Changeset 9363 for branches/OaaS/HeuristicLab.Tests

Timestamp:

04/16/13 13:13:41 (11 years ago)

Author:

spimming

Message:

#1888:

• Merged revisions from trunk

Location:

branches/OaaS

Files:

• . (modified) (2 props)
• HeuristicLab.Tests (modified) (2 props)
• HeuristicLab.Tests/HeuristicLab-3.3/CollectObjectGraphTest.cs (modified) (2 diffs)
• HeuristicLab.Tests/HeuristicLab-3.3/InstantiateCreatablesTest.cs (modified) (2 diffs)
• HeuristicLab.Tests/HeuristicLab-3.3/SamplesTest.cs (modified) (16 diffs)
• HeuristicLab.Tests/HeuristicLab.Algorithms.DataAnalysis-3.4 (copied) (copied from trunk/sources/HeuristicLab.Tests/HeuristicLab.Algorithms.DataAnalysis-3.4)
• HeuristicLab.Tests/HeuristicLab.Collections-3.3 (copied) (copied from trunk/sources/HeuristicLab.Tests/HeuristicLab.Collections-3.3)
• HeuristicLab.Tests/HeuristicLab.Encodings.PermutationEncoding-3.3/UniformLikeCrossoverTest.cs (modified) (1 diff)
• HeuristicLab.Tests/HeuristicLab.Encodings.ScheduleEncoding-3.3 (copied) (copied from trunk/sources/HeuristicLab.Tests/HeuristicLab.Encodings.ScheduleEncoding-3.3)
• HeuristicLab.Tests/HeuristicLab.Encodings.SymbolicExpressionTreeEncoding-3.4/AllArchitectureAlteringOperatorsTest.cs (modified) (1 diff)
• HeuristicLab.Tests/HeuristicLab.Encodings.SymbolicExpressionTreeEncoding-3.4/FullTreeCreatorTest.cs (modified) (1 diff)
• HeuristicLab.Tests/HeuristicLab.Encodings.SymbolicExpressionTreeEncoding-3.4/GrowTreeCreatorTest.cs (modified) (1 diff)
• HeuristicLab.Tests/HeuristicLab.Encodings.SymbolicExpressionTreeEncoding-3.4/ProbabilisticTreeCreaterTest.cs (modified) (2 diffs)
• HeuristicLab.Tests/HeuristicLab.Encodings.SymbolicExpressionTreeEncoding-3.4/SubtreeCrossoverTest.cs (modified) (1 diff)
• HeuristicLab.Tests/HeuristicLab.Persistence-3.3/UseCases.cs (modified) (1 diff)
• HeuristicLab.Tests/HeuristicLab.PluginInfraStructure-3.3/TypeDiscoveryTest.cs (copied) (copied from trunk/sources/HeuristicLab.Tests/HeuristicLab.PluginInfraStructure-3.3/TypeDiscoveryTest.cs)
• HeuristicLab.Tests/HeuristicLab.Problems.DataAnalysis-3.4/StatisticCalculatorsTest.cs (modified) (1 diff)
• HeuristicLab.Tests/HeuristicLab.Problems.DataAnalysis-3.4/ThresholdCalculatorsTest.cs (copied) (copied from trunk/sources/HeuristicLab.Tests/HeuristicLab.Problems.DataAnalysis-3.4/ThresholdCalculatorsTest.cs)
• HeuristicLab.Tests/HeuristicLab.Problems.DataAnalysis.Symbolic-3.4/SymbolicDataAnalysisExpressionTreeInterpreterTest.cs (modified) (3 diffs)
• HeuristicLab.Tests/HeuristicLab.Problems.DataAnalysis.Symbolic.TimeSeriesPrognosis-3.4 (copied) (copied from trunk/sources/HeuristicLab.Tests/HeuristicLab.Problems.DataAnalysis.Symbolic.TimeSeriesPrognosis-3.4)
• HeuristicLab.Tests/HeuristicLab.Problems.Instances-3.3/QAPLIBInstanceProviderTest.cs (modified) (1 diff)
• HeuristicLab.Tests/HeuristicLab.Problems.Instances.DataAnalysis-3.3/ClassificationInstanceProviderTest.cs (modified) (1 diff)
• HeuristicLab.Tests/HeuristicLab.Problems.Instances.DataAnalysis-3.3/TableFileParserTest.cs (modified) (1 diff)
• HeuristicLab.Tests/HeuristicLab.Tests.csproj (modified) (10 diffs)

branches/OaaS

@@ -21 +21 @@
 protoc.exe
 _ReSharper.HeuristicLab 3.3 Tests
+Google.ProtocolBuffers-2.4.1.473.dll
 packages

