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1159 lines
38 KiB
1159 lines
38 KiB
/**
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* Creation of the ClusterMixin var.
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*
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* This contains all the functions the Network object can use to employ clustering
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*/
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/**
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* This is only called in the constructor of the network object
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*
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*/
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exports.startWithClustering = function() {
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// cluster if the data set is big
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this.clusterToFit(this.constants.clustering.initialMaxNodes, true);
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// updates the lables after clustering
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this.updateLabels();
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// this is called here because if clusterin is disabled, the start and stabilize are called in
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// the setData function.
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if (this.stabilize) {
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this._stabilize();
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}
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this.start();
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};
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/**
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* This function clusters until the initialMaxNodes has been reached
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*
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* @param {Number} maxNumberOfNodes
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* @param {Boolean} reposition
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*/
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exports.clusterToFit = function(maxNumberOfNodes, reposition) {
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var numberOfNodes = this.nodeIndices.length;
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var maxLevels = 2;
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var level = 0;
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// we first cluster the hubs, then we pull in the outliers, repeat
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while (numberOfNodes > maxNumberOfNodes && level < maxLevels) {
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console.log("Performing clustering:", level, numberOfNodes, this.clusterSession);
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if (level % 3 == 0.0) {
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//this.forceAggregateHubs(true);
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//this.normalizeClusterLevels();
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}
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else {
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//this.increaseClusterLevel(); // this also includes a cluster normalization
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}
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//this.forceAggregateHubs(true);
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numberOfNodes = this.nodeIndices.length;
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level += 1;
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}
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console.log("finished")
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// after the clustering we reposition the nodes to reduce the initial chaos
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if (level > 0 && reposition == true) {
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this.repositionNodes();
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}
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this._updateCalculationNodes();
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};
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/**
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* This function can be called to open up a specific cluster. It is only called by
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* It will unpack the cluster back one level.
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*
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* @param node | Node object: cluster to open.
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*/
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exports.openCluster = function(node) {
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var isMovingBeforeClustering = this.moving;
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if (node.clusterSize > this.constants.clustering.sectorThreshold && this._nodeInActiveArea(node) &&
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!(this._sector() == "default" && this.nodeIndices.length == 1)) {
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// this loads a new sector, loads the nodes and edges and nodeIndices of it.
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this._addSector(node);
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var level = 0;
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// we decluster until we reach a decent number of nodes
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while ((this.nodeIndices.length < this.constants.clustering.initialMaxNodes) && (level < 10)) {
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this.decreaseClusterLevel();
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level += 1;
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}
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}
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else {
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this._expandClusterNode(node,false,true);
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// update the index list, dynamic edges and labels
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this._updateNodeIndexList();
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this._updateDynamicEdges();
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this._updateCalculationNodes();
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this.updateLabels();
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}
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// if the simulation was settled, we restart the simulation if a cluster has been formed or expanded
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if (this.moving != isMovingBeforeClustering) {
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this.start();
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}
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};
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/**
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* This calls the updateClustes with default arguments
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*/
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exports.updateClustersDefault = function() {
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if (this.constants.clustering.enabled == true && this.constants.clustering.clusterByZoom == true) {
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this.updateClusters(0,false,false);
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}
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};
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/**
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* This function can be called to increase the cluster level. This means that the nodes with only one edge connection will
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* be clustered with their connected node. This can be repeated as many times as needed.
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* This can be called externally (by a keybind for instance) to reduce the complexity of big datasets.
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*/
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exports.increaseClusterLevel = function() {
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this.updateClusters(-1,false,true);
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};
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/**
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* This function can be called to decrease the cluster level. This means that the nodes with only one edge connection will
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* be unpacked if they are a cluster. This can be repeated as many times as needed.
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* This can be called externally (by a key-bind for instance) to look into clusters without zooming.
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*/
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exports.decreaseClusterLevel = function() {
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this.updateClusters(1,false,true);
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};
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/**
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* This is the main clustering function. It clusters and declusters on zoom or forced
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* This function clusters on zoom, it can be called with a predefined zoom direction
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* If out, check if we can form clusters, if in, check if we can open clusters.
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* This function is only called from _zoom()
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*
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* @param {Number} zoomDirection | -1 / 0 / +1 for zoomOut / determineByZoom / zoomIn
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* @param {Boolean} recursive | enabled or disable recursive calling of the opening of clusters
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* @param {Boolean} force | enabled or disable forcing
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* @param {Boolean} doNotStart | if true do not call start
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*
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*/
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exports.updateClusters = function(zoomDirection,recursive,force,doNotStart) {
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var isMovingBeforeClustering = this.moving;
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var amountOfNodes = this.nodeIndices.length;
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// on zoom out collapse the sector if the scale is at the level the sector was made
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if (this.previousScale > this.scale && zoomDirection == 0) {
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this._collapseSector();
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}
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// check if we zoom in or out
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if (this.previousScale > this.scale || zoomDirection == -1) { // zoom out
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// forming clusters when forced pulls outliers in. When not forced, the edge length of the
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// outer nodes determines if it is being clustered
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this._formClusters(force);
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}
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else if (this.previousScale < this.scale || zoomDirection == 1) { // zoom in
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if (force == true) {
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// _openClusters checks for each node if the formationScale of the cluster is smaller than
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// the current scale and if so, declusters. When forced, all clusters are reduced by one step
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this._openClusters(recursive,force);
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}
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else {
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// if a cluster takes up a set percentage of the active window
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this._openClustersBySize();
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}
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}
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this._updateNodeIndexList();
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// if a cluster was NOT formed and the user zoomed out, we try clustering by hubs
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if (this.nodeIndices.length == amountOfNodes && (this.previousScale > this.scale || zoomDirection == -1)) {
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this._aggregateHubs(force);
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this._updateNodeIndexList();
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}
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// we now reduce chains.
