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700 lines
23 KiB
700 lines
23 KiB
let util = require("../../util");
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import Cluster from './components/nodes/Cluster'
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class ClusterEngine {
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constructor(body) {
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this.body = body;
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this.clusteredNodes = {};
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this.options = {};
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this.defaultOptions = {};
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util.extend(this.options, this.defaultOptions);
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this.body.emitter.on('_resetData', () => {this.clusteredNodes = {};})
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}
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setOptions(options) {
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if (options !== undefined) {
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}
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}
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/**
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*
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* @param hubsize
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* @param options
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*/
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clusterByHubsize(hubsize, options) {
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if (hubsize === undefined) {
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hubsize = this._getHubSize();
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}
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else if (typeof(hubsize) === "object") {
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options = this._checkOptions(hubsize);
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hubsize = this._getHubSize();
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}
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let nodesToCluster = [];
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for (let i = 0; i < this.body.nodeIndices.length; i++) {
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let node = this.body.nodes[this.body.nodeIndices[i]];
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if (node.edges.length >= hubsize) {
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nodesToCluster.push(node.id);
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}
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}
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for (let i = 0; i < nodesToCluster.length; i++) {
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this.clusterByConnection(nodesToCluster[i],options,false);
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}
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this.body.emitter.emit('_dataChanged');
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}
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/**
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* loop over all nodes, check if they adhere to the condition and cluster if needed.
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* @param options
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* @param refreshData
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*/
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cluster(options = {}, refreshData = true) {
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if (options.joinCondition === undefined) {throw new Error("Cannot call clusterByNodeData without a joinCondition function in the options.");}
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// check if the options object is fine, append if needed
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options = this._checkOptions(options);
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let childNodesObj = {};
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let childEdgesObj = {};
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// collect the nodes that will be in the cluster
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for (let i = 0; i < this.body.nodeIndices.length; i++) {
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let nodeId = this.body.nodeIndices[i];
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let node = this.body.nodes[nodeId];
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let clonedOptions = this._cloneOptions(node);
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if (options.joinCondition(clonedOptions) === true) {
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childNodesObj[nodeId] = this.body.nodes[nodeId];
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// collect the nodes that will be in the cluster
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for (let i = 0; i < node.edges.length; i++) {
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let edge = node.edges[i];
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childEdgesObj[edge.id] = edge;
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}
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}
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}
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this._cluster(childNodesObj, childEdgesObj, options, refreshData);
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}
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/**
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* Cluster all nodes in the network that have only 1 edge
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* @param options
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* @param refreshData
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*/
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clusterOutliers(options, refreshData = true) {
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options = this._checkOptions(options);
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let clusters = [];
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// collect the nodes that will be in the cluster
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for (let i = 0; i < this.body.nodeIndices.length; i++) {
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let childNodesObj = {};
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let childEdgesObj = {};
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let nodeId = this.body.nodeIndices[i];
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let visibleEdges = 0;
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let edge;
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for (let j = 0; j < this.body.nodes[nodeId].edges.length; j++) {
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if (this.body.nodes[nodeId].edges[j].options.hidden === false) {
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visibleEdges++;
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edge = this.body.nodes[nodeId].edges[j];
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}
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}
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if (visibleEdges === 1) {
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// this is an outlier
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let childNodeId = this._getConnectedId(edge, nodeId);
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if (childNodeId !== nodeId) {
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if (options.joinCondition === undefined) {
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if (this._checkIfUsed(clusters,nodeId,edge.id) === false && this._checkIfUsed(clusters,childNodeId,edge.id) === false) {
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childEdgesObj[edge.id] = edge;
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childNodesObj[nodeId] = this.body.nodes[nodeId];
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childNodesObj[childNodeId] = this.body.nodes[childNodeId];
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}
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}
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else {
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let clonedOptions = this._cloneOptions(this.body.nodes[nodeId]);
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if (options.joinCondition(clonedOptions) === true && this._checkIfUsed(clusters,nodeId,edge.id) === false) {
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childEdgesObj[edge.id] = edge;
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childNodesObj[nodeId] = this.body.nodes[nodeId];
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}
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clonedOptions = this._cloneOptions(this.body.nodes[childNodeId]);
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if (options.joinCondition(clonedOptions) === true && this._checkIfUsed(clusters,nodeId,edge.id) === false) {
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childEdgesObj[edge.id] = edge;
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childNodesObj[childNodeId] = this.body.nodes[childNodeId];
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}
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}
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if (Object.keys(childNodesObj).length > 0 && Object.keys(childEdgesObj).length > 0) {
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clusters.push({nodes: childNodesObj, edges: childEdgesObj})
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}
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}
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}
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}
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for (let i = 0; i < clusters.length; i++) {
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this._cluster(clusters[i].nodes, clusters[i].edges, options, false)
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}
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if (refreshData === true) {
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this.body.emitter.emit('_dataChanged');
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}
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}
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_checkIfUsed(clusters, nodeId, edgeId) {
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for (let i = 0; i < clusters.length; i++) {
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let cluster = clusters[i];
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if (cluster.nodes[nodeId] !== undefined || cluster.edges[edgeId] !== undefined) {
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return true;
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}
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}
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return false;
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}
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/**
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* suck all connected nodes of a node into the node.
