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1301 lines
41 KiB
1301 lines
41 KiB
/* ===========================================================================
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# TODO
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- `edgeReplacedById` not cleaned up yet on cluster edge removal
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- check correct working for everything for clustered clusters (could use a unit test)
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- Handle recursive unclustering on node removal
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- `updateState()` not complete; scan TODO's there
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----------------------------------------------
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# State Model for Clustering
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The total state for clustering is non-trivial. It is useful to have a model
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available as to how it works. The following documents the relevant state items.
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## Network State
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The following `network`-members are relevant to clustering:
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- `body.nodes` - all nodes actively participating in the network
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- `body.edges` - same for edges
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- `body.nodeIndices` - id's of nodes that are visible at a given moment
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- `body.edgeIndices` - same for edges
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This includes:
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- helper nodes for dragging in `manipulation`
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- helper nodes for edge type `dynamic`
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- cluster nodes and edges
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- there may be more than this.
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A node/edge may be missing in the `Indices` member if:
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- it is a helper node
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- the node or edge state has option `hidden` set
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- It is not visible due to clustering
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## Clustering State
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For the hashes, the id's of the nodes/edges are used as key.
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Member `network.clustering` contains the following items:
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- `clusteredNodes` - hash with values: { clusterId: <id of cluster>, node: <node instance>}
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- `clusteredEdges` - hash with values: restore information for given edge
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Due to nesting of clusters, these members can contain cluster nodes and edges as well.
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The important thing to note here, is that the clustered nodes and edges also
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appear in the members of the cluster nodes. For data update, it is therefore
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important to scan these lists as well as the cluster nodes.
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### Cluster Node
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A cluster node has the following extra fields:
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- `isCluster : true` - indication that this is a cluster node
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- `containedNodes` - hash of nodes contained in this cluster
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- `containedEdges` - same for edges
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- `edges` - hash of cluster edges for this node
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**NOTE:**
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- `containedEdges` can also contain edges which are not clustered; e.g. an edge
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connecting two nodes in the same cluster.
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### Cluster Edge
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These are the items in the `edges` member of a clustered node. They have the
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following relevant members:
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- 'clusteringEdgeReplacingIds` - array of id's of edges replaced by this edge
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Note that it's possible to nest clusters, so that `clusteringEdgeReplacingIds`
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can contain edge id's of other clusters.
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### Clustered Edge
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This is any edge contained by a cluster edge. It gets the following additional
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member:
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- `edgeReplacedById` - id of the cluster edge in which current edge is clustered
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=========================================================================== */
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let util = require("../../util");
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var NetworkUtil = require('../NetworkUtil').default;
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var Cluster = require('./components/nodes/Cluster').default;
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var Edge = require('./components/Edge').default; // Only needed for check on type!
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var Node = require('./components/Node').default; // Only needed for check on type!
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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 = {}; // key: node id, value: { clusterId: <id of cluster>, node: <node instance>}
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this.clusteredEdges = {}; // key: edge id, value: restore information for given edge
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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 = {}; this.clusteredEdges = {};})
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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,true);
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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 nodeId in this.body.nodes) {
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if (!this.body.nodes.hasOwnProperty(nodeId)) continue;
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let node = this.body.nodes[nodeId];
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let clonedOptions = NetworkUtil.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 edges 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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if (this.clusteredEdges[edge.id] === undefined) {
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childEdgesObj[edge.id] = edge;
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}
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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 X edges
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* @param edgeCount
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* @param options
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* @param refreshData
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*/
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clusterByEdgeCount(edgeCount, options, refreshData = true) {
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options = this._checkOptions(options);
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let clusters = [];
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let usedNodes = {};
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let edge, edges, node, nodeId, relevantEdgeCount;
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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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nodeId = this.body.nodeIndices[i];
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// if this node is already used in another cluster this session, we do not have to re-evaluate it.
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if (usedNodes[nodeId] === undefined) {
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relevantEdgeCount = 0;
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node = this.body.nodes[nodeId];
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edges = [];
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for (let j = 0; j < node.edges.length; j++) {
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edge = node.edges[j];
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if (this.clusteredEdges[edge.id] === undefined) {
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if (edge.toId !== edge.fromId) {
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relevantEdgeCount++;
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}
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edges.push(edge);
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}
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}
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// this node qualifies, we collect its neighbours to start the clustering process.
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if (relevantEdgeCount === edgeCount) {
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let gatheringSuccessful = true;
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for (let j = 0; j < edges.length; j++) {
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edge = edges[j];
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let childNodeId = this._getConnectedId(edge, nodeId);
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// add the nodes to the list by the join condition.
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if (options.joinCondition === undefined) {
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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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usedNodes[nodeId] = true;
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}
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else {
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let clonedOptions = NetworkUtil.cloneOptions(this.body.nodes[nodeId]);
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if (options.joinCondition(clonedOptions) === true) {
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childEdgesObj[edge.id] = edge;
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childNodesObj[nodeId] = this.body.nodes[nodeId];
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usedNodes[nodeId] = true;
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}
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else {
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// this node does not qualify after all.