@@ -21 +21 @@
 protoc.exe
 _ReSharper.HeuristicLab 3.3 Tests
+Google.ProtocolBuffers-2.4.1.473.dll
 packages

branches/OaaS/HeuristicLab.Tests

@@ -4 +4 @@
 *.vs10x
 _ReSharper.HeuristicLab 3.3 Tests
+*.user
+*.suo

@@ -4 +4 @@
 *.vs10x
 _ReSharper.HeuristicLab 3.3 Tests
+*.user
+*.suo

branches/OaaS/HeuristicLab.Tests/HeuristicLab-3.3/CollectObjectGraphTest.cs

@@ -59 +59 @@
       TestContext.WriteLine("Time elapsed {0}", watch.Elapsed);
       TestContext.WriteLine("Objects discovered: {0}", objects.Count());
-      TestContext.WriteLine("HL objects discovered: {0}", objects.Where(o => o.GetType().Namespace.StartsWith("HeuristicLab")).Count());
+      TestContext.WriteLine("HL objects discovered: {0}", objects.Count(o => o.GetType().Namespace.StartsWith("HeuristicLab")));
       TestContext.WriteLine("");
 
@@ -70 +70 @@
 
       foreach (string s in objects.Select(o => o.GetType().Namespace).Distinct().OrderBy(s => s)) {
-        TestContext.WriteLine("{0}: {1}", s, objects.Where(o => o.GetType().Namespace == s).Count());
+        TestContext.WriteLine("{0}: {1}", s, objects.Count(o => o.GetType().Namespace == s));
       }
       TestContext.WriteLine("");

branches/OaaS/HeuristicLab.Tests/HeuristicLab-3.3/InstantiateCreatablesTest.cs

@@ -28 +28 @@
 
 namespace HeuristicLab_33.Tests {
+
   [TestClass]
   public class InstantiateCreatablesTest {
+    // Use ClassInitialize to run code before running the first test in the class
+    [ClassInitialize]
+    public static void MyClassInitialize(TestContext testContext) {
+      PluginLoader.Assemblies.Any();
+    }
     [TestMethod]
     public void InstantiateAllCreatables() {
@@ -49 +55 @@
       }
 
-      Assert.IsTrue(!exceptions.Any());
+      Assert.IsTrue(!exceptions.Any(), string.Join(Environment.NewLine, exceptions));
     }
   }

branches/OaaS/HeuristicLab.Tests/HeuristicLab-3.3/SamplesTest.cs

@@ -23 +23 @@
 using System.Linq;
 using System.Threading;
+using HeuristicLab.Algorithms.DataAnalysis;
 using HeuristicLab.Algorithms.EvolutionStrategy;
 using HeuristicLab.Algorithms.GeneticAlgorithm;
 using HeuristicLab.Algorithms.LocalSearch;
 using HeuristicLab.Algorithms.ParticleSwarmOptimization;
+using HeuristicLab.Algorithms.RAPGA;
+using HeuristicLab.Algorithms.ScatterSearch;
 using HeuristicLab.Algorithms.SimulatedAnnealing;
 using HeuristicLab.Algorithms.TabuSearch;
@@ -34 +37 @@
 using HeuristicLab.Encodings.PermutationEncoding;
 using HeuristicLab.Encodings.RealVectorEncoding;
+using HeuristicLab.Encodings.ScheduleEncoding.JobSequenceMatrix;
 using HeuristicLab.Encodings.SymbolicExpressionTreeEncoding;
 using HeuristicLab.Optimization;
@@ -49 +53 @@
 using HeuristicLab.Problems.Instances.VehicleRouting;
 using HeuristicLab.Problems.Knapsack;
+using HeuristicLab.Problems.Scheduling;
 using HeuristicLab.Problems.TestFunctions;
 using HeuristicLab.Problems.TravelingSalesman;
@@ -56 +61 @@
 using HeuristicLab.Problems.VehicleRouting.ProblemInstances;
 using HeuristicLab.Selection;
+using HeuristicLab.SequentialEngine;
 using Microsoft.VisualStudio.TestTools.UnitTesting;
 
