(new NodeContainer(node));
        }

        // Create link list and find min max for distance
        var min = Infinity, max = 0;
        for (i=0; i < data.links.length; i++) {
            var link = data.links[i];

            this.links.push(new LinkContainer(
                this.nodes[ this._id2index[link[0]] ],
                this.nodes[ this._id2index[link[1]] ],
                link[2]
            ));

            if (link[2] < min) min = link[2];
            if (link[2] > max) max = link[2];
        }

        // Save min & max
        this.min = min;
        this.max = max;
    }

    function DataContainer(data, old) {
        if (!(this instanceof DataContainer)) return new DataContainer(data);

        this.groups = [];
        this._group2index = {};

        // Create group list and find min max for distance
        var min = Infinity, max = 0;
        for (var i = 0; i < data.length; i++) {
            var groupId = data[i].group;

            // Get group, either from an old build or create it
            var group;
            if (old._group2index.hasOwnProperty(groupId)) {
                group = old.groups[ old._group2index[groupId] ];
            } else {
                group = new GroupContainer(data[i]);
            }

            this.groups.push(group);
            this._group2index[group.group] = i;

            if (group.min < min) min = group.min;
            if (group.max > max) max = group.max;
        }

        // Save min & max
        this.min = min;
        this.max = max;
    }

    //
    // Manage the Node View
    //
    function ListViewer() {
        if (!(this instanceof ListViewer)) return ListViewer();
        EventAbstraction.apply(this, arguments);

        this._view = d3.select('#nodes');
        this._colors = d3.scale.category10();
        this._groupSelection = this._view.selectAll('.group');
    }
    inherits(ListViewer, EventAbstraction);

    ListViewer.prototype.update = function (data) {
        var self = this;

        this._groupSelection = this._groupSelection
            .data(data.groups, function (d) { return d.group; });

        var group = this._groupSelection.enter().append('div')
            .attr('class', 'group')
            .text(function (d) {  return d.group; });

        var nodes = group.selectAll('.node')
            .data(function (d) { return d.nodes; }, function (d) { return d.id; });

        var node = nodes.enter().append('div')
            .attr('class', 'node')
            .call(this.enterNodeEventer.bind(this))
            .insert('span', ':first-child')
                .attr('class', 'nodecolor')
                .style('color', function (d) { return self._colors(d.website); })
                .each(function (d) {
                    this.parentNode.appendChild(document.createTextNode(d.title));
                });

        this._groupSelection.exit().remove();
        nodes.exit()
            .call(this.exitNodeEventer.bind(this))
            .remove();
    };

    //
    // Manage the Graph
    //
    function GraphViewer() {
        if (!(this instanceof GraphViewer)) return GraphViewer();
        EventAbstraction.apply(this, arguments);
        var self = this;

        this._svg = d3.select('#graph');

        this._colors = d3.scale.category10();
        this._scale = d3.scale.sqrt();
        this._scale.range([1, 30]);

        this._links = [];
        this._nodes = [];

        this._size = [960, 500];
        this._radius = 5;

        this._force = d3.layout.force()
            .nodes(this._nodes)
            .links(this._links)
            .charge(-120)
            .linkStrength(0.3)
            .linkDistance(function (d) { return self._scale(d.distance); })
            .size(this._size)
            .on('tick', this._forceTick.bind(this));
        this._resize();

        this._nodeSelect = this._svg.selectAll(".node");
        this._linkSelect = this._svg.selectAll(".link");

        var noresize = null;
        window.addEventListener('resize', function () {
            clearTimeout(noresize);
            noresize = setTimeout(self._resize.bind(self), 1000);
        });
    }
    inherits(GraphViewer, EventAbstraction);

    GraphViewer.prototype._resize = function () {
        var size = this._svg.node().getBoundingClientRect();
        var width = Math.floor(size.width),
            height = Math.floor(size.height);
        if (width !== this._size[0] || height !== this._size[1]) {
            this._size = [width, height];
            this._force.size(this._size);

            if (this._nodes.length > 0) {
                this._force.start();
            }
        }
    };

    GraphViewer.prototype._forceTick = function () {
        var self = this;
        var radius = this._radius;
        this._nodeSelect
            .attr("cx", function(d) {
                return Math.max(radius, Math.min(self._size[0] - radius, d.x));
            })
            .attr("cy", function(d) {
                return Math.max(radius, Math.min(self._size[1] - radius, d.y));
            });

        this._linkSelect.attr("x1", function(d) { return d.source.x; })
                        .attr("y1", function(d) { return d.source.y; })
                        .attr("x2", function(d) { return d.target.x; })
                        .attr("y2", function(d) { return d.target.y; });
    };