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* @param nodeId
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* @param options
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* @param refreshData
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*/
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clusterByConnection(nodeId, options, refreshData = true) {
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// kill conditions
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if (nodeId === undefined) {throw new Error("No nodeId supplied to clusterByConnection!");}
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if (this.body.nodes[nodeId] === undefined) {throw new Error("The nodeId given to clusterByConnection does not exist!");}
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let node = this.body.nodes[nodeId];
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options = this._checkOptions(options, node);
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if (options.clusterNodeProperties.x === undefined) {options.clusterNodeProperties.x = node.x;}
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if (options.clusterNodeProperties.y === undefined) {options.clusterNodeProperties.y = node.y;}
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if (options.clusterNodeProperties.fixed === undefined) {
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options.clusterNodeProperties.fixed = {};
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options.clusterNodeProperties.fixed.x = node.options.fixed.x;
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options.clusterNodeProperties.fixed.y = node.options.fixed.y;
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}
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let childNodesObj = {};
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let childEdgesObj = {};
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let parentNodeId = node.id;
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let parentClonedOptions = this._cloneOptions(node);
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childNodesObj[parentNodeId] = node;
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// collect the nodes that will be in the cluster
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for (let i = 0; i < node.edges.length; i++) {
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let edge = node.edges[i];
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let childNodeId = this._getConnectedId(edge, parentNodeId);
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if (childNodeId !== parentNodeId) {
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if (options.joinCondition === undefined) {
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childEdgesObj[edge.id] = edge;
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childNodesObj[childNodeId] = this.body.nodes[childNodeId];
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}
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else {
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// clone the options and insert some additional parameters that could be interesting.
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let childClonedOptions = this._cloneOptions(this.body.nodes[childNodeId]);
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if (options.joinCondition(parentClonedOptions, childClonedOptions) === true) {
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childEdgesObj[edge.id] = edge;
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childNodesObj[childNodeId] = this.body.nodes[childNodeId];
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}
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}
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}
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else {
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childEdgesObj[edge.id] = edge;
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}
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}
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this._cluster(childNodesObj, childEdgesObj, options, refreshData);
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}
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/**
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* This returns a clone of the options or options of the edge or node to be used for construction of new edges or check functions for new nodes.
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* @param objId
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* @param type
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* @returns {{}}
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* @private
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*/
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_cloneOptions(item, type) {
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let clonedOptions = {};
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if (type === undefined || type === 'node') {
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util.deepExtend(clonedOptions, item.options, true);
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clonedOptions.x = item.x;
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clonedOptions.y = item.y;
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clonedOptions.amountOfConnections = item.edges.length;
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}
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else {
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util.deepExtend(clonedOptions, item.options, true);
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}
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return clonedOptions;
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}
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/**
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* This function creates the edges that will be attached to the cluster.