@@ -97 +103 @@
       ConfigureGeneticAlgorithmParameters<ProportionalSelector, OrderCrossover2, InversionManipulator>(
         ga, 100, 1, 1000, 0.05);
-
-      ga.Analyzer.Operators.SetItemCheckedState(ga.Analyzer.Operators
-        .OfType<TSPAlleleFrequencyAnalyzer>()
-        .Single(), false);
-      ga.Analyzer.Operators.SetItemCheckedState(ga.Analyzer.Operators
-        .OfType<TSPPopulationDiversityAnalyzer>()
-        .Single(), false);
       #endregion
       return ga;
@@ -132 +131 @@
 
       SolomonFormatInstanceProvider instanceProvider = new SolomonInstanceProvider();
-      IVRPData data = instanceProvider.Import("C101.txt", "C101.opt.txt");
+      CVRPTWData data = instanceProvider.Import("C101.txt", "C101.opt.txt") as CVRPTWData;
       vrpProblem.Load(data);
       vrpProblem.Name = "C101 VRP (imported from Solomon)";
@@ -190 +189 @@
       ga.SetSeedRandomly.Value = false;
       RunAlgorithm(ga);
-      Assert.AreEqual(67, GetDoubleResult(ga, "BestQuality"));
-      Assert.AreEqual(45.813, GetDoubleResult(ga, "CurrentAverageQuality"));
+      Assert.AreEqual(81, GetDoubleResult(ga, "BestQuality"));
+      Assert.AreEqual(48.19, GetDoubleResult(ga, "CurrentAverageQuality"));
       Assert.AreEqual(0, GetDoubleResult(ga, "CurrentWorstQuality"));
       Assert.AreEqual(50950, GetIntResult(ga, "EvaluatedSolutions"));
@@ -241 +240 @@
       ga.SetSeedRandomly.Value = false;
       RunAlgorithm(ga);
-      Assert.AreEqual(0.78855594192122458, GetDoubleResult(ga, "BestQuality"), 1E-8);
-      Assert.AreEqual(0.61395271071681523, GetDoubleResult(ga, "CurrentAverageQuality"), 1E-8);
+      Assert.AreEqual(0.858344291534625, GetDoubleResult(ga, "BestQuality"), 1E-8);
+      Assert.AreEqual(0.56758466520692641, GetDoubleResult(ga, "CurrentAverageQuality"), 1E-8);
       Assert.AreEqual(0, GetDoubleResult(ga, "CurrentWorstQuality"), 1E-8);
       Assert.AreEqual(50950, GetIntResult(ga, "EvaluatedSolutions"));
@@ -252 +251 @@
       SymbolicRegressionSingleObjectiveProblem symbRegProblem = new SymbolicRegressionSingleObjectiveProblem();
       symbRegProblem.Name = "Tower Symbolic Regression Problem";
-      symbRegProblem.Description = "Tower Dataset (downloaded from: http://vanillamodeling.com/realproblems.html)";
+      symbRegProblem.Description = "Tower Dataset (downloaded from: http://www.symbolicregression.com/?q=towerProblem)";
       RegressionRealWorldInstanceProvider provider = new RegressionRealWorldInstanceProvider();
-      var instance = provider.GetDataDescriptors().Where(x => x.Name.Equals("TowerData")).Single();
+      var instance = provider.GetDataDescriptors().Where(x => x.Name.Equals("Tower")).Single();
       var towerProblemData = (RegressionProblemData)provider.LoadData(instance);
       towerProblemData.TargetVariableParameter.Value = towerProblemData.TargetVariableParameter.ValidValues
@@ -273 +272 @@
         towerProblemData.InputVariables.Single(x => x.Value == "towerResponse"), false);
       towerProblemData.TrainingPartition.Start = 0;
-      towerProblemData.TrainingPartition.End = 4000;
-      towerProblemData.TestPartition.Start = 4000;
+      towerProblemData.TrainingPartition.End = 3136;
+      towerProblemData.TestPartition.Start = 3136;
       towerProblemData.TestPartition.End = 4999;
       towerProblemData.Name = "Data imported from towerData.txt";
@@ -301 +300 @@
       symbRegProblem.BestKnownQuality.Value = 0.97;
       symbRegProblem.FitnessCalculationPartition.Start = 0;
-      symbRegProblem.FitnessCalculationPartition.End = 2800;
-      symbRegProblem.ValidationPartition.Start = 2800;
-      symbRegProblem.ValidationPartition.End = 4000;
+      symbRegProblem.FitnessCalculationPartition.End = 2300;
+      symbRegProblem.ValidationPartition.Start = 2300;
+      symbRegProblem.ValidationPartition.End = 3136;
       symbRegProblem.RelativeNumberOfEvaluatedSamples.Value = 1;
       symbRegProblem.MaximumSymbolicExpressionTreeLength.Value = 150;
@@ -346 +345 @@
       ga.SetSeedRandomly.Value = false;
       RunAlgorithm(ga);
-      Assert.AreEqual(0.13775264138895371, GetDoubleResult(ga, "BestQuality"), 1E-8);
-      Assert.AreEqual(14.232802217120254, GetDoubleResult(ga, "CurrentAverageQuality"), 1E-8);
-      Assert.AreEqual(104.24339008411457, GetDoubleResult(ga, "CurrentWorstQuality"), 1E-8);
+      Assert.AreEqual(0.14458636369766503, GetDoubleResult(ga, "BestQuality"), 1E-8);
+      Assert.AreEqual(2.5613992769560352, GetDoubleResult(ga, "CurrentAverageQuality"), 1E-8);
+      Assert.AreEqual(100.62175156249987, GetDoubleResult(ga, "CurrentWorstQuality"), 1E-8);
       Assert.AreEqual(100900, GetIntResult(ga, "EvaluatedSolutions"));
+      var bestTrainingSolution = (IClassificationSolution)ga.Results["Best training solution"].Value;
+      Assert.AreEqual(0.80625, bestTrainingSolution.TrainingAccuracy, 1E-8);
+      Assert.AreEqual(0.782608695652174, bestTrainingSolution.TestAccuracy, 1E-8);
     }
 