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gatheringSuccessful = false;
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break;
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}
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}
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}
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// add to the cluster queue
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if (Object.keys(childNodesObj).length > 0 && Object.keys(childEdgesObj).length > 0 && gatheringSuccessful === true) {
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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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/**
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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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this.clusterByEdgeCount(1,options,refreshData);
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}
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/**
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* Cluster all nodes in the network that have only 2 edge
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* @param options
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* @param refreshData
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*/
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clusterBridges(options, refreshData = true) {
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this.clusterByEdgeCount(2,options,refreshData);
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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 = NetworkUtil.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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if (this.clusteredEdges[edge.id] === undefined) {
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let childNodeId = this._getConnectedId(edge, parentNodeId);
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// if the child node is not in a cluster
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if (this.clusteredNodes[childNodeId] === undefined) {
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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 = NetworkUtil.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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// swallow the edge if it is self-referencing.
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childEdgesObj[edge.id] = edge;
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}
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}
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}
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}
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var childNodeIDs = Object.keys(childNodesObj).map(function(childNode){
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return childNodesObj[childNode].id;
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})
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for (childNode in childNodesObj) {
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var childNode = childNodesObj[childNode];
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for (var y=0; y < childNode.edges.length; y++){
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var childEdge = childNode.edges[y];
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if (childNodeIDs.indexOf(this._getConnectedId(childEdge,childNode.id)) > -1){
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childEdgesObj[childEdge.id] = childEdge;
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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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* This function creates the edges that will be attached to the cluster
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* It looks for edges that are connected to the nodes from the "outside' of the cluster.
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*
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* @param childNodesObj
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* @param childEdgesObj
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* @param clusterNodeProperties
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* @param clusterEdgeProperties
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* @private
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*/
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_createClusterEdges (childNodesObj, childEdgesObj, clusterNodeProperties, clusterEdgeProperties) {
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let edge, childNodeId, childNode, toId, fromId, otherNodeId;
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// loop over all child nodes and their edges to find edges going out of the cluster
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// these edges will be replaced by clusterEdges.
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let childKeys = Object.keys(childNodesObj);
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let createEdges = [];
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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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// we only handle edges that are visible to the system, not the disabled ones from the clustering process.
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if (this.clusteredEdges[edge.id] === undefined) {
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// self-referencing edges will be added to the "hidden" list
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if (edge.toId == edge.fromId) {
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childEdgesObj[edge.id] = edge;
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}
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else {
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// set up the from and to.
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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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}
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// Only edges from the cluster outwards are being replaced.
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if (childNodesObj[otherNodeId] === undefined) {
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createEdges.push({edge: edge, fromId: fromId, toId: toId});
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}
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}
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}
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}
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//
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// Here we actually create the replacement edges.
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//
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// We could not do this in the loop above as the creation process
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// would add an edge to the edges array we are iterating over.
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//
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// NOTE: a clustered edge can have multiple base edges!
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//
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var newEdges = [];
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/**
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* Find a cluster edge which matches the given created edge.
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*/
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var getNewEdge = function(createdEdge) {
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for (let j = 0; j < newEdges.length; j++) {
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let newEdge = newEdges[j];
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// We replace both to and from edges with a single cluster edge
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let matchToDirection = (createdEdge.fromId === newEdge.fromId && createdEdge.toId === newEdge.toId);
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let matchFromDirection = (createdEdge.fromId === newEdge.toId && createdEdge.toId === newEdge.fromId);
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if (matchToDirection || matchFromDirection ) {
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return newEdge;
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}
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}
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return null;
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};
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for (let j = 0; j < createEdges.length; j++) {
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let createdEdge = createEdges[j];
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let edge = createdEdge.edge;
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let newEdge = getNewEdge(createdEdge);
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if (newEdge === null) {
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// Create a clustered edge for this connection
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newEdge = this._createClusteredEdge(
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createdEdge.fromId,
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createdEdge.toId,
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edge,
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clusterEdgeProperties);
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newEdges.push(newEdge);
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} else {
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newEdge.clusteringEdgeReplacingIds.push(edge.id);
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}
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// also reference the new edge in the old edge
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this.body.edges[edge.id].edgeReplacedById = newEdge.id;
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// hide the replaced edge
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this._backupEdgeOptions(edge);
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edge.setOptions({physics:false});
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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 nodes don't bother
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if (Object.keys(childNodesObj).length == 0) {return;}
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// allow clusters of 1 if options allow
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if (Object.keys(childNodesObj).length == 1 && options.clusterNodeProperties.allowSingleNodeCluster != true) {return;}
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// check if this cluster call is not trying to cluster anything that is in another cluster.