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if (this.previousScale > this.scale || zoomDirection == -1) { // zoom out
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this.handleChains();
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this._updateNodeIndexList();
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}
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this.previousScale = this.scale;
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// rest of the update the index list, dynamic edges and labels
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this._updateDynamicEdges();
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this.updateLabels();
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// if a cluster was formed, we increase the clusterSession
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if (this.nodeIndices.length < amountOfNodes) { // this means a clustering operation has taken place
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this.clusterSession += 1;
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// if clusters have been made, we normalize the cluster level
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this.normalizeClusterLevels();
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}
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if (doNotStart == false || doNotStart === undefined) {
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// if the simulation was settled, we restart the simulation if a cluster has been formed or expanded
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if (this.moving != isMovingBeforeClustering) {
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this.start();
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}
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}
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this._updateCalculationNodes();
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};
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/**
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* This function handles the chains. It is called on every updateClusters().
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*/
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exports.handleChains = function() {
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// after clustering we check how many chains there are
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var chainPercentage = this._getChainFraction();
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if (chainPercentage > this.constants.clustering.chainThreshold) {
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this._reduceAmountOfChains(1 - this.constants.clustering.chainThreshold / chainPercentage)
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}
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};
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/**
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* this functions starts clustering by hubs
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* The minimum hub threshold is set globally
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*
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* @private
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*/
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exports._aggregateHubs = function(force) {
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this._getHubSize();
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this._formClustersByHub(force,false);
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};
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/**
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* This function forces hubs to form.
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*
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*/
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exports.forceAggregateHubs = function(doNotStart) {
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var isMovingBeforeClustering = this.moving;
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var amountOfNodes = this.nodeIndices.length;
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this._aggregateHubs(true);
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// update the index list, dynamic edges and labels
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this._updateNodeIndexList();
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this._updateCalculationNodes();
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this._updateDynamicEdges();
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this.updateLabels();
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// if a cluster was formed, we increase the clusterSession
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if (this.nodeIndices.length != amountOfNodes) {
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this.clusterSession += 1;
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}
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if (doNotStart == false || doNotStart === undefined) {
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// if the simulation was settled, we restart the simulation if a cluster has been formed or expanded
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if (this.moving != isMovingBeforeClustering) {
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this.start();
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}
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}
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};
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/**
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* If a cluster takes up more than a set percentage of the screen, open the cluster
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*
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* @private
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*/
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exports._openClustersBySize = function() {
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for (var nodeId in this.nodes) {
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if (this.nodes.hasOwnProperty(nodeId)) {
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var node = this.nodes[nodeId];
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if (node.inView() == true) {
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if ((node.width*this.scale > this.constants.clustering.screenSizeThreshold * this.frame.canvas.clientWidth) ||
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(node.height*this.scale > this.constants.clustering.screenSizeThreshold * this.frame.canvas.clientHeight)) {
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this.openCluster(node);
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}
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}
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}
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}
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};
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/**
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* This function loops over all nodes in the nodeIndices list. For each node it checks if it is a cluster and if it
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* has to be opened based on the current zoom level.
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*
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* @private
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*/
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exports._openClusters = function(recursive,force) {
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for (var i = 0; i < this.nodeIndices.length; i++) {
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var node = this.nodes[this.nodeIndices[i]];
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this._expandClusterNode(node,recursive,force);
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this._updateCalculationNodes();
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}
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};
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/**
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* This function checks if a node has to be opened. This is done by checking the zoom level.
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* If the node contains child nodes, this function is recursively called on the child nodes as well.
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* This recursive behaviour is optional and can be set by the recursive argument.
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*
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* @param {Node} parentNode | to check for cluster and expand
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* @param {Boolean} recursive | enabled or disable recursive calling
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* @param {Boolean} force | enabled or disable forcing
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* @param {Boolean} [openAll] | This will recursively force all nodes in the parent to be released
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* @private
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*/
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exports._expandClusterNode = function(parentNode, recursive, force, openAll) {
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// first check if node is a cluster
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if (parentNode.clusterSize > 1) {
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// this means that on a double tap event or a zoom event, the cluster fully unpacks if it is smaller than 20
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if (parentNode.clusterSize < this.constants.clustering.sectorThreshold) {
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openAll = true;
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}
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recursive = openAll ? true : recursive;
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// if the last child has been added on a smaller scale than current scale decluster
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if (parentNode.formationScale < this.scale || force == true) {
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// we will check if any of the contained child nodes should be removed from the cluster
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for (var containedNodeId in parentNode.containedNodes) {
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if (parentNode.containedNodes.hasOwnProperty(containedNodeId)) {
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var childNode = parentNode.containedNodes[containedNodeId];
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// force expand will expand the largest cluster size clusters. Since we cluster from outside in, we assume that
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// the largest cluster is the one that comes from outside
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if (force == true) {
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if (childNode.clusterSession == parentNode.clusterSessions[parentNode.clusterSessions.length-1]
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|| openAll) {
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this._expelChildFromParent(parentNode,containedNodeId,recursive,force,openAll);
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}
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}
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else {
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if (this._nodeInActiveArea(parentNode)) {
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this._expelChildFromParent(parentNode,containedNodeId,recursive,force,openAll);
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}
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}
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}
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}
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}
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}
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};
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/**
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* ONLY CALLED FROM _expandClusterNode
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*
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* This function will expel a child_node from a parent_node. This is to de-cluster the node. This function will remove
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* the child node from the parent contained_node object and put it back into the global nodes object.
