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source: branches/HeuristicLab.Hive_Milestone3/sources/HeuristicLab.GP.StructureIdentification/3.4/StandardGP.cs @ 3155

Last change on this file since 3155 was 1914, checked in by epitzer, 16 years ago

Migration of DataAnalysis, GP, GP.StructureIdentification and Modeling to new Persistence-3.3 (#603)
File size: 17.3 KB
Line 
1#region License Information
2/* HeuristicLab
3 * Copyright (C) 2002-2008 Heuristic and Evolutionary Algorithms Laboratory (HEAL)
4 *
5 * This file is part of HeuristicLab.
6 *
7 * HeuristicLab is free software: you can redistribute it and/or modify
8 * it under the terms of the GNU General Public License as published by
9 * the Free Software Foundation, either version 3 of the License, or
10 * (at your option) any later version.
11 *
12 * HeuristicLab is distributed in the hope that it will be useful,
13 * but WITHOUT ANY WARRANTY; without even the implied warranty of
14 * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
15 * GNU General Public License for more details.
16 *
17 * You should have received a copy of the GNU General Public License
18 * along with HeuristicLab. If not, see <http://www.gnu.org/licenses/>.
19 */
20#endregion
21
22using System;
23using System.Collections.Generic;
24using System.Linq;
25using System.Text;
26using HeuristicLab.Core;
27using System.Xml;
28using System.Diagnostics;
29using HeuristicLab.DataAnalysis;
30using HeuristicLab.Operators;
31using HeuristicLab.Random;
32using HeuristicLab.Selection;
33using HeuristicLab.Logging;
34using HeuristicLab.Data;
35using HeuristicLab.Operators.Programmable;
36using HeuristicLab.Modeling;
37using HeuristicLab.Persistence.Default.CompositeSerializers.Storable;
38
39namespace HeuristicLab.GP.StructureIdentification {
40
41  [EmptyStorableClass]
42  public class StandardGP : AlgorithmBase, IEditable {
43
44    public override string Name { get { return "StandardGP"; } }
45
46    public virtual int MaxGenerations {
47      get { return GetVariableInjector().GetVariable("MaxGenerations").GetValue<IntData>().Data; }
48      set { GetVariableInjector().GetVariable("MaxGenerations").GetValue<IntData>().Data = value; }
49    }
50
51    public virtual int TournamentSize {
52      get { return GetVariableInjector().GetVariable("TournamentSize").GetValue<IntData>().Data; }
53      set { GetVariableInjector().GetVariable("TournamentSize").GetValue<IntData>().Data = value; }
54    }
55
56    public double FullTreeShakingFactor {
57      get { return GetVariableInjector().GetVariable("FullTreeShakingFactor").GetValue<DoubleData>().Data; }
58      set { GetVariableInjector().GetVariable("FullTreeShakingFactor").GetValue<DoubleData>().Data = value; }
59    }
60
61    public double OnePointShakingFactor {
62      get { return GetVariableInjector().GetVariable("OnePointShakingFactor").GetValue<DoubleData>().Data; }
63      set { GetVariableInjector().GetVariable("OnePointShakingFactor").GetValue<DoubleData>().Data = value; }
64    }
65
66    public int MinInitialTreeSize {
67      get { return GetVariableInjector().GetVariable("MinInitialTreeSize").GetValue<IntData>().Data; }
68      set { GetVariableInjector().GetVariable("MinInitialTreeSize").GetValue<IntData>().Data = value; }
69    }
70
71    public override int MaxTreeSize {
72      get {
73        return base.MaxTreeSize;
74      }
75      set {
76        base.MaxTreeSize = value;
77        MinInitialTreeSize = value / 2;
78      }
79    }
80
81    public override int PopulationSize {
82      get {
83        return base.PopulationSize;
84      }
85      set {
86        base.PopulationSize = value;
87        Parents = 2 * value;
88      }
89    }
90
91    public StandardGP()