    GraphViewer.prototype._forceUpdate = function () {
        var self = this;

        this._linkSelect = this._linkSelect
            .data(this._force.links(), function(d) { return d.source.id + "-" + d.target.id; });
        this._linkSelect.enter().insert("line", ".node")
            .attr("class", "link");
        this._linkSelect.exit().remove();

        this._nodeSelect = this._nodeSelect
            .data(this._force.nodes(), function(d) { return d.id; });
        this._nodeSelect.enter().append("circle")
            .attr("class", "node")
            .attr("r", this._radius - 0.75)
            .style("fill", function(d) { return self._colors(d.website); })
            .call(this._force.drag)
            .call(this.enterNodeEventer.bind(this))
            .append("title")
                .text(function(d) { return d.title; });
        this._nodeSelect.exit()
            .call(this.exitNodeEventer.bind(this))
            .remove();

        this._force.start();
    };

    GraphViewer.prototype.update = function (data) {
        this._nodes.length = 0;
        this._links.length = 0;

        for (var g = 0; g < data.groups.length; g++) {
            var group = data.groups[g];

            for (var n = 0; n < group.nodes.length; n++) {
                this._nodes.push(group.nodes[n]);
            }
            for (var l = 0; l < group.links.length; l++) {
                this._links.push(group.links[l]);
            }
        }

        this._scale.domain([data.min, data.max]);
        this._forceUpdate();
    };

    //
    // Manage details view
    //
    function DetailsView(viewer) {
        if (!(this instanceof DetailsView)) return new DetailsView();

        this._viewer = viewer;
        this._details = document.querySelector('#details');

        this._table = new PropertyTable();
        this._table.append(this._details.querySelectorAll('.details-doc')[0]);
    }

    DetailsView.prototype.update = function (d, side) {
        var self = this;

        this._table.update({
            "db-id":2,
            "date":"2014-02-21T11:16:43",
            "website":"http:\/\/www.bbc.com\/news\/",
            "index":1
        });
    };

    //
    // Property table
    //
    function PropertyTable() {
        this._table = document.createElement('table');
    }

    PropertyTable.prototype._createCell = function (val) {
        var td = document.createElement('td');
            td.appendChild(document.createTextNode(val));
        return td;
    };

    PropertyTable.prototype.append = function (el) {
        el.appendChild(this._table);
    };

    PropertyTable.prototype.clear = function () {
        this._table.innerHTML = '';
    };

    PropertyTable.prototype.update = function (content) {
        this.clear();

        var keys = Object.keys(content);
        for (var i = 0; i < keys.length; i++) {
            var tr = document.createElement('tr');
                tr.appendChild(this._createCell(keys[i]));
                tr.appendChild(this._createCell(content[keys[i]]));
            this._table.appendChild(tr);
        }
    };

    //
    // Event handler Abstraction
    //
    function EventAbstraction() {
        this._events = {
            nodeMap: {},
            listeners: {},
            keys: []
        };
    }

    EventAbstraction.prototype.addEventListener = function (eventName, fn) {
        this._events.listeners[eventName] = fn;
        this._events.keys.push(eventName);
    };

    EventAbstraction.prototype.enterNodeEventer = function (nodeCollection) {
        var self = this;

        for (var i = 0; i < this._events.keys.length; i++) {
            var eventName = this._events.keys[i];
            var listener = this._events.listeners[eventName];
            nodeCollection.on(eventName, listener);
        }

        nodeCollection.each(function (d) {
            self._events.nodeMap[d.id] = this;
        });
    };

    EventAbstraction.prototype.exitNodeEventer = function (nodeCollection) {
        var self = this;
        nodeCollection.each(function (d) {
            delete self._events.nodeMap[d.id];
        });
    };

    EventAbstraction.prototype.getNode = function (d) {
        return this._events.nodeMap[d.id];
    };

    //
    // Utils
    //
    function inherits(ctor, superCtor) {
        ctor.super_ = superCtor;
        ctor.prototype = Object.create(superCtor.prototype, {
            constructor: {
                value: ctor,
                enumerable: false,
                writable: true,
                configurable: true
            }
        });
    }

    function isElementVisible(el) {
        var rect     = el.getBoundingClientRect(),
            efp      = function (x, y) { return document.elementFromPoint(x, y); };

        // Return false if it's not in the viewport
        if (rect.right < 0 || rect.bottom < 0 || rect.left > window.innerWidth || rect.top > window.innerHeight) {
            return false;
        }

        var x = rect.left + rect.width/2,
            y = rect.top + rect.height/2;

        // Return true if any of its four corners are visible
        var eap = document.elementFromPoint(x, y);
        return (eap == el || el.contains(eap));
    }
})(window.d3);