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*
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* @param childNodesObj
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* @param childEdgesObj
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* @param newEdges
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* @param options
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* @private
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*/
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_createClusterEdges (childNodesObj, childEdgesObj, newEdges, clusterNodeProperties, clusterEdgeProperties) {
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let edge, childNodeId, childNode, toId, fromId, otherNodeId;
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let childKeys = Object.keys(childNodesObj);
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for (let i = 0; i < childKeys.length; i++) {
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childNodeId = childKeys[i];
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childNode = childNodesObj[childNodeId];
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// construct new edges from the cluster to others
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for (let j = 0; j < childNode.edges.length; j++) {
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edge = childNode.edges[j];
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childEdgesObj[edge.id] = edge;
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// childNodeId position will be replaced by the cluster.
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if (edge.toId == childNodeId) { // this is a double equals because ints and strings can be interchanged here.
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toId = clusterNodeProperties.id;
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fromId = edge.fromId;
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otherNodeId = fromId;
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}
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else {
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toId = edge.toId;
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fromId = clusterNodeProperties.id;
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otherNodeId = toId;
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}
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// if the node connected to the cluster is also in the cluster we do not need a new edge.
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if (childNodesObj[otherNodeId] === undefined) {
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let clonedOptions = this._cloneOptions(edge, 'edge');
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util.deepExtend(clonedOptions, clusterEdgeProperties);
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clonedOptions.from = fromId;
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clonedOptions.to = toId;
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clonedOptions.id = 'clusterEdge:' + util.randomUUID();
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newEdges.push(this.body.functions.createEdge(clonedOptions));
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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 checks the options that can be supplied to the different cluster functions
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* for certain fields and inserts defaults if needed
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* @param options
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* @returns {*}
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* @private
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*/
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_checkOptions(options = {}) {
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if (options.clusterEdgeProperties === undefined) {options.clusterEdgeProperties = {};}
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if (options.clusterNodeProperties === undefined) {options.clusterNodeProperties = {};}
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return options;
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}
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/**
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*
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* @param {Object} childNodesObj | object with node objects, id as keys, same as childNodes except it also contains a source node
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* @param {Object} childEdgesObj | object with edge objects, id as keys
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* @param {Array} options | object with {clusterNodeProperties, clusterEdgeProperties, processProperties}
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* @param {Boolean} refreshData | when true, do not wrap up
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* @private
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*/
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_cluster(childNodesObj, childEdgesObj, options, refreshData = true) {
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// kill condition: no children so cant cluster
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if (Object.keys(childNodesObj).length === 0) {return;}
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let clusterNodeProperties = util.deepExtend({},options.clusterNodeProperties);
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// construct the clusterNodeProperties
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if (options.processProperties !== undefined) {
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// get the childNode options
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let childNodesOptions = [];
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for (let nodeId in childNodesObj) {
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let clonedOptions = this._cloneOptions(childNodesObj[nodeId]);
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childNodesOptions.push(clonedOptions);
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}
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// get clusterproperties based on childNodes
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let childEdgesOptions = [];
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for (let edgeId in childEdgesObj) {
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// these cluster edges will be removed on creation of the cluster.
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if (edgeId.substr(0,12) !== "clusterEdge:") {
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let clonedOptions = this._cloneOptions(childEdgesObj[edgeId], 'edge');
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childEdgesOptions.push(clonedOptions);
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}
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}
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clusterNodeProperties = options.processProperties(clusterNodeProperties, childNodesOptions, childEdgesOptions);
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if (!clusterNodeProperties) {
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throw new Error("The processProperties function does not return properties!");
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}
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}
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// check if we have an unique id;
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if (clusterNodeProperties.id === undefined) {clusterNodeProperties.id = 'cluster:' + util.randomUUID();}
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let clusterId = clusterNodeProperties.id;
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if (clusterNodeProperties.label === undefined) {
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clusterNodeProperties.label = 'cluster';
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}
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// give the clusterNode a postion if it does not have one.
