Diversity analyzers based on the genotypic and phenotypic tree similarity measures

[bburlacu]

The SingleObjectivePopulationDiversityAnalyzer cannot be configured with different similarity calculators. Therefore, it would be cool to have dedicated diversity analyzers for each similarity measure that can be used for symbolic expression trees.

[bburlacu]

r12028: Branched HeuristicLab.Problems.DataAnalysis.Symbolic, initial commit.

[bburlacu]

r12029: Implemented analyzers

[bburlacu]

r12030: Added PreBuildEvent.cmd and fixed error.

[mkommend]

Review comments:

• Namespaces are wrong
• Access modifiers are missing
• SymbolicClassificationPhenotypicDiversityAnalyzer should use the threshold calculator provided by the problem
• Reuse discriminant classification model for threshold calculation, estimated class values, etc.
• Wiring code for diversity analyzers is missing in problems.
• Improve naming of results.
• Similarities are not 1.0 for equal solutions (both phenotypic and bottom-up).

[bburlacu]

r12049: Addressed the issues found by the reviewer:

• fixed namespaces
• made UseClassValues property private
• used the model creator provided by the problem to create models and retrieve estimated values
• wired analyzers in the problems (classification, regression, data analysis)
• naming of results will be handled separately in #2333
• partially fixed similarities: could find nothing wrong with bottom-up similarities, but for the phenotypic similarities, the reason the similarity values were not 1.0 was because for constant sequences with variance 0, the R2 value was always 0 (regardless if the sequences were equal), therefore some constant models had similarity 0 (instead of 1)

[bburlacu]

r12055: Implemented a workaround for the case in which both sequences have zero variance, and decided to return a similarity value of 1.

[mkommend]

r12064: Fixed namespaces, cloning and serialization in diversity analyzer.

[mkommend]

Review comments:

• problem and interpreter for phenotypic similarity calculator are never set!
• SymbolicExpressionTreePhenotypicSimilarityCalculator.CalculateSolutionSimilarity should check if estimated values are present
• Check for similarities of solutions with zero variance was only added to one method for similarity calculation

[bburlacu]

r12068: Fixed mistakes and wired similarity calculators directly into the problem and correctly initialized the properties of the phenotypic similarity calculator.

[bburlacu]

r12075: Adapted code in the diversity analyzers according to the new base class. Improved wiring of similarity calculators and analyzers.

[bburlacu]

r12086: Moved phenotypic diversity analyzers one level up (since they can be applied to both single- and multiobjective problems). Added wiring in the multiobjective problems. Changed base class to SolutionSimilarityCalculator and adjusted analyzers.

[mkommend]

r12103: Merged all branch changes in the trunk.

[mkommend]

#2332 must be released before this ticket.

[mkommend]

r12108: Reverted namespace corrections for classification MSE evaluator and multi symbolic expression tree creator, because these break the backwards compatibility.

[mkommend]

r12110: Accidentally changed the wrong namespace in r12108.

[mkommend]

r12122: Forgot to commit merge info for diversity analyzers.

[mkommend]

Reviewed r12103, r12108, r12110 and r12122.

[mkommend]

r12281: Merged r12103, 12108, r12110 and r12122 into stable.