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org.drools.beliefs.bayes.BayesInstance Maven / Gradle / Ivy
/*
* Copyright 2015 Red Hat, Inc. and/or its affiliates.
*
* Licensed under the Apache License, Version 2.0 (the "License");
* you may not use this file except in compliance with the License.
*
* http://www.apache.org/licenses/LICENSE-2.0
*
* Unless required by applicable law or agreed to in writing, software
* distributed under the License is distributed on an "AS IS" BASIS,
* WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
* See the License for the specific language governing permissions and
* limitations under the License.
*/
package org.drools.beliefs.bayes;
import org.drools.beliefs.graph.Graph;
import org.drools.beliefs.graph.GraphNode;
import org.drools.core.util.BitMaskUtil;
import org.kie.api.runtime.rule.FactHandle;
import java.lang.annotation.Annotation;
import java.lang.reflect.Constructor;
import java.lang.reflect.Field;
import java.util.Arrays;
import java.util.HashMap;
import java.util.List;
import java.util.Map;
import java.util.Random;
public class BayesInstance {
private Graph graph;
private JunctionTree tree;
private Map variables;
private Map fieldNames;
private BayesLikelyhood[] likelyhoods;
private long dirty;
private long decided;
private CliqueState[] cliqueStates;
private SeparatorState[] separatorStates;
private BayesVariableState[] varStates;
private GlobalUpdateListener globalUpdateListener;
private PassMessageListener passMessageListener;
private int[] targetParameterMap;
private Class targetClass;
private Constructor targetConstructor;
public BayesInstance(JunctionTree tree, Class targetClass) {
this(tree);
this.targetClass = targetClass;
buildParameterMapping(targetClass);
buildFieldMappings( targetClass );
}
public BayesInstance(JunctionTree tree) {
this.graph = tree.getGraph();
this.tree = tree;
variables = new HashMap();
fieldNames = new HashMap();
likelyhoods = new BayesLikelyhood[graph.size()];
cliqueStates = new CliqueState[tree.getJunctionTreeNodes().length];
for (JunctionTreeClique clique : tree.getJunctionTreeNodes()) {
cliqueStates[clique.getId()] = clique.createState();
}
separatorStates = new SeparatorState[tree.getJunctionTreeSeparators().length];
for ( JunctionTreeSeparator sep : tree.getJunctionTreeSeparators() ) {
separatorStates[sep.getId()] = sep.createState();
}
varStates = new BayesVariableState[graph.size()];
for (GraphNode node : graph) {
BayesVariable var = node.getContent();
variables.put(var.getName(), var);
varStates[var.getId()] = var.createState();
}
}
public void reset() {
for (JunctionTreeClique clique : tree.getJunctionTreeNodes()) {
clique.resetState(cliqueStates[clique.getId()]);
}
for ( JunctionTreeSeparator sep : tree.getJunctionTreeSeparators() ) {
sep.resetState(separatorStates[sep.getId()]);
}
for (GraphNode node : graph) {
BayesVariable var = node.getContent();
BayesVariableState varState = varStates[var.getId()];
varState.setDistribution( new double[ varState.getDistribution().length]);
}
}
public void setTargetClass(Class targetClass) {
this.targetClass = targetClass;
buildParameterMapping( targetClass );
buildFieldMappings( targetClass );
}
public void buildFieldMappings(Class target) {
for ( Field field : target.getDeclaredFields() ) {
Annotation[] anns = field.getDeclaredAnnotations();
for ( Annotation ann : anns ) {
if (ann.annotationType() == VarName.class) {
String varName = ((VarName)ann).value();
BayesVariable var = variables.get(varName);
fieldNames.put( field.getName(), var);
}
}
}
}
public void buildParameterMapping(Class target) {
Constructor[] cons = target.getConstructors();
if ( cons != null ) {
for ( Constructor con : cons ) {
for ( Annotation ann : con.getDeclaredAnnotations() ) {
if ( ann.annotationType() == BayesVariableConstructor.class ) {
Class[] paramTypes = con.getParameterTypes();
targetParameterMap = new int[paramTypes.length];
if ( paramTypes[0] != BayesInstance.class ) {
throw new RuntimeException( "First Argument must be " + BayesInstance.class.getSimpleName() );
}
Annotation[][] paramAnns = con.getParameterAnnotations();
for ( int j = 1; j < paramAnns.length; j++ ) {
if ( paramAnns[j][0].annotationType() == VarName.class ) {
String varName = ((VarName)paramAnns[j][0]).value();
BayesVariable var = variables.get(varName);
Object[] outcomes = new Object[ var.getOutcomes().length ];
if ( paramTypes[j].isAssignableFrom( Boolean.class) || paramTypes[j].isAssignableFrom( boolean.class) ) {
for ( int k = 0; k < var.getOutcomes().length; k++ ) {
outcomes[k] = Boolean.valueOf( (String) var.getOutcomes()[k]);
}
}
varStates[var.getId()].setOutcomes( outcomes );