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for (let nodeId in childNodesObj) {
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if (childNodesObj.hasOwnProperty(nodeId)) {
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if (this.clusteredNodes[nodeId] !== undefined) {
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return;
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}
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}
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}
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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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if (childNodesObj.hasOwnProperty(nodeId)) {
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let clonedOptions = NetworkUtil.cloneOptions(childNodesObj[nodeId]);
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childNodesOptions.push(clonedOptions);
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}
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}
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// get cluster properties based on childNodes
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let childEdgesOptions = [];
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for (let edgeId in childEdgesObj) {
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if (childEdgesObj.hasOwnProperty(edgeId)) {
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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 = NetworkUtil.cloneOptions(childEdgesObj[edgeId], 'edge');
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childEdgesOptions.push(clonedOptions);
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}
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}
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}
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clusterNodeProperties = options.processProperties(clusterNodeProperties, childNodesOptions, childEdgesOptions);
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if (!clusterNodeProperties) {
|
|
throw new Error("The processProperties function does not return properties!");
|
|
}
|
|
}
|
|
|
|
// check if we have an unique id;
|
|
if (clusterNodeProperties.id === undefined) {clusterNodeProperties.id = 'cluster:' + util.randomUUID();}
|
|
let clusterId = clusterNodeProperties.id;
|
|
|
|
if (clusterNodeProperties.label === undefined) {
|
|
clusterNodeProperties.label = 'cluster';
|
|
}
|
|
|
|
|
|
// give the clusterNode a position if it does not have one.
|
|
let pos = undefined;
|
|
if (clusterNodeProperties.x === undefined) {
|
|
pos = this._getClusterPosition(childNodesObj);
|
|
clusterNodeProperties.x = pos.x;
|
|
}
|
|
if (clusterNodeProperties.y === undefined) {
|
|
if (pos === undefined) {pos = this._getClusterPosition(childNodesObj);}
|
|
clusterNodeProperties.y = pos.y;
|
|
}
|
|
|
|
// force the ID to remain the same
|
|
clusterNodeProperties.id = clusterId;
|
|
|
|
// create the clusterNode
|
|
let clusterNode = this.body.functions.createNode(clusterNodeProperties, Cluster);
|
|
clusterNode.isCluster = true;
|
|
clusterNode.containedNodes = childNodesObj;
|
|
clusterNode.containedEdges = childEdgesObj;
|
|
// cache a copy from the cluster edge properties if we have to reconnect others later on
|
|
clusterNode.clusterEdgeProperties = options.clusterEdgeProperties;
|
|
|
|
// finally put the cluster node into global
|
|
this.body.nodes[clusterNodeProperties.id] = clusterNode;
|
|
|
|
this._clusterEdges(childNodesObj, childEdgesObj, clusterNodeProperties, options.clusterEdgeProperties);
|
|
|
|
// set ID to undefined so no duplicates arise
|
|
clusterNodeProperties.id = undefined;
|
|
|
|
// wrap up
|
|
if (refreshData === true) {
|
|
this.body.emitter.emit('_dataChanged');
|
|
}
|
|
}
|
|
|
|
_backupEdgeOptions(edge) {
|
|
if (this.clusteredEdges[edge.id] === undefined) {
|
|
this.clusteredEdges[edge.id] = {physics: edge.options.physics};
|
|
}
|
|
}
|
|
|
|
_restoreEdge(edge) {
|
|
let originalOptions = this.clusteredEdges[edge.id];
|
|
if (originalOptions !== undefined) {
|
|
edge.setOptions({physics: originalOptions.physics});
|
|
delete this.clusteredEdges[edge.id];
|
|
}
|
|
}
|
|
|
|
|
|
/**
|
|
* Check if a node is a cluster.
|
|
* @param nodeId
|
|
* @returns {*}
|
|
*/
|
|
isCluster(nodeId) {
|
|
if (this.body.nodes[nodeId] !== undefined) {
|
|
return this.body.nodes[nodeId].isCluster === true;
|
|
}
|
|
else {
|
|
console.log("Node does not exist.");
|
|
return false;
|
|
}
|
|
}
|
|
|
|
/**
|
|
* get the position of the cluster node based on what's inside
|
|
* @param {object} childNodesObj | object with node objects, id as keys
|
|
* @returns {{x: number, y: number}}
|
|
* @private
|
|
*/
|
|
_getClusterPosition(childNodesObj) {
|
|
let childKeys = Object.keys(childNodesObj);
|
|
let minX = childNodesObj[childKeys[0]].x;
|
|
let maxX = childNodesObj[childKeys[0]].x;
|
|
let minY = childNodesObj[childKeys[0]].y;
|
|
let maxY = childNodesObj[childKeys[0]].y;
|
|
let node;
|
|
for (let i = 1; i < childKeys.length; i++) {
|
|
node = childNodesObj[childKeys[i]];
|
|
minX = node.x < minX ? node.x : minX;
|
|
maxX = node.x > maxX ? node.x : maxX;
|
|
minY = node.y < minY ? node.y : minY;
|
|
maxY = node.y > maxY ? node.y : maxY;
|
|
}
|
|
|
|
|
|
return {x: 0.5*(minX + maxX), y: 0.5*(minY + maxY)};
|
|
}
|
|
|
|
|
|
|
|
/**
|
|
* Open a cluster by calling this function.