@@ -358 +360 @@
       symbClassProblem.Name = "Mammography Classification Problem";
       symbClassProblem.Description = "Mammography dataset imported from the UCI machine learning repository (http://archive.ics.uci.edu/ml/datasets/Mammographic+Mass)";
-      ClassificationRealWorldInstanceProvider provider = new ClassificationRealWorldInstanceProvider();
-      var instance = provider.GetDataDescriptors().Where(x => x.Name.Equals("Mammography")).Single();
+      UCIInstanceProvider provider = new UCIInstanceProvider();
+      var instance = provider.GetDataDescriptors().Where(x => x.Name.Equals("Mammography, M. Elter, 2007")).Single();
       var mammoData = (ClassificationProblemData)provider.LoadData(instance);
       mammoData.TargetVariableParameter.Value = mammoData.TargetVariableParameter.ValidValues
@@ -555 +557 @@
         UnidirectionalRingMigrator, BestSelector, WorstReplacer>(
         ga, 100, 1, 1000, 0.05, 5, 50, 0.25);
-
-      ga.Analyzer.Operators.SetItemCheckedState(ga.Analyzer.Operators
-        .OfType<TSPAlleleFrequencyAnalyzer>()
-        .Single(), false);
-      ga.Analyzer.Operators.SetItemCheckedState(ga.Analyzer.Operators
-        .OfType<TSPPopulationDiversityAnalyzer>()
-        .Single(), false);
       #endregion
       return ga;
@@ -836 +831 @@
       ts.TabuTenure.Value = 60;
 