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* The same holds for the edge that was connected to the child node. It is moved back into the global edges object.
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*
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* @param {Node} parentNode | the parent node
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* @param {String} containedNodeId | child_node id as it is contained in the containedNodes object of the parent node
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* @param {Boolean} recursive | This will also check if the child needs to be expanded.
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* With force and recursive both true, the entire cluster is unpacked
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* @param {Boolean} force | This will disregard the zoom level and will expel this child from the parent
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* @param {Boolean} openAll | This will recursively force all nodes in the parent to be released
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* @private
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*/
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exports._expelChildFromParent = function(parentNode, containedNodeId, recursive, force, openAll) {
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var childNode = parentNode.containedNodes[containedNodeId]
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// if child node has been added on smaller scale than current, kick out
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if (childNode.formationScale < this.scale || force == true) {
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// unselect all selected items
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this._unselectAll();
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// put the child node back in the global nodes object
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this.nodes[containedNodeId] = childNode;
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// release the contained edges from this childNode back into the global edges
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this._releaseContainedEdges(parentNode,childNode);
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// reconnect rerouted edges to the childNode
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this._connectEdgeBackToChild(parentNode,childNode);
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// validate all edges in dynamicEdges
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this._validateEdges(parentNode);
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// undo the changes from the clustering operation on the parent node
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parentNode.options.mass -= childNode.options.mass;
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parentNode.clusterSize -= childNode.clusterSize;
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parentNode.options.fontSize = Math.min(this.constants.clustering.maxFontSize, this.constants.nodes.fontSize + this.constants.clustering.fontSizeMultiplier*(parentNode.clusterSize-1));
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parentNode.dynamicEdgesLength = parentNode.dynamicEdges.length;
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// place the child node near the parent, not at the exact same location to avoid chaos in the system
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childNode.x = parentNode.x + parentNode.growthIndicator * (0.5 - Math.random());
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childNode.y = parentNode.y + parentNode.growthIndicator * (0.5 - Math.random());
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// remove node from the list
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delete parentNode.containedNodes[containedNodeId];
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// check if there are other childs with this clusterSession in the parent.
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var othersPresent = false;
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for (var childNodeId in parentNode.containedNodes) {
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if (parentNode.containedNodes.hasOwnProperty(childNodeId)) {
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if (parentNode.containedNodes[childNodeId].clusterSession == childNode.clusterSession) {
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othersPresent = true;
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break;
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}
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}
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}
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// if there are no others, remove the cluster session from the list
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if (othersPresent == false) {
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parentNode.clusterSessions.pop();
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}
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this._repositionBezierNodes(childNode);
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// this._repositionBezierNodes(parentNode);
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// remove the clusterSession from the child node
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childNode.clusterSession = 0;
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// recalculate the size of the node on the next time the node is rendered
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parentNode.clearSizeCache();
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// restart the simulation to reorganise all nodes
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this.moving = true;
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}
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// check if a further expansion step is possible if recursivity is enabled
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if (recursive == true) {
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this._expandClusterNode(childNode,recursive,force,openAll);
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}
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};
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/**
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* position the bezier nodes at the center of the edges
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*
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* @param node
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* @private
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*/
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exports._repositionBezierNodes = function(node) {
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for (var i = 0; i < node.dynamicEdges.length; i++) {
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node.dynamicEdges[i].positionBezierNode();
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}
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};
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/**
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* This function checks if any nodes at the end of their trees have edges below a threshold length
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* This function is called only from updateClusters()
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* forceLevelCollapse ignores the length of the edge and collapses one level
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* This means that a node with only one edge will be clustered with its connected node
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*
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* @private
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* @param {Boolean} force
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*/
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exports._formClusters = function(force) {
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if (force == false) {
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this._formClustersByZoom();
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}
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else {
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this._forceClustersByZoom();
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}
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};
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/**
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* This function handles the clustering by zooming out, this is based on a minimum edge distance
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*
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* @private
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*/
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exports._formClustersByZoom = function() {
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var dx,dy,length,
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minLength = this.constants.clustering.clusterEdgeThreshold/this.scale;
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// check if any edges are shorter than minLength and start the clustering
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// the clustering favours the node with the larger mass
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for (var edgeId in this.edges) {
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if (this.edges.hasOwnProperty(edgeId)) {
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var edge = this.edges[edgeId];
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if (edge.connected) {
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if (edge.toId != edge.fromId) {
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dx = (edge.to.x - edge.from.x);
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dy = (edge.to.y - edge.from.y);
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length = Math.sqrt(dx * dx + dy * dy);
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if (length < minLength) {
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// first check which node is larger
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var parentNode = edge.from;
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var childNode = edge.to;
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if (edge.to.options.mass > edge.from.options.mass) {
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parentNode = edge.to;
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childNode = edge.from;
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}
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if (childNode.dynamicEdgesLength == 1) {
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this._addToCluster(parentNode,childNode,false);
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}
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else if (parentNode.dynamicEdgesLength == 1) {
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this._addToCluster(childNode,parentNode,false);
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}
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}
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}
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}
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}
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}
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};
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|
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/**
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* This function forces the network to cluster all nodes with only one connecting edge to their
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* connected node.