targetParameterMap[j] = var.getId();
}
}
targetConstructor = con;
}
}
}
}
if ( targetConstructor == null ) {
throw new IllegalStateException( "Unable to find Constructor" );
}
}
public GlobalUpdateListener getGlobalUpdateListener() {
return globalUpdateListener;
}
public void setGlobalUpdateListener(GlobalUpdateListener globalUpdateListener) {
this.globalUpdateListener = globalUpdateListener;
}
public PassMessageListener getPassMessageListener() {
return passMessageListener;
}
public void setPassMessageListener(PassMessageListener passMessageListener) {
this.passMessageListener = passMessageListener;
}
public Map getVariables() {
return variables;
}
public Map getFieldNames() {
return fieldNames;
}
public void setDecided(String varName, boolean bool) {
}
public void setDecided(BayesVariable var, boolean bool) {
// note this is reversed, when the bit is on, the var is undecided. Default state is decided
if ( !bool ) {
decided = BitMaskUtil.set(decided, var.getId());
} else {
decided = BitMaskUtil.reset(decided, var.getId());
}
}
public boolean isDecided() {
return decided == 0; // >0 means one ore more variables are undecided
}
public boolean isDirty() {
return dirty > 0; // >0 means ore or more variables are dirty
}
public void setLikelyhood(String varName, double[] distribution) {
BayesVariable var = variables.get( varName );
if ( var == null ) {
throw new IllegalArgumentException("Variable name does not exist: " + varName);
}
setLikelyhood( var, distribution );
}
public void unsetLikelyhood(BayesVariable var) {
int id = var.getId();
this.likelyhoods[id] = null;
dirty = BitMaskUtil.set(dirty, id);
}
public void setLikelyhood(BayesVariable var, double[] distribution) {
GraphNode node = graph.getNode( var.getId() );
JunctionTreeClique clique = tree.getJunctionTreeNodes( )[var.getFamily()];
setLikelyhood( new BayesLikelyhood(graph, clique, node, distribution ) );
}
public void setLikelyhood(BayesLikelyhood likelyhood) {
int id = likelyhood.getVariable().getId();
BayesLikelyhood old = this.likelyhoods[id];
if ( old == null || !old.equals( likelyhood ) ) {
this.likelyhoods[likelyhood.getVariable().getId()] = likelyhood;
dirty = BitMaskUtil.set(dirty, id);
}
}
public void globalUpdate() {
if ( !isDecided() ) {
throw new IllegalStateException("Cannot perform global upset, while one ore more variables are undecided" );
}
if ( isDirty() ) {
reset();
}
applyEvidence();
//recurseGlobalUpdate(tree.getRoot());
globalUpdate(tree.getRoot());
dirty = 0;
}
public void applyEvidence() {
for ( int i = 0; i < likelyhoods.length; i++ ) {
BayesLikelyhood l = likelyhoods[i];
if ( l != null ) {
int family = likelyhoods[i].getVariable().getFamily();
JunctionTreeClique node = tree.getJunctionTreeNodes()[family];
likelyhoods[i].multiplyInto(cliqueStates[family].getPotentials());
BayesAbsorption.normalize(cliqueStates[family].getPotentials());
}
}
}
public void globalUpdate(JunctionTreeClique clique) {
if ( globalUpdateListener != null ) {
globalUpdateListener.beforeGlobalUpdate(cliqueStates[clique.getId()]);
}
collectEvidence( clique );
distributeEvidence( clique );
if ( globalUpdateListener != null ) {
globalUpdateListener.afterGlobalUpdate(cliqueStates[clique.getId()]);
}
}
public void recurseGlobalUpdate(JunctionTreeClique clique) {
globalUpdate(clique);
List seps = clique.getChildren();
for ( JunctionTreeSeparator sep : seps ) {
recurseGlobalUpdate(sep.getChild());
}
}
public void collectEvidence(JunctionTreeClique clique) {
if ( clique.getParentSeparator() != null ) {
collectParentEvidence(clique.getParentSeparator().getParent(), clique.getParentSeparator(), clique, clique);
}
collectChildEvidence(clique, clique);
}
public void collectParentEvidence(JunctionTreeClique clique, JunctionTreeSeparator sep, JunctionTreeClique child, JunctionTreeClique startClique) {
if ( clique.getParentSeparator() != null ) {
collectParentEvidence(clique.getParentSeparator().getParent(), clique.getParentSeparator(),
clique,
startClique);
}
List seps = clique.getChildren();
for ( JunctionTreeSeparator childSep : seps ) {
if ( childSep.getChild() == child ) {
// ensure that when called from collectParentEvidence it does not re-enter the same node
continue;
}
collectChildEvidence(childSep.getChild(), startClique);
}
passMessage(clique, child.getParentSeparator(), child );
}
public void collectChildEvidence(JunctionTreeClique clique, JunctionTreeClique startClique) {
List seps = clique.getChildren();
for ( JunctionTreeSeparator sep : seps ) {
collectChildEvidence(sep.getChild(), startClique);
}
if ( clique.getParentSeparator() != null && clique != startClique ) {
// root has no parent, so we need to check.