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let pos = undefined;
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if (clusterNodeProperties.x === undefined) {
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pos = this._getClusterPosition(childNodesObj);
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clusterNodeProperties.x = pos.x;
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}
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if (clusterNodeProperties.y === undefined) {
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if (pos === undefined) {
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pos = this._getClusterPosition(childNodesObj);
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}
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clusterNodeProperties.y = pos.y;
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}
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// force the ID to remain the same
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clusterNodeProperties.id = clusterId;
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// create the clusterNode
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let clusterNode = this.body.functions.createNode(clusterNodeProperties, Cluster);
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clusterNode.isCluster = true;
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clusterNode.containedNodes = childNodesObj;
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clusterNode.containedEdges = childEdgesObj;
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// cache a copy from the cluster edge properties if we have to reconnect others later on
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clusterNode.clusterEdgeProperties = options.clusterEdgeProperties;
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// finally put the cluster node into global
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this.body.nodes[clusterNodeProperties.id] = clusterNode;
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// create the new edges that will connect to the cluster
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let newEdges = [];
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this._createClusterEdges(childNodesObj, childEdgesObj, newEdges, clusterNodeProperties, options.clusterEdgeProperties);
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// disable the childEdges
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for (let edgeId in childEdgesObj) {
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if (childEdgesObj.hasOwnProperty(edgeId)) {
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if (this.body.edges[edgeId] !== undefined) {
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let edge = this.body.edges[edgeId];
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// if the edge is a clusterEdge, we delete it. The opening of the clusters will restore these edges when required.
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if (edgeId.substr(0,12) === "clusterEdge:") {
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edge.edgeType.cleanup();
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// this removes the edge from node.edges, which is why edgeIds is formed
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edge.disconnect();
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delete childEdgesObj[edgeId];
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delete this.body.edges[edgeId];
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}
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else {
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edge.togglePhysics(false);
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edge.options.hidden = true;
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}
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}
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}
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}
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// disable the childNodes
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for (let nodeId in childNodesObj) {
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if (childNodesObj.hasOwnProperty(nodeId)) {
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this.clusteredNodes[nodeId] = {clusterId:clusterNodeProperties.id, node: this.body.nodes[nodeId]};
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this.body.nodes[nodeId].togglePhysics(false);
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this.body.nodes[nodeId].options.hidden = true;
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}
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}
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// push new edges to global
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for (let i = 0; i < newEdges.length; i++) {
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this.body.edges[newEdges[i].id] = newEdges[i];
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this.body.edges[newEdges[i].id].connect();
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}
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// set ID to undefined so no duplicates arise
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clusterNodeProperties.id = undefined;
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// wrap up
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if (refreshData === true) {
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this.body.emitter.emit('_dataChanged');
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}
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}
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/**
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* Check if a node is a cluster.
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* @param nodeId
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* @returns {*}
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*/
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isCluster(nodeId) {
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if (this.body.nodes[nodeId] !== undefined) {
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return this.body.nodes[nodeId].isCluster === true;
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}
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else {
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console.log("Node does not exist.");
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return false;
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}
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}
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/**
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* get the position of the cluster node based on what's inside
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* @param {object} childNodesObj | object with node objects, id as keys
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* @returns {{x: number, y: number}}
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* @private
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*/
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_getClusterPosition(childNodesObj) {
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let childKeys = Object.keys(childNodesObj);
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let minX = childNodesObj[childKeys[0]].x;
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let maxX = childNodesObj[childKeys[0]].x;
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let minY = childNodesObj[childKeys[0]].y;
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let maxY = childNodesObj[childKeys[0]].y;
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let node;
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for (let i = 1; i < childKeys.length; i++) {
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node = childNodesObj[childKeys[i]];
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minX = node.x < minX ? node.x : minX;
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maxX = node.x > maxX ? node.x : maxX;
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minY = node.y < minY ? node.y : minY;
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maxY = node.y > maxY ? node.y : maxY;
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}
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return {x: 0.5*(minX + maxX), y: 0.5*(minY + maxY)};
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}
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/**
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* Open a cluster by calling this function.
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* @param {String} clusterNodeId | the ID of the cluster node
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* @param {Boolean} refreshData | wrap up afterwards if not true
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*/
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openCluster(clusterNodeId, options, refreshData = true) {
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// kill conditions
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if (clusterNodeId === undefined) {throw new Error("No clusterNodeId supplied to openCluster.");}
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if (this.body.nodes[clusterNodeId] === undefined) {throw new Error("The clusterNodeId supplied to openCluster does not exist.");}
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if (this.body.nodes[clusterNodeId].containedNodes === undefined) {
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console.log("The node:" + clusterNodeId + " is not a cluster.");
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return
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}
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let clusterNode = this.body.nodes[clusterNodeId];
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let containedNodes = clusterNode.containedNodes;
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let containedEdges = clusterNode.containedEdges;
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// allow the user to position the nodes after release.