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*
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* @private
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*/
|
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exports._forceClustersByZoom = function() {
|
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for (var nodeId in this.nodes) {
|
|
// another node could have absorbed this child.
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if (this.nodes.hasOwnProperty(nodeId)) {
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var childNode = this.nodes[nodeId];
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|
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// the edges can be swallowed by another decrease
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if (childNode.dynamicEdgesLength == 1 && childNode.dynamicEdges.length != 0) {
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var edge = childNode.dynamicEdges[0];
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var parentNode = (edge.toId == childNode.id) ? this.nodes[edge.fromId] : this.nodes[edge.toId];
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// group to the largest node
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if (childNode.id != parentNode.id) {
|
|
if (parentNode.options.mass > childNode.options.mass) {
|
|
this._addToCluster(parentNode,childNode,true);
|
|
}
|
|
else {
|
|
this._addToCluster(childNode,parentNode,true);
|
|
}
|
|
}
|
|
}
|
|
}
|
|
}
|
|
};
|
|
|
|
|
|
/**
|
|
* To keep the nodes of roughly equal size we normalize the cluster levels.
|
|
* This function clusters a node to its smallest connected neighbour.
|
|
*
|
|
* @param node
|
|
* @private
|
|
*/
|
|
exports._clusterToSmallestNeighbour = function(node) {
|
|
var smallestNeighbour = -1;
|
|
var smallestNeighbourNode = null;
|
|
for (var i = 0; i < node.dynamicEdges.length; i++) {
|
|
if (node.dynamicEdges[i] !== undefined) {
|
|
var neighbour = null;
|
|
if (node.dynamicEdges[i].fromId != node.id) {
|
|
neighbour = node.dynamicEdges[i].from;
|
|
}
|
|
else if (node.dynamicEdges[i].toId != node.id) {
|
|
neighbour = node.dynamicEdges[i].to;
|
|
}
|
|
|
|
|
|
if (neighbour != null && smallestNeighbour > neighbour.clusterSessions.length) {
|
|
smallestNeighbour = neighbour.clusterSessions.length;
|
|
smallestNeighbourNode = neighbour;
|
|
}
|
|
}
|
|
}
|
|
|
|
if (neighbour != null && this.nodes[neighbour.id] !== undefined) {
|
|
this._addToCluster(neighbour, node, true);
|
|
}
|
|
};
|
|
|
|
|
|
/**
|
|
* This function forms clusters from hubs, it loops over all nodes
|
|
*
|
|
* @param {Boolean} force | Disregard zoom level
|
|
* @param {Boolean} onlyEqual | This only clusters a hub with a specific number of edges
|
|
* @private
|
|
*/
|
|
exports._formClustersByHub = function(force, onlyEqual) {
|
|
// we loop over all nodes in the list
|
|
for (var nodeId in this.nodes) {
|
|
// we check if it is still available since it can be used by the clustering in this loop
|
|
if (this.nodes.hasOwnProperty(nodeId)) {
|
|
this._formClusterFromHub(this.nodes[nodeId],force,onlyEqual);
|
|
}
|
|
}
|
|
};
|
|
|
|
/**
|
|
* This function forms a cluster from a specific preselected hub node
|
|
*
|
|
* @param {Node} hubNode | the node we will cluster as a hub
|
|
* @param {Boolean} force | Disregard zoom level
|
|
* @param {Boolean} onlyEqual | This only clusters a hub with a specific number of edges
|
|
* @param {Number} [absorptionSizeOffset] |
|
|
* @private
|
|
*/
|
|
exports._formClusterFromHub = function(hubNode, force, onlyEqual, absorptionSizeOffset) {
|
|
if (absorptionSizeOffset === undefined) {
|
|
absorptionSizeOffset = 0;
|
|
}
|
|
|
|
if (hubNode.dynamicEdgesLength < 0) {
|
|
console.error(hubNode.dynamicEdgesLength, this.hubThreshold, onlyEqual)
|
|
}
|
|
// we decide if the node is a hub
|
|
if ((hubNode.dynamicEdgesLength >= this.hubThreshold && onlyEqual == false) ||
|
|
(hubNode.dynamicEdgesLength == this.hubThreshold && onlyEqual == true)) {
|
|
|
|
// initialize variables
|
|
var dx,dy,length;
|
|
var minLength = this.constants.clustering.clusterEdgeThreshold/this.scale;
|
|
var allowCluster = false;
|
|
|
|
// we create a list of edges because the dynamicEdges change over the course of this loop
|
|
var edgesIdarray = [];
|
|
var amountOfInitialEdges = hubNode.dynamicEdges.length;
|
|
for (var j = 0; j < amountOfInitialEdges; j++) {
|
|
edgesIdarray.push(hubNode.dynamicEdges[j].id);
|
|
}
|
|
|
|
// if the hub clustering is not forced, we check if one of the edges connected
|
|
// to a cluster is small enough based on the constants.clustering.clusterEdgeThreshold
|
|
if (force == false) {
|
|
allowCluster = false;
|
|
for (j = 0; j < amountOfInitialEdges; j++) {
|
|
var edge = this.edges[edgesIdarray[j]];
|
|
if (edge !== undefined) {
|
|
if (edge.connected) {
|
|
if (edge.toId != edge.fromId) {
|
|
dx = (edge.to.x - edge.from.x);
|
|
dy = (edge.to.y - edge.from.y);
|
|
length = Math.sqrt(dx * dx + dy * dy);
|
|
|
|
if (length < minLength) {
|
|
allowCluster = true;
|
|
break;
|
|
}
|
|
}
|
|
}
|
|
}
|
|
}
|
|
}
|
|
|
|
// start the clustering if allowed
|
|
if ((!force && allowCluster) || force) {
|
|
var children = [];
|
|
var childrenIds = {};
|
|
// we loop over all edges INITIALLY connected to this hub to get a list of the childNodes
|
|
for (j = 0; j < amountOfInitialEdges; j++) {
|
|
edge = this.edges[edgesIdarray[j]];
|
|
var childNode = this.nodes[(edge.fromId == hubNode.id) ? edge.toId : edge.fromId];
|
|
if (childrenIds[childNode.id] === undefined) {
|
|
childrenIds[childNode.id] = true;
|
|
children.push(childNode);
|
|
}
|
|
}
|
|
|
|
for (j = 0; j < children.length; j++) {
|
|
var childNode = children[j];
|
|
// we do not want hubs to merge with other hubs nor do we want to cluster itself.