// Do not propogate the start node into another node
passMessage(clique, clique.getParentSeparator(), clique.getParentSeparator().getParent() );
}
}
public void distributeEvidence(JunctionTreeClique clique) {
if ( clique.getParentSeparator() != null ) {
distributeParentEvidence(clique.getParentSeparator().getParent(), clique.getParentSeparator(), clique, clique);
}
distributeChildEvidence(clique, clique);
}
public void distributeParentEvidence(JunctionTreeClique clique, JunctionTreeSeparator sep, JunctionTreeClique child, JunctionTreeClique startClique) {
passMessage(child, child.getParentSeparator(), clique);
if ( clique.getParentSeparator() != null ) {
distributeParentEvidence(clique.getParentSeparator().getParent(), clique.getParentSeparator(),
clique,
startClique);
}
List seps = clique.getChildren();
for ( JunctionTreeSeparator childSep : seps ) {
if ( childSep.getChild() == child ) {
// ensure that when called from distributeParentEvidence it does not re-enter the same node
continue;
}
distributeChildEvidence(childSep.getChild(), startClique);
}
}
public void distributeChildEvidence(JunctionTreeClique clique, JunctionTreeClique startClique) {
if ( clique.getParentSeparator() != null && clique != startClique ) {
// root has no parent, so we need to check.
// Do not propogate the start node into another node
passMessage( clique.getParentSeparator().getParent(), clique.getParentSeparator(), clique );
}
List seps = clique.getChildren();
for ( JunctionTreeSeparator sep : seps ) {
distributeChildEvidence(sep.getChild(), startClique);
}
}
/**
* Passes a message from node1 to node2.
* node1 projects its trgPotentials into the separator.
* node2 then absorbs those trgPotentials from the separator.
* @param sourceClique
* @param sep
* @param targetClique
*/
public void passMessage( JunctionTreeClique sourceClique, JunctionTreeSeparator sep, JunctionTreeClique targetClique) {
double[] sepPots = separatorStates[sep.getId()].getPotentials();
double[] oldSepPots = Arrays.copyOf(sepPots, sepPots.length);
BayesVariable[] sepVars = sep.getValues().toArray(new BayesVariable[sep.getValues().size()]);
if ( passMessageListener != null ) {
passMessageListener.beforeProjectAndAbsorb(sourceClique, sep, targetClique, oldSepPots);
}
project(sepVars, cliqueStates[sourceClique.getId()], separatorStates[sep.getId()]);
if ( passMessageListener != null ) {
passMessageListener.afterProject(sourceClique, sep, targetClique, oldSepPots);
}
absorb(sepVars, cliqueStates[targetClique.getId()], separatorStates[sep.getId()], oldSepPots);
if ( passMessageListener != null ) {
passMessageListener.afterAbsorb(sourceClique, sep, targetClique, oldSepPots);
}
}
//private static void project(BayesVariable[] sepVars, JunctionTreeNode node, JunctionTreeSeparator sep) {
private static void project(BayesVariable[] sepVars, CliqueState clique, SeparatorState separator) {
//JunctionTreeNode node, JunctionTreeSeparator sep
BayesVariable[] vars = clique.getJunctionTreeClique().getValues().toArray(new BayesVariable[clique.getJunctionTreeClique().getValues().size()]);
int[] sepVarPos = PotentialMultiplier.createSubsetVarPos(vars, sepVars);
int sepVarNumberOfStates = PotentialMultiplier.createNumberOfStates(sepVars);
int[] sepVarMultipliers = PotentialMultiplier.createIndexMultipliers(sepVars, sepVarNumberOfStates);
BayesProjection p = new BayesProjection(vars, clique.getPotentials(), sepVarPos, sepVarMultipliers, separator.getPotentials());
p.project();
}