92      : base() {
93      PopulationSize = 10000;
94      MaxGenerations = 100;
95      TournamentSize = 7;
96      MutationRate = 0.15;
97      Elites = 1;
98      MaxTreeSize = 100;
99      MaxTreeHeight = 10;
100      FullTreeShakingFactor = 0.1;
101      OnePointShakingFactor = 1.0;
102      PunishmentFactor = 10.0;
103      UseEstimatedTargetValue = false;
104      SetSeedRandomly = true;
105    }
106
107    protected internal override IOperator CreateProblemInjector() {
108      return new ProblemInjector();
109    }
110
111    protected internal override IOperator CreateSelector() {
112      TournamentSelector selector = new TournamentSelector();
113      selector.Name = "Selector";
114      selector.GetVariableInfo("Selected").ActualName = "Parents";
115      selector.GetVariableInfo("GroupSize").Local = false;
116      selector.RemoveVariable("GroupSize");
117      selector.GetVariableInfo("GroupSize").ActualName = "TournamentSize";
118      return selector;
119    }
120
121    protected internal override IOperator CreateGlobalInjector() {
122      VariableInjector globalInjector = (VariableInjector)base.CreateGlobalInjector();
123      globalInjector.AddVariable(new HeuristicLab.Core.Variable("TournamentSize", new IntData()));
124      globalInjector.AddVariable(new HeuristicLab.Core.Variable("MaxGenerations", new IntData()));
125      globalInjector.AddVariable(new HeuristicLab.Core.Variable("FullTreeShakingFactor", new DoubleData()));
126      globalInjector.AddVariable(new HeuristicLab.Core.Variable("OnePointShakingFactor", new DoubleData()));
127      globalInjector.AddVariable(new HeuristicLab.Core.Variable("MinInitialTreeSize", new IntData()));
128      return globalInjector;
129    }
130
131    protected internal override IOperator CreateCrossover() {
132      StandardCrossOver crossover = new StandardCrossOver();
133      crossover.Name = "Crossover";
134      crossover.GetVariableInfo("OperatorLibrary").ActualName = "FunctionLibrary";
135      return crossover;
136    }
137
138    protected internal override IOperator CreateTreeCreator() {
139      ProbabilisticTreeCreator treeCreator = new ProbabilisticTreeCreator();
140      treeCreator.Name = "Tree generator";
141      treeCreator.GetVariableInfo("OperatorLibrary").ActualName = "FunctionLibrary";
142      treeCreator.GetVariableInfo("MinTreeSize").ActualName = "MinInitialTreeSize";
143      return treeCreator;
144    }
145
146    protected internal override IOperator CreateFunctionLibraryInjector() {
147      ConfigurableFunctionLibraryInjector funLibInjector = new ConfigurableFunctionLibraryInjector();
148      funLibInjector.GetVariableValue<BoolData>("Xor", null, false).Data = false;
149      funLibInjector.GetVariableValue<BoolData>("Average", null, false).Data = false;
150      return funLibInjector;
151    }
152
153    protected internal override IOperator CreateManipulator() {
154      CombinedOperator manipulator = new CombinedOperator();
155      manipulator.Name = "Manipulator";
156      StochasticMultiBranch multibranch = new StochasticMultiBranch();
157      FullTreeShaker fullTreeShaker = new FullTreeShaker();
158      fullTreeShaker.GetVariableInfo("OperatorLibrary").ActualName = "FunctionLibrary";
159      fullTreeShaker.GetVariableInfo("ShakingFactor").ActualName = "FullTreeShakingFactor";
160
161      OnePointShaker onepointShaker = new OnePointShaker();
162      onepointShaker.GetVariableInfo("OperatorLibrary").ActualName = "FunctionLibrary";
163      onepointShaker.GetVariableInfo("ShakingFactor").ActualName = "OnePointShakingFactor";
164      ChangeNodeTypeManipulation changeNodeTypeManipulation = new ChangeNodeTypeManipulation();