|
|
if ((childNode.dynamicEdges.length <= (this.hubThreshold + absorptionSizeOffset)) &&
|
|
(childNode.id != hubNode.id)) {
|
|
this._addToCluster(hubNode,childNode,force);
|
|
}
|
|
}
|
|
}
|
|
}
|
|
};
|
|
|
|
|
|
|
|
/**
|
|
* This function adds the child node to the parent node, creating a cluster if it is not already.
|
|
*
|
|
* @param {Node} parentNode | this is the node that will house the child node
|
|
* @param {Node} childNode | this node will be deleted from the global this.nodes and stored in the parent node
|
|
* @param {Boolean} force | true will only update the remainingEdges at the very end of the clustering, ensuring single level collapse
|
|
* @private
|
|
*/
|
|
exports._addToCluster = function(parentNode, childNode, force) {
|
|
// join child node in the parent node
|
|
parentNode.containedNodes[childNode.id] = childNode;
|
|
//console.log(parentNode.id, childNode.id)
|
|
// manage all the edges connected to the child and parent nodes
|
|
for (var i = 0; i < childNode.dynamicEdges.length; i++) {
|
|
var edge = childNode.dynamicEdges[i];
|
|
if (edge.toId == parentNode.id || edge.fromId == parentNode.id) { // edge connected to parentNode
|
|
//console.log("COLLECT",parentNode.id, childNode.id, edge.toId, edge.fromId)
|
|
this._addToContainedEdges(parentNode,childNode,edge);
|
|
}
|
|
else {
|
|
//console.log("REWIRE",parentNode.id, childNode.id, edge.toId, edge.fromId)
|
|
this._connectEdgeToCluster(parentNode,childNode,edge);
|
|
}
|
|
}
|
|
// a contained node has no dynamic edges.
|
|
childNode.dynamicEdges = [];
|
|
|
|
// remove circular edges from clusters
|
|
this._containCircularEdgesFromNode(parentNode,childNode);
|
|
|
|
|
|
// remove the childNode from the global nodes object
|
|
delete this.nodes[childNode.id];
|
|
|
|
// update the properties of the child and parent
|
|
var massBefore = parentNode.options.mass;
|
|
childNode.clusterSession = this.clusterSession;
|
|
parentNode.options.mass += childNode.options.mass;
|
|
parentNode.clusterSize += childNode.clusterSize;
|
|
parentNode.options.fontSize = Math.min(this.constants.clustering.maxFontSize, this.constants.nodes.fontSize + this.constants.clustering.fontSizeMultiplier*parentNode.clusterSize);
|
|
|
|
// keep track of the clustersessions so we can open the cluster up as it has been formed.
|
|
if (parentNode.clusterSessions[parentNode.clusterSessions.length - 1] != this.clusterSession) {
|
|
parentNode.clusterSessions.push(this.clusterSession);
|
|
}
|
|
|
|
// forced clusters only open from screen size and double tap
|
|
if (force == true) {
|
|
parentNode.formationScale = 0;
|
|
}
|
|
else {
|
|
parentNode.formationScale = this.scale; // The latest child has been added on this scale
|
|
}
|
|
|
|
// recalculate the size of the node on the next time the node is rendered
|
|
parentNode.clearSizeCache();
|
|
|
|
// set the pop-out scale for the childnode
|
|
parentNode.containedNodes[childNode.id].formationScale = parentNode.formationScale;
|
|
|
|
// nullify the movement velocity of the child, this is to avoid hectic behaviour
|
|
childNode.clearVelocity();
|
|
|
|
// the mass has altered, preservation of energy dictates the velocity to be updated
|
|
parentNode.updateVelocity(massBefore);
|
|
|
|
// restart the simulation to reorganise all nodes
|
|
this.moving = true;
|
|
};
|
|
|
|
|
|
/**
|
|
* This function will apply the changes made to the remainingEdges during the formation of the clusters.
|
|
* This is a seperate function to allow for level-wise collapsing of the node barnesHutTree.
|
|
* It has to be called if a level is collapsed. It is called by _formClusters().