|
|
* @param {String} clusterNodeId | the ID of the cluster node
|
|
* @param {Boolean} refreshData | wrap up afterwards if not true
|
|
*/
|
|
openCluster(clusterNodeId, options, refreshData = true) {
|
|
// kill conditions
|
|
if (clusterNodeId === undefined) {throw new Error("No clusterNodeId supplied to openCluster.");}
|
|
if (this.body.nodes[clusterNodeId] === undefined) {throw new Error("The clusterNodeId supplied to openCluster does not exist.");}
|
|
if (this.body.nodes[clusterNodeId].containedNodes === undefined) {
|
|
console.log("The node:" + clusterNodeId + " is not a cluster.");
|
|
return
|
|
}
|
|
let clusterNode = this.body.nodes[clusterNodeId];
|
|
let containedNodes = clusterNode.containedNodes;
|
|
let containedEdges = clusterNode.containedEdges;
|
|
|
|
// allow the user to position the nodes after release.
|
|
if (options !== undefined && options.releaseFunction !== undefined && typeof options.releaseFunction === 'function') {
|
|
let positions = {};
|
|
let clusterPosition = {x:clusterNode.x, y:clusterNode.y};
|
|
for (let nodeId in containedNodes) {
|
|
if (containedNodes.hasOwnProperty(nodeId)) {
|
|
let containedNode = this.body.nodes[nodeId];
|
|
positions[nodeId] = {x: containedNode.x, y: containedNode.y};
|
|
}
|
|
}
|
|
let newPositions = options.releaseFunction(clusterPosition, positions);
|
|
|
|
for (let nodeId in containedNodes) {
|
|
if (containedNodes.hasOwnProperty(nodeId)) {
|
|
let containedNode = this.body.nodes[nodeId];
|
|
if (newPositions[nodeId] !== undefined) {
|
|
containedNode.x = (newPositions[nodeId].x === undefined ? clusterNode.x : newPositions[nodeId].x);
|
|
containedNode.y = (newPositions[nodeId].y === undefined ? clusterNode.y : newPositions[nodeId].y);
|
|
}
|
|
}
|
|
}
|
|
}
|
|
else {
|
|
// copy the position from the cluster
|
|
for (let nodeId in containedNodes) {
|
|
if (containedNodes.hasOwnProperty(nodeId)) {
|
|
let containedNode = this.body.nodes[nodeId];
|
|
containedNode = containedNodes[nodeId];
|
|
// inherit position
|
|
if (containedNode.options.fixed.x === false) {containedNode.x = clusterNode.x;}
|
|
if (containedNode.options.fixed.y === false) {containedNode.y = clusterNode.y;}
|
|
}
|
|
}
|
|
}
|
|
|
|
// release nodes
|
|
for (let nodeId in containedNodes) {
|
|
if (containedNodes.hasOwnProperty(nodeId)) {
|
|
let containedNode = this.body.nodes[nodeId];
|
|
|
|
// inherit speed
|
|
containedNode.vx = clusterNode.vx;
|
|
containedNode.vy = clusterNode.vy;
|
|
|
|
containedNode.setOptions({physics:true});
|
|
|
|
delete this.clusteredNodes[nodeId];
|
|
}
|
|
}
|
|
|
|
// copy the clusterNode edges because we cannot iterate over an object that we add or remove from.
|
|
let edgesToBeDeleted = [];
|
|
for (let i = 0; i < clusterNode.edges.length; i++) {
|
|
edgesToBeDeleted.push(clusterNode.edges[i]);
|
|
}
|
|
|
|
// actually handling the deleting.