165      changeNodeTypeManipulation.GetVariableInfo("OperatorLibrary").ActualName = "FunctionLibrary";
166      CutOutNodeManipulation cutOutNodeManipulation = new CutOutNodeManipulation();
167      cutOutNodeManipulation.GetVariableInfo("OperatorLibrary").ActualName = "FunctionLibrary";
168      DeleteSubTreeManipulation deleteSubTreeManipulation = new DeleteSubTreeManipulation();
169      deleteSubTreeManipulation.GetVariableInfo("OperatorLibrary").ActualName = "FunctionLibrary";
170      SubstituteSubTreeManipulation substituteSubTreeManipulation = new SubstituteSubTreeManipulation();
171      substituteSubTreeManipulation.GetVariableInfo("OperatorLibrary").ActualName = "FunctionLibrary";
172
173      IOperator[] manipulators = new IOperator[] {
174        onepointShaker, fullTreeShaker,
175        changeNodeTypeManipulation,
176        cutOutNodeManipulation,
177        deleteSubTreeManipulation,
178        substituteSubTreeManipulation};
179
180      DoubleArrayData probabilities = new DoubleArrayData(new double[manipulators.Length]);
181      for (int i = 0; i < manipulators.Length; i++) {
182        probabilities.Data[i] = 1.0;
183        multibranch.AddSubOperator(manipulators[i]);
184      }
185      multibranch.GetVariableInfo("Probabilities").Local = true;
186      multibranch.AddVariable(new HeuristicLab.Core.Variable("Probabilities", probabilities));
187
188      manipulator.OperatorGraph.AddOperator(multibranch);
189      manipulator.OperatorGraph.InitialOperator = multibranch;
190      return manipulator;
191    }
192
193    protected internal override IOperator CreateBestSolutionProcessor() {
194      SequentialProcessor bestSolutionProcessor = new SequentialProcessor();
195      MeanSquaredErrorEvaluator testMseEvaluator = new MeanSquaredErrorEvaluator();
196      testMseEvaluator.Name = "TestMeanSquaredErrorEvaluator";
197      testMseEvaluator.GetVariableInfo("MSE").ActualName = "TestQuality";
198      testMseEvaluator.GetVariableInfo("SamplesStart").ActualName = "TestSamplesStart";
199      testMseEvaluator.GetVariableInfo("SamplesEnd").ActualName = "TestSamplesEnd";
200      MeanAbsolutePercentageErrorEvaluator trainingMapeEvaluator = new MeanAbsolutePercentageErrorEvaluator();
201      trainingMapeEvaluator.Name = "TrainingMapeEvaluator";
202      trainingMapeEvaluator.GetVariableInfo("MAPE").ActualName = "TrainingMAPE";
203      trainingMapeEvaluator.GetVariableInfo("SamplesStart").ActualName = "TrainingSamplesStart";
204      trainingMapeEvaluator.GetVariableInfo("SamplesEnd").ActualName = "TrainingSamplesEnd";
205      MeanAbsolutePercentageErrorEvaluator validationMapeEvaluator = new MeanAbsolutePercentageErrorEvaluator();
206      validationMapeEvaluator.Name = "ValidationMapeEvaluator";
207      validationMapeEvaluator.GetVariableInfo("MAPE").ActualName = "ValidationMAPE";
208      validationMapeEvaluator.GetVariableInfo("SamplesStart").ActualName = "ValidationSamplesStart";
209      validationMapeEvaluator.GetVariableInfo("SamplesEnd").ActualName = "ValidationSamplesEnd";
210      MeanAbsolutePercentageErrorEvaluator testMapeEvaluator = new MeanAbsolutePercentageErrorEvaluator();
211      testMapeEvaluator.Name = "TestMapeEvaluator";
212      testMapeEvaluator.GetVariableInfo("MAPE").ActualName = "TestMAPE";
213      testMapeEvaluator.GetVariableInfo("SamplesStart").ActualName = "TestSamplesStart";
214      testMapeEvaluator.GetVariableInfo("SamplesEnd").ActualName = "TestSamplesEnd";
215      MeanAbsolutePercentageOfRangeErrorEvaluator trainingMapreEvaluator = new MeanAbsolutePercentageOfRangeErrorEvaluator();
216      trainingMapreEvaluator.Name = "TrainingMapreEvaluator";
217      trainingMapreEvaluator.GetVariableInfo("MAPRE").ActualName = "TrainingMAPRE";