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if (options !== undefined && options.releaseFunction !== undefined && typeof options.releaseFunction === 'function') {
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let positions = {};
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let clusterPosition = {x:clusterNode.x, y:clusterNode.y};
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for (let nodeId in containedNodes) {
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if (containedNodes.hasOwnProperty(nodeId)) {
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let containedNode = this.body.nodes[nodeId];
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positions[nodeId] = {x: containedNode.x, y: containedNode.y};
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}
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}
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let newPositions = options.releaseFunction(clusterPosition, positions);
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for (let nodeId in containedNodes) {
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if (containedNodes.hasOwnProperty(nodeId)) {
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let containedNode = this.body.nodes[nodeId];
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if (newPositions[nodeId] !== undefined) {
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containedNode.x = newPositions[nodeId].x || clusterNode.x;
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containedNode.y = newPositions[nodeId].y || clusterNode.y;
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}
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}
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}
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}
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else {
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// copy the position from the cluster
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for (let nodeId in containedNodes) {
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if (containedNodes.hasOwnProperty(nodeId)) {
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let containedNode = this.body.nodes[nodeId];
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containedNode = containedNodes[nodeId];
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// inherit position
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containedNode.x = clusterNode.x;
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containedNode.y = clusterNode.y;
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}
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}
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}
|
|
|
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// release nodes
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|
for (let nodeId in containedNodes) {
|
|
if (containedNodes.hasOwnProperty(nodeId)) {
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let containedNode = this.body.nodes[nodeId];
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|
|
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// inherit speed
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containedNode.vx = clusterNode.vx;
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containedNode.vy = clusterNode.vy;
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|
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containedNode.options.hidden = false;
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|
containedNode.togglePhysics(true);
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|
|
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delete this.clusteredNodes[nodeId];
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|
}
|
|
}
|
|
|
|
// release edges
|
|
for (let edgeId in containedEdges) {
|
|
if (containedEdges.hasOwnProperty(edgeId)) {
|
|
let edge = containedEdges[edgeId];
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|
// if this edge was a temporary edge and it's connected nodes do not exist anymore, we remove it from the data
|
|
if (this.body.nodes[edge.fromId] === undefined || this.body.nodes[edge.toId] === undefined || edge.toId == clusterNodeId || edge.fromId == clusterNodeId) {
|
|
edge.edgeType.cleanup();
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|
// this removes the edge from node.edges, which is why edgeIds is formed
|
|
edge.disconnect();
|
|
delete this.body.edges[edgeId];
|
|
}
|
|
else {
|
|
// one of the nodes connected to this edge is in a cluster. We give the edge to that cluster so it will be released when that cluster is opened.
|
|
if (this.clusteredNodes[edge.fromId] !== undefined || this.clusteredNodes[edge.toId] !== undefined) {
|
|
let fromId, toId;
|
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let clusteredNode = this.clusteredNodes[edge.fromId] || this.clusteredNodes[edge.toId];
|
|
let clusterId = clusteredNode.clusterId;
|
|
let clusterNode = this.body.nodes[clusterId];
|
|
clusterNode.containedEdges[edgeId] = edge;
|
|
|
|
if (this.clusteredNodes[edge.fromId] !== undefined) {
|
|
fromId = clusterId;
|
|
toId = edge.toId;
|
|
}
|
|
else {
|
|
fromId = edge.fromId;
|
|
toId = clusterId;
|
|
}
|
|
|
|
// if both from and to nodes are visible, we create a new temporary edge
|
|
if (this.body.nodes[fromId].options.hidden !== true && this.body.nodes[toId].options.hidden !== true) {
|
|
let clonedOptions = this._cloneOptions(edge, 'edge');
|
|
let id = 'clusterEdge:' + util.randomUUID();
|
|
util.deepExtend(clonedOptions, clusterNode.clusterEdgeProperties);
|
|
util.deepExtend(clonedOptions, {from: fromId, to: toId, hidden: false, physics: true, id: id});
|
|
let newEdge = this.body.functions.createEdge(clonedOptions);
|
|
|
|
this.body.edges[id] = newEdge;
|
|
this.body.edges[id].connect();
|
|
}
|
|
}
|
|
else {
|
|
edge.options.hidden = false;
|
|
edge.togglePhysics(true);
|
|
}
|
|
}
|
|
}
|
|
}
|
|
|
|
// remove all temporary edges, make an array of ids so we don't remove from the list we're iterating over.