|
|
* @private
|
|
*/
|
|
exports._updateDynamicEdges = function() {
|
|
for (var i = 0; i < this.nodeIndices.length; i++) {
|
|
var node = this.nodes[this.nodeIndices[i]];
|
|
node.dynamicEdgesLength = node.dynamicEdges.length;
|
|
|
|
// this corrects for multiple edges pointing at the same other node
|
|
var correction = 0;
|
|
if (node.dynamicEdgesLength > 1) {
|
|
for (var j = 0; j < node.dynamicEdgesLength - 1; j++) {
|
|
var edgeToId = node.dynamicEdges[j].toId;
|
|
var edgeFromId = node.dynamicEdges[j].fromId;
|
|
for (var k = j+1; k < node.dynamicEdgesLength; k++) {
|
|
if ((node.dynamicEdges[k].toId == edgeToId && node.dynamicEdges[k].fromId == edgeFromId) ||
|
|
(node.dynamicEdges[k].fromId == edgeToId && node.dynamicEdges[k].toId == edgeFromId)) {
|
|
correction += 1;
|
|
}
|
|
}
|
|
}
|
|
}
|
|
if (node.dynamicEdgesLength < correction) {
|
|
console.error("overshoot", node.dynamicEdgesLength, correction)
|
|
}
|
|
|
|
node.dynamicEdgesLength -= correction;
|
|
}
|
|
};
|
|
|
|
|
|
/**
|
|
* This adds an edge from the childNode to the contained edges of the parent node
|
|
*
|
|
* @param parentNode | Node object
|
|
* @param childNode | Node object
|
|
* @param edge | Edge object
|
|
* @private
|
|
*/
|
|
exports._addToContainedEdges = function(parentNode, childNode, edge) {
|
|
// create an array object if it does not yet exist for this childNode
|
|
if (!(parentNode.containedEdges.hasOwnProperty(childNode.id))) {
|
|
parentNode.containedEdges[childNode.id] = []
|
|
}
|
|
// add this edge to the list
|
|
parentNode.containedEdges[childNode.id].push(edge);
|
|
|
|
// remove the edge from the global edges object
|
|
delete this.edges[edge.id];
|
|
|
|
// remove the edge from the parent object
|
|
for (var i = 0; i < parentNode.dynamicEdges.length; i++) {
|
|
if (parentNode.dynamicEdges[i].id == edge.id) {
|
|
parentNode.dynamicEdges.splice(i,1);
|
|
break;
|
|
}
|
|
}
|
|
};
|
|
|
|
/**
|
|
* This function connects an edge that was connected to a child node to the parent node.
|
|
* It keeps track of which nodes it has been connected to with the originalId array.
|
|
*
|
|
* @param {Node} parentNode | Node object
|
|
* @param {Node} childNode | Node object
|
|
* @param {Edge} edge | Edge object
|
|
* @private
|
|
*/
|
|
exports._connectEdgeToCluster = function(parentNode, childNode, edge) {
|
|
// handle circular edges
|
|
if (edge.toId == edge.fromId) {
|
|
this._addToContainedEdges(parentNode, childNode, edge);
|
|
}
|
|
else {
|
|
if (edge.toId == childNode.id) { // edge connected to other node on the "to" side
|
|
edge.originalToId.push(childNode.id);
|
|
edge.to = parentNode;
|
|
edge.toId = parentNode.id;
|
|
}
|
|
else { // edge connected to other node with the "from" side
|
|
|
|
edge.originalFromId.push(childNode.id);
|
|
edge.from = parentNode;
|
|
edge.fromId = parentNode.id;
|
|
}
|
|
|
|
this._addToReroutedEdges(parentNode,childNode,edge);
|
|
}
|
|
};
|
|
|
|
|
|
/**
|
|
* If a node is connected to itself, a circular edge is drawn. When clustering we want to contain
|
|
* these edges inside of the cluster.
|
|
*
|
|
* @param parentNode
|
|
* @param childNode
|
|
* @private
|
|
*/
|
|
exports._containCircularEdgesFromNode = function(parentNode, childNode) {
|
|
// manage all the edges connected to the child and parent nodes
|
|
for (var i = 0; i < parentNode.dynamicEdges.length; i++) {
|
|
var edge = parentNode.dynamicEdges[i];
|
|
// handle circular edges
|
|
if (edge.toId == edge.fromId) {
|
|
this._addToContainedEdges(parentNode, childNode, edge);
|
|
}
|
|
}
|
|
};
|
|
|
|
|
|
/**
|
|
* This adds an edge from the childNode to the rerouted edges of the parent node
|
|
*
|
|
* @param parentNode | Node object
|
|
* @param childNode | Node object
|
|
* @param edge | Edge object
|
|
* @private
|
|
*/
|
|
exports._addToReroutedEdges = function(parentNode, childNode, edge) {
|
|
// create an array object if it does not yet exist for this childNode
|
|
// we store the edge in the rerouted edges so we can restore it when the cluster pops open
|
|
if (!(parentNode.reroutedEdges.hasOwnProperty(childNode.id))) {
|
|
parentNode.reroutedEdges[childNode.id] = [];
|
|
}
|
|
parentNode.reroutedEdges[childNode.id].push(edge);
|
|
|
|
// this edge becomes part of the dynamicEdges of the cluster node
|
|
parentNode.dynamicEdges.push(edge);
|
|
};
|
|
|
|
|
|
|
|
/**
|
|
* This function connects an edge that was connected to a cluster node back to the child node.