//private static void absorb(BayesVariable[] sepVars, JunctionTreeNode node, JunctionTreeSeparator sep, double[] oldSepPots ) {
private static void absorb(BayesVariable[] sepVars, CliqueState clique, SeparatorState separator, double[] oldSepPots ) {
//BayesVariable[] vars = node.getValues().toArray( new BayesVariable[node.getValues().size()] );
BayesVariable[] vars = clique.getJunctionTreeClique().getValues().toArray(new BayesVariable[clique.getJunctionTreeClique().getValues().size()]);
int[] sepVarPos = PotentialMultiplier.createSubsetVarPos(vars, sepVars);
int sepVarNumberOfStates = PotentialMultiplier.createNumberOfStates(sepVars);
int[] sepVarMultipliers = PotentialMultiplier.createIndexMultipliers(sepVars, sepVarNumberOfStates);
BayesAbsorption p = new BayesAbsorption(sepVarPos, oldSepPots, separator.getPotentials(), sepVarMultipliers, vars, clique.getPotentials());
p.absorb();
}
public BayesVariableState marginalize(String name) {
BayesVariable var = this.variables.get(name);
if ( var == null ) {
throw new IllegalArgumentException("Variable name does not exist '" + name + "'" );
}
BayesVariableState varState = varStates[var.getId()];
marginalize( varState );
return varState;
}
public T marginalize() {
Object[] args = new Object[targetParameterMap.length];
args[0] = this;
for ( int i = 1; i < targetParameterMap.length; i++) {
int id = targetParameterMap[i];
BayesVariableState varState = varStates[id];
marginalize(varState);
int highestIndex = 0;
double highestValue = 0;
int maximalCounts = 1;
for (int j = 0, length = varState.getDistribution().length;j < length; j++ ){
if ( varState.getDistribution()[j] > highestValue ) {
highestValue = varState.getDistribution()[j];
highestIndex = j;
maximalCounts = 1;
} else if ( j != 0 && varState.getDistribution()[j] == highestValue ) {
maximalCounts++;
}
}
if ( maximalCounts > 1 ) {
// have maximal conflict, so choose random one
int picked = new Random().nextInt( maximalCounts );
int count = 0;
for (int j = 0, length = varState.getDistribution().length;j < length; j++ ){
if ( varState.getDistribution()[j] == highestValue ) {
highestIndex = j;
if ( ++count > picked) {
break;
}
}
}
}
args[i] = varState.getOutcomes()[highestIndex];
}
try {
return targetConstructor.newInstance( args );
} catch (Exception e) {
throw new RuntimeException( "Unable to instantiate " + targetClass.getSimpleName() + " " + Arrays.asList( args ), e );
}
}
// public T createBayesFact() {
// Object[] args = new Object[targetParameterMap.length];
// args[0] = this;
// try {
// return targetConstructor.newInstance( args );
// } catch (Exception e) {
// throw new RuntimeException( "Unable to instantiate " + targetClass.getSimpleName() + " " + Arrays.asList( args ), e );
// }
// }
public void marginalize(BayesVariableState varState) {
CliqueState cliqueState = cliqueStates[varState.getVariable().getFamily()];
JunctionTreeClique jtNode = cliqueState.getJunctionTreeClique();
new Marginalizer(jtNode.getValues().toArray( new BayesVariable[jtNode.getValues().size()]), cliqueState.getPotentials(), varState.getVariable(), varState.getDistribution() );
// System.out.print( varState.getVariable().getName() + " " );
// for ( double d : varState.getDistribution() ) {
// System.out.print(d);
// System.out.print(" ");
// }
// System.out.println(" ");
}
public SeparatorState[] getSeparatorStates() {
return separatorStates;
}
public CliqueState[] getCliqueStates() {
return cliqueStates;
}
public BayesVariableState[] getVarStates() {
return varStates;
}
}