|
|
for (let i = 0; i < edgesToBeDeleted.length; i++) {
|
|
let edge = edgesToBeDeleted[i];
|
|
let otherNodeId = this._getConnectedId(edge, clusterNodeId);
|
|
let otherNode = this.clusteredNodes[otherNodeId];
|
|
|
|
for (let j = 0; j < edge.clusteringEdgeReplacingIds.length; j++) {
|
|
let transferId = edge.clusteringEdgeReplacingIds[j];
|
|
let transferEdge = this.body.edges[transferId];
|
|
if (transferEdge === undefined) continue;
|
|
|
|
// if the other node is in another cluster, we transfer ownership of this edge to the other cluster
|
|
if (otherNode !== undefined) {
|
|
// transfer ownership:
|
|
let otherCluster = this.body.nodes[otherNode.clusterId];
|
|
otherCluster.containedEdges[transferEdge.id] = transferEdge;
|
|
|
|
// delete local reference
|
|
delete containedEdges[transferEdge.id];
|
|
|
|
// get to and from
|
|
let fromId = transferEdge.fromId;
|
|
let toId = transferEdge.toId;
|
|
if (transferEdge.toId == otherNodeId) {
|
|
toId = otherNode.clusterId;
|
|
}
|
|
else {
|
|
fromId = otherNode.clusterId;
|
|
}
|
|
|
|
// create new cluster edge from the otherCluster
|
|
this._createClusteredEdge(
|
|
fromId,
|
|
toId,
|
|
transferEdge,
|
|
otherCluster.clusterEdgeProperties,
|
|
{hidden: false, physics: true});
|
|
|
|
} else {
|
|
this._restoreEdge(transferEdge);
|
|
}
|
|
}
|
|
|
|
edge.remove();
|
|
}
|
|
|
|
// handle the releasing of the edges
|
|
for (let edgeId in containedEdges) {
|
|
if (containedEdges.hasOwnProperty(edgeId)) {
|
|
this._restoreEdge(containedEdges[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(this.body.nodes[nodeId].id)
|
|
}
|
|
}
|
|
}
|
|
|
|
return nodesArray;
|
|
}
|
|
|
|
/**
|
|
* Get the stack clusterId's that a certain node resides in. cluster A -> cluster B -> cluster C -> node
|
|
*
|
|
* If a node can't be found in the chain, return an empty array.
|
|
*
|
|
* @param {string|number} nodeId
|
|
* @returns {Array}
|
|
*/
|
|
findNode(nodeId) {
|
|
let stack = [];
|
|
let max = 100;
|
|
let counter = 0;
|
|
let node;
|
|
|
|
while (this.clusteredNodes[nodeId] !== undefined && counter < max) {
|
|
node = this.body.nodes[nodeId]
|
|
if (node === undefined) return [];
|
|
stack.push(node.id);
|
|
|
|
nodeId = this.clusteredNodes[nodeId].clusterId;
|
|
counter++;
|
|
}
|
|
|
|
node = this.body.nodes[nodeId]
|
|
if (node === undefined) return [];
|
|
stack.push(node.id);
|
|
|
|
stack.reverse();
|
|
return stack;
|
|
}
|
|
|
|
/**
|
|
* Using a clustered nodeId, update with the new options
|
|
* @param clusteredNodeId
|
|
* @param {object} newOptions
|
|
*/
|
|
updateClusteredNode(clusteredNodeId, newOptions) {
|
|
if (clusteredNodeId === undefined) {throw new Error("No clusteredNodeId supplied to updateClusteredNode.");}
|
|
if (newOptions === undefined) {throw new Error("No newOptions supplied to updateClusteredNode.");}
|
|
if (this.body.nodes[clusteredNodeId] === undefined) {throw new Error("The clusteredNodeId supplied to updateClusteredNode does not exist.");}
|
|
|
|
this.body.nodes[clusteredNodeId].setOptions(newOptions);
|
|
this.body.emitter.emit('_dataChanged');
|
|
}
|
|
|
|
/**
|
|
* Using a base edgeId, update all related clustered edges with the new options
|
|
* @param startEdgeId
|
|
* @param {object} newOptions
|
|
*/
|
|
updateEdge(startEdgeId, newOptions) {
|
|
if (startEdgeId === undefined) {throw new Error("No startEdgeId supplied to updateEdge.");}
|
|
if (newOptions === undefined) {throw new Error("No newOptions supplied to updateEdge.");}
|
|
if (this.body.edges[startEdgeId] === undefined) {throw new Error("The startEdgeId supplied to updateEdge does not exist.");}
|
|
|
|
let allEdgeIds = this.getClusteredEdges(startEdgeId);
|
|
for (let i = 0; i < allEdgeIds.length; i++) {
|
|
var edge = this.body.edges[allEdgeIds[i]];
|
|
edge.setOptions(newOptions);
|
|
}
|
|
this.body.emitter.emit('_dataChanged');
|
|
}
|
|
|
|
/**
|
|
* Get a stack of clusterEdgeId's (+base edgeid) that a base edge is the same as. cluster edge C -> cluster edge B -> cluster edge A -> base edge(edgeId)
|
|
* @param edgeId
|
|
* @returns {Array}
|
|
*/
|
|
getClusteredEdges(edgeId) {
|
|
let stack = [];
|
|
let max = 100;
|
|
let counter = 0;
|
|
|
|
while (edgeId !== undefined && this.body.edges[edgeId] !== undefined && counter < max) {
|
|
stack.push(this.body.edges[edgeId].id);
|
|
edgeId = this.body.edges[edgeId].edgeReplacedById;
|
|
counter++;
|
|
}
|
|
stack.reverse();
|
|
return stack;
|
|
}
|
|
|
|
/**
|
|
* Get the base edge id of clusterEdgeId. cluster edge (clusteredEdgeId) -> cluster edge B -> cluster edge C -> base edge
|
|
* @param clusteredEdgeId
|
|
* @returns baseEdgeId
|
|
*
|
|
* TODO: deprecate in 5.0.0. Method getBaseEdges() is the correct one to use.