|
|
*
|
|
* @param parentNode | Node object
|
|
* @param childNode | Node object
|
|
* @private
|
|
*/
|
|
exports._connectEdgeBackToChild = function(parentNode, childNode) {
|
|
if (parentNode.reroutedEdges.hasOwnProperty(childNode.id)) {
|
|
for (var i = 0; i < parentNode.reroutedEdges[childNode.id].length; i++) {
|
|
var edge = parentNode.reroutedEdges[childNode.id][i];
|
|
if (edge.originalFromId[edge.originalFromId.length-1] == childNode.id) {
|
|
edge.originalFromId.pop();
|
|
edge.fromId = childNode.id;
|
|
edge.from = childNode;
|
|
}
|
|
else {
|
|
edge.originalToId.pop();
|
|
edge.toId = childNode.id;
|
|
edge.to = childNode;
|
|
}
|
|
|
|
// append this edge to the list of edges connecting to the childnode
|
|
childNode.dynamicEdges.push(edge);
|
|
|
|
// remove the edge from the parent object
|
|
for (var j = 0; j < parentNode.dynamicEdges.length; j++) {
|
|
if (parentNode.dynamicEdges[j].id == edge.id) {
|
|
parentNode.dynamicEdges.splice(j,1);
|
|
break;
|
|
}
|
|
}
|
|
}
|
|
// remove the entry from the rerouted edges
|
|
delete parentNode.reroutedEdges[childNode.id];
|
|
}
|
|
};
|
|
|
|
|
|
/**
|
|
* When loops are clustered, an edge can be both in the rerouted array and the contained array.
|
|
* This function is called last to verify that all edges in dynamicEdges are in fact connected to the
|
|
* parentNode
|
|
*
|
|
* @param parentNode | Node object
|
|
* @private
|
|
*/
|
|
exports._validateEdges = function(parentNode) {
|
|
var dynamicEdges = []
|
|
for (var i = 0; i < parentNode.dynamicEdges.length; i++) {
|
|
var edge = parentNode.dynamicEdges[i];
|
|
if (parentNode.id == edge.toId || parentNode.id == edge.fromId) {
|
|
dynamicEdges.push(edge);
|
|
}
|
|
}
|
|
parentNode.dynamicEdges = dynamicEdges;
|
|
};
|
|
|
|
|
|
/**
|
|
* This function released the contained edges back into the global domain and puts them back into the
|
|
* dynamic edges of both parent and child.
|
|
*
|
|
* @param {Node} parentNode |
|
|
* @param {Node} childNode |
|
|
* @private
|
|
*/
|
|
exports._releaseContainedEdges = function(parentNode, childNode) {
|
|
for (var i = 0; i < parentNode.containedEdges[childNode.id].length; i++) {
|
|
var edge = parentNode.containedEdges[childNode.id][i];
|
|
|
|
// put the edge back in the global edges object
|
|
this.edges[edge.id] = edge;
|
|
|
|
// put the edge back in the dynamic edges of the child and parent
|
|
childNode.dynamicEdges.push(edge);
|
|
parentNode.dynamicEdges.push(edge);
|
|
}
|
|
// remove the entry from the contained edges
|
|
delete parentNode.containedEdges[childNode.id];
|
|
|
|
};
|
|
|
|
|
|
|
|
|
|
// ------------------- UTILITY FUNCTIONS ---------------------------- //
|
|
|
|
|
|
/**
|
|
* This updates the node labels for all nodes (for debugging purposes)
|
|
*/
|
|
exports.updateLabels = function() {
|
|
var nodeId;
|
|
// update node labels
|
|
for (nodeId in this.nodes) {
|
|
if (this.nodes.hasOwnProperty(nodeId)) {
|
|
var node = this.nodes[nodeId];
|
|
if (node.clusterSize > 1) {
|
|
node.label = "[".concat(String(node.clusterSize),"]");
|
|
}
|
|
}
|
|
}
|
|
|
|
// update node labels
|
|
for (nodeId in this.nodes) {
|
|
if (this.nodes.hasOwnProperty(nodeId)) {
|
|
node = this.nodes[nodeId];
|
|
if (node.clusterSize == 1) {
|
|
if (node.originalLabel !== undefined) {
|
|
node.label = node.originalLabel;
|
|
}
|
|
else {
|
|
node.label = String(node.id);
|
|
}
|
|
}
|
|
}
|
|
}
|
|
|
|
// /* Debug Override */
|
|
// for (nodeId in this.nodes) {
|
|
// if (this.nodes.hasOwnProperty(nodeId)) {
|
|
// node = this.nodes[nodeId];
|
|
// node.label = String(node.level);
|
|
// }
|
|
// }
|
|
|
|
};
|
|
|
|
|
|
/**
|
|
* We want to keep the cluster level distribution rather small. This means we do not want unclustered nodes
|
|
* if the rest of the nodes are already a few cluster levels in.
|
|
* To fix this we use this function. It determines the min and max cluster level and sends nodes that have not
|
|
* clustered enough to the clusterToSmallestNeighbours function.