|
|
let removeIds = [];
|
|
for (let i = 0; i < clusterNode.edges.length; i++) {
|
|
let edgeId = clusterNode.edges[i].id;
|
|
removeIds.push(edgeId);
|
|
}
|
|
|
|
// actually removing the edges
|
|
for (let i = 0; i < removeIds.length; i++) {
|
|
let edgeId = removeIds[i];
|
|
this.body.edges[edgeId].edgeType.cleanup();
|
|
// this removes the edge from node.edges, which is why edgeIds is formed
|
|
this.body.edges[edgeId].disconnect();
|
|
delete this.body.edges[edgeId];
|
|
}
|
|
|
|
// remove clusterNode
|
|
delete this.body.nodes[clusterNodeId];
|
|
|
|
if (refreshData === true) {
|
|
this.body.emitter.emit('_dataChanged');
|
|
}
|
|
}
|
|
|
|
getNodesInCluster(clusterId) {
|
|
let nodesArray = []
|
|
if (this.isCluster(clusterId) === true) {
|
|
let containedNodes = this.body.nodes[clusterId].containedNodes;
|
|
for (let nodeId in containedNodes) {
|
|
if (containedNodes.hasOwnProperty(nodeId)) {
|
|
nodesArray.push(nodeId)
|
|
}
|
|
}
|
|
}
|
|
|
|
return nodesArray;
|
|
}
|
|
|
|
/**
|
|
* Get the stack clusterId's that a certain node resides in. cluster A -> cluster B -> cluster C -> node
|
|
* @param nodeId
|
|
* @returns {Array}
|
|
* @private
|
|
*/
|
|
findNode(nodeId) {
|
|
let stack = [];
|
|
let max = 100;
|
|
let counter = 0;
|
|
|
|
while (this.clusteredNodes[nodeId] !== undefined && counter < max) {
|
|
stack.push(this.clusteredNodes[nodeId].node);
|
|
nodeId = this.clusteredNodes[nodeId].clusterId;
|
|
counter++;
|
|
}
|
|
stack.push(this.body.nodes[nodeId]);
|
|
return stack;
|
|
}
|
|
|
|
|
|
/**
|
|
* Get the Id the node is connected to
|
|
* @param edge
|
|
* @param nodeId
|
|
* @returns {*}
|
|
* @private
|
|
*/
|
|
_getConnectedId(edge, nodeId) {
|
|
if (edge.toId != nodeId) {
|
|
return edge.toId;
|
|
}
|
|
else if (edge.fromId != nodeId) {
|
|
return edge.fromId;
|
|
}
|
|
else {
|
|
return edge.fromId;
|
|
}
|
|
}
|
|
|
|
/**
|
|
* 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
|
|
*/
|
|
_getHubSize() {
|
|
let average = 0;
|
|
let averageSquared = 0;
|
|
let hubCounter = 0;
|
|
let largestHub = 0;
|
|
|
|
for (let i = 0; i < this.body.nodeIndices.length; i++) {
|
|
let node = this.body.nodes[this.body.nodeIndices[i]];
|
|
if (node.edges.length > largestHub) {
|
|
largestHub = node.edges.length;
|
|
}
|
|
average += node.edges.length;
|
|
averageSquared += Math.pow(node.edges.length,2);
|
|
hubCounter += 1;
|
|
}
|
|
average = average / hubCounter;
|
|
averageSquared = averageSquared / hubCounter;
|
|
|
|
let letiance = averageSquared - Math.pow(average,2);
|
|
let standardDeviation = Math.sqrt(letiance);
|
|
|
|
let hubThreshold = Math.floor(average + 2*standardDeviation);
|
|
|
|
// always have at least one to cluster
|
|
if (hubThreshold > largestHub) {
|
|
hubThreshold = largestHub;
|
|
}
|
|
|
|
return hubThreshold;
|
|
};
|
|
|
|
}
|
|
|
|
|
|
export default ClusterEngine;
|