|
|
*/
|
|
getBaseEdge(clusteredEdgeId) {
|
|
// Just kludge this by returning the first base edge id found
|
|
return this.getBaseEdges(clusteredEdgeId)[0];
|
|
}
|
|
|
|
|
|
/**
|
|
* Get all regular edges for this clustered edge id.
|
|
*
|
|
* @param {Number} clusteredEdgeId
|
|
* @returns {Array[Number} all baseEdgeId's under this clustered edge
|
|
*/
|
|
getBaseEdges(clusteredEdgeId) {
|
|
let IdsToHandle = [clusteredEdgeId];
|
|
let doneIds = [];
|
|
let foundIds = [];
|
|
let max = 100;
|
|
let counter = 0;
|
|
|
|
while (IdsToHandle.length > 0 && counter < max) {
|
|
let nextId = IdsToHandle.pop();
|
|
if (nextId === undefined) continue; // Paranoia here and onwards
|
|
let nextEdge = this.body.edges[nextId];
|
|
if (nextEdge === undefined) continue;
|
|
counter++;
|
|
|
|
let replacingIds = nextEdge.clusteringEdgeReplacingIds;
|
|
if (replacingIds === undefined) {
|
|
// nextId is a base id
|
|
foundIds.push(nextId);
|
|
} else {
|
|
// Another cluster edge, unravel this one as well
|
|
for (let i = 0; i < replacingIds.length; ++i) {
|
|
let replacingId = replacingIds[i];
|
|
|
|
// Don't add if already handled
|
|
// TODO: never triggers; find a test-case which does
|
|
if (IdsToHandle.indexOf(replacingIds) !== -1 || doneIds.indexOf(replacingIds) !== -1) {
|
|
continue;
|
|
}
|
|
|
|
IdsToHandle.push(replacingId);
|
|
}
|
|
}
|
|
|
|
doneIds.push(nextId);
|
|
}
|
|
|
|
return foundIds;
|
|
}
|
|
|
|
|
|
/**
|
|
* 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 variance = averageSquared - Math.pow(average,2);
|
|
let standardDeviation = Math.sqrt(variance);
|
|
|
|
let hubThreshold = Math.floor(average + 2*standardDeviation);
|
|
|
|
// always have at least one to cluster
|
|
if (hubThreshold > largestHub) {
|
|
hubThreshold = largestHub;
|
|
}
|
|
|
|
return hubThreshold;
|
|
}
|
|
|
|
|
|
/**
|
|
* Create an edge for the cluster representation.
|
|
*
|
|
* @return {Edge} newly created clustered edge
|
|
* @private
|
|
*/
|
|
_createClusteredEdge(fromId, toId, baseEdge, clusterEdgeProperties, extraOptions) {
|
|
// copy the options of the edge we will replace
|
|
let clonedOptions = NetworkUtil.cloneOptions(baseEdge, 'edge');
|
|
// make sure the properties of clusterEdges are superimposed on it
|
|
util.deepExtend(clonedOptions, clusterEdgeProperties);
|
|
|
|
// set up the edge
|
|
clonedOptions.from = fromId;
|
|
clonedOptions.to = toId;
|
|
clonedOptions.id = 'clusterEdge:' + util.randomUUID();
|
|
|
|
// apply the edge specific options to it if specified
|
|
if (extraOptions !== undefined) {
|
|
util.deepExtend(clonedOptions, extraOptions);
|
|
}
|
|
|
|
let newEdge = this.body.functions.createEdge(clonedOptions);
|
|
newEdge.clusteringEdgeReplacingIds = [baseEdge.id];
|
|
newEdge.connect();
|
|
|
|
// Register the new edge
|
|
this.body.edges[newEdge.id] = newEdge;
|
|
|
|
return newEdge;
|
|
}
|
|
|
|
|
|
/**
|
|
* Add the passed child nodes and edges to the given cluster node.
|
|
*
|
|
* @param childNodes {Object|Node} hash of nodes or single node to add in cluster
|
|
* @param childEdges {Object|Edge} hash of edges or single edge to take into account when clustering
|
|
* @param clusterNode {Node} cluster node to add nodes and edges to
|
|
* @private
|
|
*/
|
|
_clusterEdges(childNodes, childEdges, clusterNode, clusterEdgeProperties) {
|
|
if (childEdges instanceof Edge) {
|
|
let edge = childEdges;
|
|
let obj = {};
|
|
obj[edge.id] = edge;
|
|
childEdges = obj;
|
|
}
|
|
|
|
if (childNodes instanceof Node) {
|
|
let node = childNodes;
|
|
let obj = {};
|
|
obj[node.id] = node;
|
|
childNodes = obj;
|
|
}
|
|
|
|
if (clusterNode === undefined || clusterNode === null) {
|
|
throw new Error("_clusterEdges: parameter clusterNode required");
|
|
}
|
|
|
|
if (clusterEdgeProperties === undefined) {
|
|
// Take the required properties from the cluster node
|
|
clusterEdgeProperties = clusterNode.clusterEdgeProperties;
|
|
}
|
|
|
|
// create the new edges that will connect to the cluster.