218      trainingMapreEvaluator.GetVariableInfo("SamplesStart").ActualName = "TrainingSamplesStart";
219      trainingMapreEvaluator.GetVariableInfo("SamplesEnd").ActualName = "TrainingSamplesEnd";
220      MeanAbsolutePercentageOfRangeErrorEvaluator validationMapreEvaluator = new MeanAbsolutePercentageOfRangeErrorEvaluator();
221      validationMapreEvaluator.Name = "ValidationMapreEvaluator";
222      validationMapreEvaluator.GetVariableInfo("MAPRE").ActualName = "ValidationMAPRE";
223      validationMapreEvaluator.GetVariableInfo("SamplesStart").ActualName = "ValidationSamplesStart";
224      validationMapreEvaluator.GetVariableInfo("SamplesEnd").ActualName = "ValidationSamplesEnd";
225      MeanAbsolutePercentageOfRangeErrorEvaluator testMapreEvaluator = new MeanAbsolutePercentageOfRangeErrorEvaluator();
226      testMapreEvaluator.Name = "TestMapreEvaluator";
227      testMapreEvaluator.GetVariableInfo("MAPRE").ActualName = "TestMAPRE";
228      testMapreEvaluator.GetVariableInfo("SamplesStart").ActualName = "TestSamplesStart";
229      testMapreEvaluator.GetVariableInfo("SamplesEnd").ActualName = "TestSamplesEnd";
230      CoefficientOfDeterminationEvaluator trainingR2Evaluator = new CoefficientOfDeterminationEvaluator();
231      trainingR2Evaluator.Name = "TrainingR2Evaluator";
232      trainingR2Evaluator.GetVariableInfo("R2").ActualName = "TrainingR2";
233      trainingR2Evaluator.GetVariableInfo("SamplesStart").ActualName = "TrainingSamplesStart";
234      trainingR2Evaluator.GetVariableInfo("SamplesEnd").ActualName = "TrainingSamplesEnd";
235      CoefficientOfDeterminationEvaluator validationR2Evaluator = new CoefficientOfDeterminationEvaluator();
236      validationR2Evaluator.Name = "ValidationR2Evaluator";
237      validationR2Evaluator.GetVariableInfo("R2").ActualName = "ValidationR2";
238      validationR2Evaluator.GetVariableInfo("SamplesStart").ActualName = "ValidationSamplesStart";
239      validationR2Evaluator.GetVariableInfo("SamplesEnd").ActualName = "ValidationSamplesEnd";
240      CoefficientOfDeterminationEvaluator testR2Evaluator = new CoefficientOfDeterminationEvaluator();
241      testR2Evaluator.Name = "TestR2Evaluator";
242      testR2Evaluator.GetVariableInfo("R2").ActualName = "TestR2";
243      testR2Evaluator.GetVariableInfo("SamplesStart").ActualName = "TestSamplesStart";
244      testR2Evaluator.GetVariableInfo("SamplesEnd").ActualName = "TestSamplesEnd";
245      VarianceAccountedForEvaluator trainingVAFEvaluator = new VarianceAccountedForEvaluator();
246      trainingVAFEvaluator.Name = "TrainingVAFEvaluator";
247      trainingVAFEvaluator.GetVariableInfo("VAF").ActualName = "TrainingVAF";
248      trainingVAFEvaluator.GetVariableInfo("SamplesStart").ActualName = "TrainingSamplesStart";
249      trainingVAFEvaluator.GetVariableInfo("SamplesEnd").ActualName = "TrainingSamplesEnd";
250      VarianceAccountedForEvaluator validationVAFEvaluator = new VarianceAccountedForEvaluator();
251      validationVAFEvaluator.Name = "ValidationVAFEvaluator";
252      validationVAFEvaluator.GetVariableInfo("VAF").ActualName = "ValidationVAF";
253      validationVAFEvaluator.GetVariableInfo("SamplesStart").ActualName = "ValidationSamplesStart";
254      validationVAFEvaluator.GetVariableInfo("SamplesEnd").ActualName = "ValidationSamplesEnd";
255      VarianceAccountedForEvaluator testVAFEvaluator = new VarianceAccountedForEvaluator();
256      testVAFEvaluator.Name = "TestVAFEvaluator";
257      testVAFEvaluator.GetVariableInfo("VAF").ActualName = "TestVAF";
258      testVAFEvaluator.GetVariableInfo("SamplesStart").ActualName = "TestSamplesStart";
259      testVAFEvaluator.GetVariableInfo("SamplesEnd").ActualName = "TestSamplesEnd";
260
