/*
* Operator.java
*
* Copyright (c) 2002-2015 Alexei Drummond, Andrew Rambaut and Marc Suchard
*
* This file is part of BEAST.
* See the NOTICE file distributed with this work for additional
* information regarding copyright ownership and licensing.
*
* BEAST is free software; you can redistribute it and/or modify
* it under the terms of the GNU Lesser General Public License as
* published by the Free Software Foundation; either version 2
* of the License, or (at your option) any later version.
*
* BEAST is distributed in the hope that it will be useful,
* but WITHOUT ANY WARRANTY; without even the implied warranty of
* MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
* GNU Lesser General Public License for more details.
*
* You should have received a copy of the GNU Lesser General Public
* License along with BEAST; if not, write to the
* Free Software Foundation, Inc., 51 Franklin St, Fifth Floor,
* Boston, MA 02110-1301 USA
*/
package dr.app.beauti.options;
import dr.app.beauti.types.OperatorType;
import java.io.Serializable;
import java.util.Map;
/**
* @author Alexei Drummond
* @author Andrew Rambaut
* @author Walter Xie
*/
public class Operator implements Serializable {
private static final long serialVersionUID = -1165043783660638155L;
private String prefix = null;
// final
private String baseName;
private final String description;
private final OperatorType operatorType;
private final Parameter parameter1;
private final Parameter parameter2;
private final PartitionOptions options;
private final String tag;
// editable
private double tuning;
private double weight;
private boolean tuningEdited = false;
private boolean isUsed = true;
private boolean autoOptimize = true;
private String idref;
public static class Builder {
// Required para
private final String baseName;
private final String description;
private final Parameter parameter1;
private final OperatorType operatorType;
private final double tuning;
private final double weight;
// Optional para - initialized to default values
private Parameter parameter2 = null;
private PartitionOptions options = null;
private String tag = null;
private String idref = null;
private boolean autoOptimize = true;
public Builder(String name, String description, Parameter parameter, OperatorType type, double tuning, double weight) {
this.baseName = name;
this.description = description;
this.parameter1 = parameter;
this.operatorType = type;
this.tuning = tuning;
this.weight = weight;
}
public Builder parameter2(Parameter parameter2) {
this.parameter2 = parameter2;
return this;
}
public Builder partitionOptions(PartitionOptions options) {
this.options = options;
return this;
}
public Builder tag(String tag) {
this.tag = tag;
return this;
}
public Builder idref(String idref) {
this.idref = idref;
return this;
}
public Builder autoOptimize(boolean autoOptimize) {
this.autoOptimize = autoOptimize;
return this;
}
public Operator build() {
return new Operator(this);
}
public Operator build(Map<String, Operator> map) {
final Operator operator = new Operator(this);
map.put(baseName, operator);
return operator;
}
}
private Operator(Builder builder) {
baseName = builder.baseName;
description = builder.description;
parameter1 = builder.parameter1;
operatorType = builder.operatorType;
tuning = builder.tuning;
weight = builder.weight;
parameter2 = builder.parameter2;
options = builder.options;
tag = builder.tag;
idref = builder.idref;
isUsed = true;
tuningEdited = false;
autoOptimize = builder.autoOptimize;
}
//+++++++++++++++++++++++++++++++++++++++++++++++++++++
public String getDescription() {
if (description == null || description.length() == 0) {
String prefix = "";
if (operatorType == OperatorType.SCALE || operatorType == OperatorType.SCALE_ALL) {
prefix = "Scales the ";
} else if (operatorType == OperatorType.RANDOM_WALK) {
prefix = "A random-walk on the ";
}
return prefix + parameter1.getDescription();
} else {
return description;
}
}
public boolean isTunable() {
return tuning > 0;
}
public String getTag() {
return tag;
}
public String getIdref() {
return idref;
}
public double getWeight() {
return weight;
}
public void setWeight(double weight) {
this.weight = weight;
}
public double getTuning() {
return tuning;
}
public void setTuning(double tuning) {
this.tuning = tuning;
tuningEdited = true;
}
public boolean isTuningEdited() {
return tuningEdited;
}
public OperatorType getOperatorType() {
return operatorType;
}
public boolean isUsed() {
return isParameterFixed() ? false : isUsed;
}
public void setUsed(boolean used) {
this.isUsed = used;
}
public boolean isAutoOptimize() {
return autoOptimize;
}
public boolean isParameterFixed() {
return parameter1 != null && parameter1.isFixed();
}
public Parameter getParameter1() {
return parameter1;
}
public Parameter getParameter2() {
return parameter2;
}
public void setPrefix(String prefix) {
this.prefix = prefix;
}
public PartitionOptions getOptions() {
return options;
}
public String getPrefix() {
return prefix;
}
public String getName() {
String name = baseName;
if (prefix != null) {
name = prefix + baseName;
}
return name;
}
public void setName(String name) {
this.baseName = name;
}
public String getBaseName() {
return baseName;
}
}