|
|
// All self-referencing edges will be added to childEdges here.
|
|
this._createClusterEdges(childNodes, childEdges, clusterNode, clusterEdgeProperties);
|
|
|
|
// disable the childEdges
|
|
for (let edgeId in childEdges) {
|
|
if (childEdges.hasOwnProperty(edgeId)) {
|
|
if (this.body.edges[edgeId] !== undefined) {
|
|
let edge = this.body.edges[edgeId];
|
|
// cache the options before changing
|
|
this._backupEdgeOptions(edge);
|
|
// disable physics and hide the edge
|
|
edge.setOptions({physics:false});
|
|
}
|
|
}
|
|
}
|
|
|
|
// disable the childNodes
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for (let nodeId in childNodes) {
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if (childNodes.hasOwnProperty(nodeId)) {
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this.clusteredNodes[nodeId] = {clusterId:clusterNode.id, node: this.body.nodes[nodeId]};
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this.body.nodes[nodeId].setOptions({physics:false});
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}
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}
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}
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/**
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* Determine in which cluster given nodeId resides.
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*
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* If not in cluster, return undefined.
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*
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* NOTE: If you know a cleaner way to do this, please enlighten me (wimrijnders).
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*
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* @return {Node|undefined} Node instance for cluster, if present
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* @private
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*/
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_getClusterNodeForNode(nodeId) {
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if (nodeId === undefined) return undefined;
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let clusteredNode = this.clusteredNodes[nodeId];
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|
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// NOTE: If no cluster info found, it should actually be an error
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if (clusteredNode === undefined) return undefined;
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let clusterId = clusteredNode.clusterId;
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if (clusterId === undefined) return undefined;
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|
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return this.body.nodes[clusterId];
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}
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|
|
|
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/**
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* Internal helper function for conditionally removing items in array
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*
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* Done like this because Array.filter() is not fully supported by all IE's.
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* @private
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|
*/
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_filter(arr, callback) {
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let ret = [];
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|
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for (var n in arr) {
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if (callback(arr[n])) {
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ret.push(arr[n]);
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}
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}
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|
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return ret;
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}
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|
|
|
|
|
/**
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* Scan all edges for changes in clustering and adjust this if necessary.
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|
*
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|
* Call this (internally) after there has been a change in node or edge data.
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|
*/
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|
_updateState() {
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|
// Pre: States of this.body.nodes and this.body.edges consistent
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|
// Pre: this.clusteredNodes and this.clusteredEdge consistent with containedNodes and containedEdges
|
|
// of cluster nodes.
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|
let nodeId;
|
|
let edgeId;
|
|
let m, n;
|
|
let deletedNodeIds = [];
|
|
let deletedEdgeIds = [];
|
|
let self = this;
|
|
|
|
let eachClusterNode = (callback) => {
|
|
for (nodeId in this.body.nodes) {
|
|
let node = this.body.nodes[nodeId];
|
|
if (node.isCluster !== true) continue;
|
|
|
|
callback(node);
|
|
}
|
|
};
|
|
|
|
|
|
//
|
|
// Remove deleted regular nodes from clustering
|
|
//
|
|
|
|
// Determine the deleted nodes
|
|
for (nodeId in this.clusteredNodes) {
|
|
let node = this.body.nodes[nodeId];
|
|
|
|
if (node === undefined) {
|
|
deletedNodeIds.push(nodeId);
|
|
}
|
|
}
|
|
|
|
// Remove nodes from cluster nodes
|
|
eachClusterNode(function(clusterNode) {
|
|
for (n in deletedNodeIds) {
|
|
delete clusterNode.containedNodes[deletedNodeIds[n]];
|
|
}
|
|
});
|
|
|
|
// Remove nodes from cluster list
|
|
for (n in deletedNodeIds) {
|
|
delete this.clusteredNodes[deletedNodeIds[n]];
|
|
}
|
|
|
|
|
|
//
|
|
// Remove deleted edges from clustering
|
|
//
|
|
|
|
// Add the deleted clustered edges to the list
|
|
for (edgeId in this.clusteredEdges) {
|
|
let edge = this.body.edges[edgeId];
|
|
if (edge === undefined || !edge.endPointsValid()) {
|
|
deletedEdgeIds.push(edgeId);
|
|
}
|
|
}
|
|
|
|
// Cluster nodes can also contain edges which are not clustered,
|
|
// i.e. nodes 1-2 within cluster with an edge in between.