261      ProgrammableOperator progOperator = new ProgrammableOperator();
262      progOperator.RemoveVariableInfo("Result");
263      progOperator.AddVariableInfo(new HeuristicLab.Core.VariableInfo("EvaluatedSolutions", "", typeof(IntData), VariableKind.In));
264      progOperator.Code = @"
265int evalSolutions = EvaluatedSolutions.Data;
266scope.AddVariable(new Variable(""EvaluatedSolutions"", new IntData(evalSolutions)));
267";
268      bestSolutionProcessor.AddSubOperator(testMseEvaluator);
269      bestSolutionProcessor.AddSubOperator(trainingMapeEvaluator);
270      bestSolutionProcessor.AddSubOperator(validationMapeEvaluator);
271      bestSolutionProcessor.AddSubOperator(testMapeEvaluator);
272      bestSolutionProcessor.AddSubOperator(trainingMapreEvaluator);
273      bestSolutionProcessor.AddSubOperator(validationMapreEvaluator);
274      bestSolutionProcessor.AddSubOperator(testMapreEvaluator);
275      bestSolutionProcessor.AddSubOperator(trainingR2Evaluator);
276      bestSolutionProcessor.AddSubOperator(validationR2Evaluator);
277      bestSolutionProcessor.AddSubOperator(testR2Evaluator);
278      bestSolutionProcessor.AddSubOperator(trainingVAFEvaluator);
279      bestSolutionProcessor.AddSubOperator(validationVAFEvaluator);
280      bestSolutionProcessor.AddSubOperator(testVAFEvaluator);
281      bestSolutionProcessor.AddSubOperator(progOperator);
282      return bestSolutionProcessor;
283    }
284
285    protected internal override IOperator CreateLoggingOperator() {
286      CombinedOperator loggingOperator = new CombinedOperator();
287      loggingOperator.Name = "Logging";
288      SequentialProcessor seq = new SequentialProcessor();
289
290      DataCollector collector = new DataCollector();
291      ItemList<StringData> names = collector.GetVariable("VariableNames").GetValue<ItemList<StringData>>();
292      names.Add(new StringData("BestQuality"));
293      names.Add(new StringData("AverageQuality"));
294      names.Add(new StringData("WorstQuality"));
295      names.Add(new StringData("BestValidationQuality"));
296      names.Add(new StringData("AverageValidationQuality"));
297      names.Add(new StringData("WorstValidationQuality"));
298      LinechartInjector lineChartInjector = new LinechartInjector();
299      lineChartInjector.GetVariableInfo("Linechart").ActualName = "Quality Linechart";
300      lineChartInjector.GetVariable("NumberOfLines").GetValue<IntData>().Data = 6;
301      QualityLogger qualityLogger = new QualityLogger();
302      QualityLogger validationQualityLogger = new QualityLogger();
303      validationQualityLogger.Name = "ValidationQualityLogger";
304      validationQualityLogger.GetVariableInfo("Quality").ActualName = "ValidationQuality";
305      validationQualityLogger.GetVariableInfo("QualityLog").ActualName = "ValidationQualityLog";
306
307      seq.AddSubOperator(collector);
308      seq.AddSubOperator(lineChartInjector);
309      seq.AddSubOperator(qualityLogger);
310      seq.AddSubOperator(validationQualityLogger);
311
312      loggingOperator.OperatorGraph.AddOperator(seq);
313      loggingOperator.OperatorGraph.InitialOperator = seq;
314      return loggingOperator;
315    }
316
317    protected internal override Model CreateGPModel(IScope bestModelScope) {
318      Model model = base.CreateGPModel(bestModelScope);
319      model.TestMeanSquaredError = bestModelScope.GetVariableValue<DoubleData>("TestQuality", false).Data;
320      return model;
321    }
322
323    public virtual IEditor CreateEditor() {
324      return new StandardGpEditor(this);
325    }
326
327    public override IView CreateView() {
328      return new StandardGpEditor(this);
329    }
330  }
331}
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