|
|
*/
|
|
exports.normalizeClusterLevels = function() {
|
|
var maxLevel = 0;
|
|
var minLevel = 1e9;
|
|
var clusterLevel = 0;
|
|
var nodeId;
|
|
|
|
// we loop over all nodes in the list
|
|
for (nodeId in this.nodes) {
|
|
if (this.nodes.hasOwnProperty(nodeId)) {
|
|
clusterLevel = this.nodes[nodeId].clusterSessions.length;
|
|
if (maxLevel < clusterLevel) {maxLevel = clusterLevel;}
|
|
if (minLevel > clusterLevel) {minLevel = clusterLevel;}
|
|
}
|
|
}
|
|
|
|
if (maxLevel - minLevel > this.constants.clustering.clusterLevelDifference) {
|
|
var amountOfNodes = this.nodeIndices.length;
|
|
var targetLevel = maxLevel - this.constants.clustering.clusterLevelDifference;
|
|
// we loop over all nodes in the list
|
|
for (nodeId in this.nodes) {
|
|
if (this.nodes.hasOwnProperty(nodeId)) {
|
|
if (this.nodes[nodeId].clusterSessions.length < targetLevel) {
|
|
this._clusterToSmallestNeighbour(this.nodes[nodeId]);
|
|
}
|
|
}
|
|
}
|
|
this._updateNodeIndexList();
|
|
this._updateDynamicEdges();
|
|
// if a cluster was formed, we increase the clusterSession
|
|
if (this.nodeIndices.length != amountOfNodes) {
|
|
this.clusterSession += 1;
|
|
}
|
|
}
|
|
};
|
|
|
|
|
|
|
|
/**
|
|
* This function determines if the cluster we want to decluster is in the active area
|
|
* this means around the zoom center
|
|
*
|
|
* @param {Node} node
|
|
* @returns {boolean}
|
|
* @private
|
|
*/
|
|
exports._nodeInActiveArea = function(node) {
|
|
return (
|
|
Math.abs(node.x - this.areaCenter.x) <= this.constants.clustering.activeAreaBoxSize/this.scale
|
|
&&
|
|
Math.abs(node.y - this.areaCenter.y) <= this.constants.clustering.activeAreaBoxSize/this.scale
|
|
)
|
|
};
|
|
|
|
|
|
/**
|
|
* This is an adaptation of the original repositioning function. This is called if the system is clustered initially
|
|
* It puts large clusters away from the center and randomizes the order.
|
|
*
|
|
*/
|
|
exports.repositionNodes = function() {
|
|
for (var i = 0; i < this.nodeIndices.length; i++) {
|
|
var node = this.nodes[this.nodeIndices[i]];
|
|
if ((node.xFixed == false || node.yFixed == false)) {
|
|
var radius = 10 * 0.1*this.nodeIndices.length * Math.min(100,node.options.mass);
|
|
var angle = 2 * Math.PI * Math.random();
|
|
if (node.xFixed == false) {node.x = radius * Math.cos(angle);}
|
|
if (node.yFixed == false) {node.y = radius * Math.sin(angle);}
|
|
this._repositionBezierNodes(node);
|
|
}
|
|
}
|
|
};
|
|
|
|
|
|
/**
|
|
* We determine how many connections denote an important hub.
|
|
* We take the mean + 2*std as the important hub size. (Assuming a normal distribution of data, ~2.2%)
|
|
*
|
|
* @private
|
|
*/
|
|
exports._getHubSize = function() {
|
|
var average = 0;
|
|
var averageSquared = 0;
|
|
var hubCounter = 0;
|
|
var largestHub = 0;
|
|
|
|
for (var i = 0; i < this.nodeIndices.length; i++) {
|
|
|
|
var node = this.nodes[this.nodeIndices[i]];
|
|
if (node.dynamicEdgesLength > largestHub) {
|
|
largestHub = node.dynamicEdgesLength;
|
|
}
|
|
average += node.dynamicEdgesLength;
|
|
averageSquared += Math.pow(node.dynamicEdgesLength,2);
|
|
hubCounter += 1;
|
|
}
|
|
average = average / hubCounter;
|
|
averageSquared = averageSquared / hubCounter;
|
|
|
|
var variance = averageSquared - Math.pow(average,2);
|
|
|
|
var standardDeviation = Math.sqrt(variance);
|
|
|
|
this.hubThreshold = Math.floor(average + 2*standardDeviation);
|
|
|
|
// always have at least one to cluster
|
|
if (this.hubThreshold > largestHub) {
|
|
this.hubThreshold = largestHub;
|
|
}
|
|
|
|
// console.log("average",average,"averageSQ",averageSquared,"var",variance,"std",standardDeviation);
|
|
// console.log("hubThreshold:",this.hubThreshold);
|
|
};
|
|
|
|
|
|
/**
|
|
* We reduce the amount of "extension nodes" or chains. These are not quickly clustered with the outliers and hubs methods
|
|
* with this amount we can cluster specifically on these chains.
|
|
*
|
|
* @param {Number} fraction | between 0 and 1, the percentage of chains to reduce
|
|
* @private
|
|
*/
|
|
exports._reduceAmountOfChains = function(fraction) {
|
|
this.hubThreshold = 2;
|
|
var reduceAmount = Math.floor(this.nodeIndices.length * fraction);
|
|
for (var nodeId in this.nodes) {
|
|
if (this.nodes.hasOwnProperty(nodeId)) {
|
|
if (this.nodes[nodeId].dynamicEdgesLength == 2 && this.nodes[nodeId].dynamicEdges.length >= 2) {
|
|
if (reduceAmount > 0) {
|
|
this._formClusterFromHub(this.nodes[nodeId],true,true,1);
|
|
reduceAmount -= 1;
|
|
}
|
|
}
|
|
}
|
|
}
|
|
};
|
|
|
|
/**
|
|
* We get the amount of "extension nodes" or chains. These are not quickly clustered with the outliers and hubs methods
|
|
* with this amount we can cluster specifically on these chains.
|
|
*
|
|
* @private
|
|
*/
|
|
exports._getChainFraction = function() {
|
|
var chains = 0;
|
|
var total = 0;
|
|
for (var nodeId in this.nodes) {
|
|
if (this.nodes.hasOwnProperty(nodeId)) {
|
|
if (this.nodes[nodeId].dynamicEdgesLength == 2 && this.nodes[nodeId].dynamicEdges.length >= 2) {
|
|
chains += 1;
|
|
}
|
|
total += 1;
|
|
}
|
|
}
|
|
return chains/total;
|
|
};
|