|
|
// So the cluster nodes also need to be scanned for invalid edges
|
|
eachClusterNode(function(clusterNode) {
|
|
for (edgeId in clusterNode.containedEdges) {
|
|
let edge = clusterNode.containedEdges[edgeId];
|
|
if (!edge.endPointsValid() && deletedEdgeIds.indexOf(edgeId) === -1) {
|
|
deletedEdgeIds.push(edgeId);
|
|
}
|
|
}
|
|
});
|
|
|
|
// Also scan for cluster edges which need to be removed in the active list.
|
|
// Regular edges have been removed beforehand, so this only picks up the cluster edges.
|
|
for (edgeId in this.body.edges) {
|
|
let edge = this.body.edges[edgeId];
|
|
|
|
if (!edge.endPointsValid()) {
|
|
deletedEdgeIds.push(edgeId);
|
|
}
|
|
}
|
|
|
|
// Remove edges from cluster nodes
|
|
eachClusterNode(function(clusterNode) {
|
|
for (n in deletedEdgeIds) {
|
|
let deletedEdgeId = deletedEdgeIds[n];
|
|
delete clusterNode.containedEdges[deletedEdgeId];
|
|
|
|
for (m in clusterNode.edges) {
|
|
let edge = clusterNode.edges[m];
|
|
|
|
if (edge.id === deletedEdgeId) {
|
|
clusterNode.edges[m] = null; // Don't want to directly delete here, because in the loop
|
|
continue;
|
|
}
|
|
|
|
edge.clusteringEdgeReplacingIds = self._filter(edge.clusteringEdgeReplacingIds, function(id) {
|
|
return deletedEdgeIds.indexOf(id) === -1;
|
|
});
|
|
}
|
|
|
|
// Clean up the nulls
|
|
clusterNode.edges = self._filter(clusterNode.edges, function(item) {return item !== null});
|
|
}
|
|
});
|
|
|
|
// Remove from cluster list
|
|
for (n in deletedEdgeIds) {
|
|
delete this.clusteredEdges[deletedEdgeIds[n]];
|
|
}
|
|
|
|
// Remove cluster edges from active list (this.body.edges).
|
|
// deletedEdgeIds still contains id of regular edges, but these should all
|
|
// be gone upon entering this method
|
|
for (n in deletedEdgeIds) {
|
|
delete this.body.edges[deletedEdgeIds[n]];
|
|
}
|
|
|
|
|
|
//
|
|
// Check changed cluster state of edges
|
|
//
|
|
|
|
// Iterating over keys here, because edges may be removed in the loop
|
|
let ids = Object.keys(this.body.edges);
|
|
for (n in ids) {
|
|
let edgeId = ids[n];
|
|
let edge = this.body.edges[edgeId];
|
|
|
|
let shouldBeClustered = this._isClusteredNode(edge.fromId) || this._isClusteredNode(edge.toId);
|
|
if (shouldBeClustered === this._isClusteredEdge(edge.id)) {
|
|
continue; // all is well
|
|
}
|
|
|
|
if (shouldBeClustered) {
|
|
// add edge to clustering
|
|
let clusterFrom = this._getClusterNodeForNode(edge.fromId);
|
|
if (clusterFrom !== undefined) {
|
|
this._clusterEdges(this.body.nodes[edge.fromId], edge, clusterFrom);
|
|
}
|
|
|
|
let clusterTo = this._getClusterNodeForNode(edge.toId);
|
|
if (clusterTo !== undefined) {
|
|
this._clusterEdges(this.body.nodes[edge.toId], edge, clusterTo);
|
|
}
|
|
|
|
// TODO: check that it works for both edges clustered
|
|
} else {
|
|
// undo clustering for this edge
|
|
throw new Error('remove edge from clustering not implemented!');
|
|
}
|
|
}
|
|
|
|
|
|
// TODO: Cluster nodes may now be empty or because of selected options may not be allowed to contain 1 node
|
|
// Remove these cluster nodes if necessary.
|
|
}
|
|
|
|
|
|
/**
|
|
* Determine if node with given id is part of a cluster.
|
|
*
|
|
* @return {boolean} true if part of a cluster.
|
|
*/
|
|
_isClusteredNode(nodeId) {
|
|
return this.clusteredNodes[nodeId] !== undefined;
|
|
}
|
|
|
|
|
|
/**
|
|
* Determine if edge with given id is not visible due to clustering.
|
|
*
|
|
* An edge is considered clustered if:
|
|
* - it is directly replaced by a clustering edge
|
|
* - any of its connecting nodes is in a cluster
|
|
*
|
|
* @return {boolean} true if part of a cluster.
|
|
*/
|
|
_isClusteredEdge(edgeId) {
|
|
return this.clusteredEdges[edgeId] !== undefined;
|
|
}
|
|
}
|
|
|
|
|
|
export default ClusterEngine;
|