-      ts.Analyzer.Operators.SetItemCheckedState(ts.Analyzer.Operators
-        .OfType<TSPAlleleFrequencyAnalyzer>()
-        .Single(), false);
-      ts.Analyzer.Operators.SetItemCheckedState(ts.Analyzer.Operators
-        .OfType<TSPPopulationDiversityAnalyzer>()
-        .Single(), false);
       #endregion
       ts.Engine = new ParallelEngine();
@@ -920 +909 @@
         .Single(), false);
       vns.ShakingOperator = shakingOperator;
-      vns.Analyzer.Operators.SetItemCheckedState(vns.Analyzer.Operators
-        .OfType<TSPAlleleFrequencyAnalyzer>()
-        .Single(), false);
-      vns.Analyzer.Operators.SetItemCheckedState(vns.Analyzer.Operators
-        .OfType<TSPPopulationDiversityAnalyzer>()
-        .Single(), false);
       #endregion
       vns.Engine = new ParallelEngine();
       return vns;
+    }
+    #endregion
+    #endregion
+
+
+    #region Gaussian Process Regression
+    [TestMethod]
+    public void CreateGaussianProcessRegressionSampleTest() {
+      var vns = CreateGaussianProcessRegressionSample();
+      XmlGenerator.Serialize(vns, "../../GaussianProcessRegression.hl");
+    }
+    [TestMethod]
+    public void RunGaussianProcessRegressionSample() {
+      var gpr = CreateGaussianProcessRegressionSample();
+      gpr.SetSeedRandomly = false;
+      gpr.Seed = 1618551877;
+      RunAlgorithm(gpr);
+      Assert.AreEqual(-940.48768748097029, GetDoubleResult(gpr, "NegativeLogLikelihood"));
+      Assert.AreEqual(0.99561947047986976, GetDoubleResult(gpr, "Training R²"));
+    }
+
+    private GaussianProcessRegression CreateGaussianProcessRegressionSample() {
+      var gpr = new GaussianProcessRegression();
+      var provider = new VariousInstanceProvider();
+      var instance = provider.GetDataDescriptors().Where(x => x.Name.Contains("Spatial co-evolution")).Single();
+      var regProblem = new RegressionProblem();
+      regProblem.Load(provider.LoadData(instance));
+      #region Algorithm Configuration
+      gpr.Name = "Gaussian Process Regression";
+      gpr.Description = "A Gaussian process regression algorithm applied to the spatial co-evolution benchmark problem.";
+      gpr.Problem = regProblem;
+
+      gpr.CovarianceFunction = new CovarianceSquaredExponentialIso();
+      gpr.MeanFunction = new MeanConst();
+      gpr.MinimizationIterations = 20;
+      gpr.Seed = 0;
+      gpr.SetSeedRandomly = true;
+      #endregion
+      gpr.Engine = new ParallelEngine();
+      return gpr;
+    }
+    #endregion
+
+    #region Scatter Search
+    #region VRP
+    [TestMethod]
+    public void CreateScatterSearchVRPSampleTest() {
+      var ss = CreateScatterSearchVRPSample();
+      XmlGenerator.Serialize(ss, "../../SS_VRP.hl");
+    }
+
+    [TestMethod]
+    public void RunScatterSearchVRPSampleTest() {
+      var ss = CreateScatterSearchVRPSample();
+      ss.SetSeedRandomly.Value = false;
+      RunAlgorithm(ss);
+      Assert.AreEqual(828.93686694283383, GetDoubleResult(ss, "BestQuality"));
+      Assert.AreEqual(868.63623986983077, GetDoubleResult(ss, "CurrentAverageQuality"));
+      Assert.AreEqual(1048.8333559209832, GetDoubleResult(ss, "CurrentWorstQuality"));
+      Assert.AreEqual(262622, GetIntResult(ss, "EvaluatedSolutions"));
+    }
+
+    private ScatterSearch CreateScatterSearchVRPSample() {
+      #region Problem Configuration
+      var provider = new SolomonInstanceProvider();
+      var instance = provider.GetDataDescriptors().Single(x => x.Name == "C101");
+      VehicleRoutingProblem vrpProblem = new VehicleRoutingProblem();
+      vrpProblem.Load(provider.LoadData(instance));
+      #endregion
+
+      #region Algorithm Configuration
+      ScatterSearch ss = new ScatterSearch();
+      ss.Engine = new SequentialEngine();
+      ss.Name = "Scatter Search - VRP";
+      ss.Description = "A scatter search algorithm which solves the \"C101\" vehicle routing problem (imported from Solomon)";
+      ss.Problem = vrpProblem;
+
+      var improver = ss.Problem.Operators.OfType<VRPIntraRouteImprovementOperator>().First();
+      improver.ImprovementAttemptsParameter.Value.Value = 15;
+      improver.SampleSizeParameter.Value.Value = 10;
+      ss.Improver = improver;
+
+      var pathRelinker = ss.Problem.Operators.OfType<VRPPathRelinker>().First();
+      pathRelinker.IterationsParameter.Value.Value = 25;
+      ss.PathRelinker = pathRelinker;
+
+      var similarityCalculator = ss.SimilarityCalculatorParameter.ValidValues.OfType<VRPSimilarityCalculator>().First();
+      ss.SimilarityCalculator = similarityCalculator;
+
+      ss.MaximumIterations.Value = 2;
+      ss.PopulationSize.Value = 20;
+      ss.ReferenceSetSize.Value = 10;
+      ss.Seed.Value = 0;
+      return ss;
+      #endregion
+    }
+    #endregion
+    #endregion
+
+    #region RAPGA
+    #region Scheduling
+    [TestMethod]
+    public void CreateRAPGASchedulingSampleTest() {
+      var ss = CreateRAPGASchedulingSample();
+      XmlGenerator.Serialize(ss, "../../RAPGA_JSSP.hl");
+    }
+
+    [TestMethod]
+    public void RunRAPGASchedulingSampleTest() {
+      var rapga = CreateRAPGASchedulingSample();
+      rapga.SetSeedRandomly.Value = false;
+      RunAlgorithm(rapga);
+      Assert.AreEqual(988.00, GetDoubleResult(rapga, "BestQuality"));
+      Assert.AreEqual(988.00, GetDoubleResult(rapga, "CurrentAverageQuality"));
+      Assert.AreEqual(988.00, GetDoubleResult(rapga, "CurrentWorstQuality"));
+      Assert.AreEqual(27100, GetIntResult(rapga, "EvaluatedSolutions"));
+    }
+
+    private RAPGA CreateRAPGASchedulingSample() {
+      #region Problem Configuration
+      JobShopSchedulingProblem problem = new JobShopSchedulingProblem();
+      #endregion
+
+      #region Algorithm Configuration
+      RAPGA rapga = new RAPGA();
+      rapga.Engine = new SequentialEngine();
+      rapga.Name = "RAPGA - Job Shop Scheduling";
+      rapga.Description = "A relevant alleles preserving genetic algorithm which solves a job shop scheduling problem";
+      rapga.Problem = problem;
+      rapga.Mutator = rapga.MutatorParameter.ValidValues.OfType<JSMSwapManipulator>().First();
+      rapga.Seed.Value = 0;
+      return rapga;
+      #endregion
     }
     #endregion

