
Java example source code file (WeightedRandomWalkIterator.java)
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The WeightedRandomWalkIterator.java Java example source code
package org.deeplearning4j.graph.iterator;
import org.deeplearning4j.graph.api.*;
import org.deeplearning4j.graph.exception.NoEdgesException;
import org.deeplearning4j.graph.graph.VertexSequence;
import java.util.List;
import java.util.NoSuchElementException;
import java.util.Random;
/**Given a graph, iterate through random walks on that graph of a specified length.
* Unlike {@link RandomWalkIterator}, the {@code WeightedRandomWalkIterator} uses the values associated with each edge
* to determine probabilities. Weights on each edge need not be normalized.<br>
* Because the edge values are used to determine the probabilities of selecting an edge, the {@code WeightedRandomWalkIterator}
* can only be used on graphs with an edge type that extends the {@link java.lang.Number} class (i.e., Integer, Double, etc)<br>
* Random walks are generated starting at every node in the graph exactly once, though the order of the starting nodes
* is randomized.
* @author Alex Black
*/
public class WeightedRandomWalkIterator<V> implements GraphWalkIterator {
private final IGraph<V,? extends Number> graph;
private final int walkLength;
private final NoEdgeHandling mode;
private final int firstVertex;
private final int lastVertex;
private int position;
private Random rng;
private int[] order;
public WeightedRandomWalkIterator(IGraph<V, ? extends Number> graph, int walkLength){
this(graph,walkLength,System.currentTimeMillis(), NoEdgeHandling.EXCEPTION_ON_DISCONNECTED);
}
/**Construct a RandomWalkIterator for a given graph, with a specified walk length and random number generator seed.<br>
* Uses {@code NoEdgeHandling.EXCEPTION_ON_DISCONNECTED}  hence exception will be thrown when generating random
* walks on graphs with vertices containing having no edges, or no outgoing edges (for directed graphs)
* @see #WeightedRandomWalkIterator(IGraph, int, long, NoEdgeHandling)
*/
public WeightedRandomWalkIterator(IGraph<V, ? extends Number> graph, int walkLength, long rngSeed){
this(graph, walkLength, rngSeed, NoEdgeHandling.EXCEPTION_ON_DISCONNECTED);
}
/**
* @param graph IGraph to conduct walks on
* @param walkLength length of each walk. Walk of length 0 includes 1 vertex, walk of 1 includes 2 vertices etc
* @param rngSeed seed for randomization
* @param mode mode for handling random walks from vertices with either no edges, or no outgoing edges (for directed graphs)
*/
public WeightedRandomWalkIterator(IGraph<V, ? extends Number> graph, int walkLength, long rngSeed, NoEdgeHandling mode){
this(graph,walkLength,rngSeed,mode,0,graph.numVertices());
}
/**Constructor used to generate random walks starting at a subset of the vertices in the graph. Order of starting
* vertices is randomized within this subset
* @param graph IGraph to conduct walks on
* @param walkLength length of each walk. Walk of length 0 includes 1 vertex, walk of 1 includes 2 vertices etc
* @param rngSeed seed for randomization
* @param mode mode for handling random walks from vertices with either no edges, or no outgoing edges (for directed graphs)
* @param firstVertex first vertex index (inclusive) to start random walks from
* @param lastVertex last vertex index (exclusive) to start random walks from
*/
public WeightedRandomWalkIterator(IGraph<V, ? extends Number> graph, int walkLength, long rngSeed, NoEdgeHandling mode, int firstVertex,
int lastVertex){
this.graph = graph;
this.walkLength = walkLength;
this.rng = new Random(rngSeed);
this.mode = mode;
this.firstVertex = firstVertex;
this.lastVertex = lastVertex;
order = new int[lastVertexfirstVertex];
for( int i=0; i<order.length; i++ ) order[i] = firstVertex+i;
reset();
}
@Override
public IVertexSequence<V> next() {
if(!hasNext()) throw new NoSuchElementException();
//Generate a weighted random walk starting at vertex order[current]
int currVertexIdx = order[position++];
int[] indices = new int[walkLength+1];
indices[0] = currVertexIdx;
if(walkLength == 0) return new VertexSequence<>(graph,indices);
for( int i=1; i<=walkLength; i++ ) {
List<? extends Edge edgeList = graph.getEdgesOut(currVertexIdx);
//First: check if there are any outgoing edges from this vertex. If not: handle the situation
if(edgeList == null  edgeList.size() == 0){
switch (mode) {
case SELF_LOOP_ON_DISCONNECTED:
for (int j = i; j < walkLength; j++) indices[j] = currVertexIdx;
return new VertexSequence<>(graph, indices);
case EXCEPTION_ON_DISCONNECTED:
throw new NoEdgesException("Cannot conduct random walk: vertex " + currVertexIdx + " has no outgoing edges. "
+ " Set NoEdgeHandling mode to NoEdgeHandlingMode.SELF_LOOP_ON_DISCONNECTED to self loop instead of "
+ "throwing an exception in this situation.");
default:
throw new RuntimeException("Unknown/not implemented NoEdgeHandling mode: " + mode);
}
}
//To do a weighted random walk: we need to know total weight of all outgoing edges
double totalWeight = 0.0;
for (Edge<? extends Number> edge : edgeList) {
totalWeight += edge.getValue().doubleValue();
}
double d = rng.nextDouble();
double threshold = d * totalWeight;
double sumWeight = 0.0;
for (Edge<? extends Number> edge : edgeList) {
sumWeight += edge.getValue().doubleValue();
if (sumWeight >= threshold) {
if (edge.isDirected()) {
currVertexIdx = edge.getTo();
} else {
if (edge.getFrom() == currVertexIdx) {
currVertexIdx = edge.getTo();
} else {
currVertexIdx = edge.getFrom(); //Undirected edge: might be nextcurrVertexIdx instead of currVertexIdxnext
}
}
indices[i] = currVertexIdx;
break;
}
}
}
return new VertexSequence<>(graph,indices);
}
@Override
public boolean hasNext() {
return position < order.length;
}
@Override
public void reset() {
position = 0;
//https://en.wikipedia.org/wiki/Fisher%E2%80%93Yates_shuffle#The_modern_algorithm
for(int i=order.length1; i>0; i ){
int j = rng.nextInt(i+1);
int temp = order[j];
order[j] = order[i];
order[i] = temp;
}
}
@Override
public int walkLength(){
return walkLength;
}
}
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