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source: branches/SymbolicExpressionTreeDiversityAnalyzers/HeuristicLab.Problems.DataAnalysis.Symbolic/3.4/TreeMatching/SymbolicExpressionTreePhenotypicSimilarityCalculator.cs @ 12064

Last change on this file since 12064 was 12064, checked in by mkommend, 9 years ago

#2326: Fixed namespaces, cloning and serialization in diversity analyzer.

File size: 3.6 KB
Line 
1#region License Information
2/* HeuristicLab
3 * Copyright (C) 2002-2015 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 HeuristicLab.Common;
23using HeuristicLab.Core;
24using HeuristicLab.Data;
25using HeuristicLab.Encodings.SymbolicExpressionTreeEncoding;
26using HeuristicLab.Optimization.Operators;
27using HeuristicLab.Persistence.Default.CompositeSerializers.Storable;
28
29namespace HeuristicLab.Problems.DataAnalysis.Symbolic {
30  [Item("SymbolicExpressionTreePhenotypicSimilarityCalculator", "An operator that calculates the similarity betweeon two trees based on the correlation of their outputs.")]
31  [StorableClass]
32  public class SymbolicExpressionTreePhenotypicSimilarityCalculator : SingleObjectiveSolutionSimilarityCalculator {
33    [Storable]
34    public IDataAnalysisProblemData ProblemData { get; set; }
35    [Storable]
36    public ISymbolicDataAnalysisExpressionTreeInterpreter Interpreter { get; set; }
37
38    [StorableConstructor]
39    protected SymbolicExpressionTreePhenotypicSimilarityCalculator(bool deserializing) : base(deserializing) { }
40
41    public SymbolicExpressionTreePhenotypicSimilarityCalculator(SymbolicExpressionTreePhenotypicSimilarityCalculator original, Cloner cloner)
42      : base(original, cloner) {
43      this.ProblemData = cloner.Clone(original.ProblemData);
44      this.Interpreter = cloner.Clone(original.Interpreter);
45    }
46
47    public override IDeepCloneable Clone(Cloner cloner) {
48      return new SymbolicExpressionTreePhenotypicSimilarityCalculator(this, cloner);
49    }
50
51    public SymbolicExpressionTreePhenotypicSimilarityCalculator() {
52    }
53
54    public double CalculateSimilarity(ISymbolicExpressionTree t1, ISymbolicExpressionTree t2) {
55      var v1 = Interpreter.GetSymbolicExpressionTreeValues(t1, ProblemData.Dataset, ProblemData.TrainingIndices);
56      var v2 = Interpreter.GetSymbolicExpressionTreeValues(t2, ProblemData.Dataset, ProblemData.TrainingIndices);
57
58      OnlineCalculatorError error;
59      var r2 = OnlinePearsonsRSquaredCalculator.Calculate(v1, v2, out error);
60
61      if (r2 > 1.0)
62        r2 = 1.0;
63
64      return error == OnlineCalculatorError.None ? r2 : 0;
65    }
66
67    public override double CalculateSolutionSimilarity(IScope leftSolution, IScope rightSolution) {
68      if (leftSolution == rightSolution)
69        return 1.0;
70
71      var leftValues = (DoubleArray)leftSolution.Variables["EstimatedValues"].Value;
72      var rightValues = (DoubleArray)rightSolution.Variables["EstimatedValues"].Value;
73
74      if (leftValues.Variance().IsAlmost(0) && rightValues.Variance().IsAlmost(0))
75        return 1.0;
76
77      OnlineCalculatorError error;
78      var r2 = OnlinePearsonsRSquaredCalculator.Calculate(leftValues, rightValues, out error);
79
80      if (r2 > 1.0)
81        r2 = 1.0; // sometimes due to fp errors it can happen that the r2 is over 1 (like 1.0000000009)
82
83      return error == OnlineCalculatorError.None ? r2 : 0;
84    }
85  }
86}
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