Changeset 11997

Timestamp:

02/13/15 11:59:57 (9 years ago)

Author:

bburlacu

Message:

#2269: Removed obsolete diversity analyzer and added the new bottom-up and phenotype diversity analyzers (and similarity calculators)

Location:

branches/ALPS/HeuristicLab.Problems.DataAnalysis.Symbolic/3.4

Files:

• Analyzers/SymbolicDataAnalysisBottomUpDiversityAnalyzer.cs (copied) (copied from branches/HeuristicLab.EvolutionTracking/HeuristicLab.Problems.DataAnalysis.Symbolic/3.4/Analyzers/SymbolicDataAnalysisBottomUpDiversityAnalyzer.cs)
• Analyzers/SymbolicDataAnalysisPhenotypicDiversityAnalyzer.cs (added)
• Analyzers/SymbolicDataAnalysisPopulationDiversityAnalyzer.cs (deleted)
• HeuristicLab.Problems.DataAnalysis.Symbolic-3.4.csproj (modified) (2 diffs)
• TreeMatching/SymbolicExpressionTreeBottomUpSimilarityCalculator.cs (modified) (5 diffs)
• TreeMatching/SymbolicExpressionTreePhenotypicSimilarityCalculator.cs (copied) (copied from branches/HeuristicLab.EvolutionTracking/HeuristicLab.Problems.DataAnalysis.Symbolic/3.4/TreeMatching/SymbolicExpressionTreePhenotypicSimilarityCalculator.cs) (1 diff)

branches/ALPS/HeuristicLab.Problems.DataAnalysis.Symbolic/3.4/HeuristicLab.Problems.DataAnalysis.Symbolic-3.4.csproj

@@ -118 +118 @@
   </ItemGroup>
   <ItemGroup>
+    <Compile Include="Analyzers\SymbolicDataAnalysisBottomUpDiversityAnalyzer.cs" />
+    <Compile Include="Analyzers\SymbolicDataAnalysisPhenotypicDiversityAnalyzer.cs" />
     <Compile Include="Analyzers\SymbolicDataAnalysisSingleObjectivePruningAnalyzer.cs" />
     <Compile Include="Analyzers\SymbolicDataAnalysisSingleObjectiveValidationParetoBestSolutionAnalyzer.cs" />
@@ -240 +242 @@
     <Compile Include="TreeMatching\SymbolicExpressionTreeNodeComparer.cs" />
     <Compile Include="TreeMatching\SymbolicExpressionTreeNodeEqualityComparer.cs" />
+    <Compile Include="TreeMatching\SymbolicExpressionTreePhenotypicSimilarityCalculator.cs" />
     <None Include="HeuristicLab.snk" />
     <None Include="Plugin.cs.frame" />

branches/ALPS/HeuristicLab.Problems.DataAnalysis.Symbolic/3.4/TreeMatching/SymbolicExpressionTreeBottomUpSimilarityCalculator.cs

@@ -1 +1 @@
 #region License Information
 /* HeuristicLab
- * Copyright (C) 2002-2014 Heuristic and Evolutionary Algorithms Laboratory (HEAL)
+ * Copyright (C) 2002-2015 Heuristic and Evolutionary Algorithms Laboratory (HEAL)
  *
  * This file is part of HeuristicLab.
@@ -81 +81 @@
 
       // visit nodes in order of decreasing height to ensure correct mapping
-      var nodes1 = n1.IterateNodesPrefix().ToList();
+      var nodes1 = n1.IterateNodesPrefix().OrderByDescending(x => x.GetDepth()).ToList();
       var nodes2 = n2.IterateNodesPrefix().ToList();
       for (int i = 0; i < nodes1.Count; ++i) {
@@ -98 +98 @@
         if (w == null) continue;
 
-        // at this point we know that v and w are isomorphic, however, the mapping cannot be done directly (as in the paper) because the trees are unordered (subtree order might differ)
-        // the solution is to sort subtrees by label using IterateBreadthOrdered (this will work because the subtrees are isomorphic!) and simultaneously iterate over the two subtrees
+        // at this point we know that v and w are isomorphic, however, the mapping cannot be done directly
+        // (as in the paper) because the trees are unordered (subtree order might differ). the solution is 
+        // to sort subtrees from under commutative labels (this will work because the subtrees are isomorphic!)
+        // while iterating over the two subtrees
         var vv = IterateBreadthOrdered(v, comparer).ToList();
         var ww = IterateBreadthOrdered(w, comparer).ToList();
@@ -133 +135 @@
       foreach (var n in nodes) {
         if (n.SubtreeCount == 0) {
-          var label = Label(n);
+          var label = GetLabel(n);
           if (!labelMap.ContainsKey(label)) {
             var z = new GraphNode { SymbolicExpressionTreeNode = n, Label = label };
@@ -209 +211 @@
     }
 
-    private string Label(ISymbolicExpressionTreeNode node) {
+    private static string GetLabel(ISymbolicExpressionTreeNode node) {
       if (node.SubtreeCount > 0)
         return node.Symbol.Name;

branches/ALPS/HeuristicLab.Problems.DataAnalysis.Symbolic/3.4/TreeMatching/SymbolicExpressionTreePhenotypicSimilarityCalculator.cs

@@ -30 +30 @@
   [Item("PhenotypicSimilarityCalculator", "An operator that calculates the similarity betweeon two trees based on the correlation of their outputs.")]
   [StorableClass]
-  public class PhenotypicSimilarityCalculator : SingleObjectiveSolutionSimilarityCalculator, ISymbolicDataAnalysisExpressionSimilarityCalculator {
+  public class PhenotypicSimilarityCalculator : SingleObjectiveSolutionSimilarityCalculator {
     public IDataAnalysisProblemData ProblemData { get; set; }
     public ISymbolicDataAnalysisExpressionTreeInterpreter Interpreter { get; set; }