branches/OaaS/HeuristicLab.Tests/HeuristicLab.Encodings.PermutationEncoding-3.3/UniformLikeCrossoverTest.cs

@@ -1 @@
-using HeuristicLab.Core;
+#region License Information
+/* HeuristicLab
+ * Copyright (C) 2002-2012 Heuristic and Evolutionary Algorithms Laboratory (HEAL)
+ *
+ * This file is part of HeuristicLab.
+ *
+ * HeuristicLab is free software: you can redistribute it and/or modify
+ * it under the terms of the GNU General Public License as published by
+ * the Free Software Foundation, either version 3 of the License, or
+ * (at your option) any later version.
+ *
+ * HeuristicLab 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 General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License
+ * along with HeuristicLab. If not, see <http://www.gnu.org/licenses/>.
+ */
+#endregion
+
+using HeuristicLab.Core;
 using HeuristicLab.Encodings.PermutationEncoding;
 using HeuristicLab.Tests;

branches/OaaS/HeuristicLab.Tests/HeuristicLab.Encodings.SymbolicExpressionTreeEncoding-3.4/AllArchitectureAlteringOperatorsTest.cs

@@ -119 +119 @@
 
       Assert.IsTrue(failedEvents * 100.0 / (POPULATION_SIZE * N_ITERATIONS / 2.0) < 75.0); // 25% of architecture operations must succeed
-      Assert.IsTrue(Math.Round(1000.0 / (msPerOperation)) > 800); // must achieve more than 800 ops per second
+      //mkommend: commented due to performance issues on the builder
+      // Assert.IsTrue(Math.Round(1000.0 / (msPerOperation)) > 800); // must achieve more than 800 ops per second
     }
   }

branches/OaaS/HeuristicLab.Tests/HeuristicLab.Encodings.SymbolicExpressionTreeEncoding-3.4/FullTreeCreatorTest.cs

@@ -84 +84 @@
         "Total nodes created: " + count + Environment.NewLine
         );
-      Assert.IsTrue(Math.Round(1000.0 / (msPerRandomTreeCreation)) > 300); // must achieve more than 300 random trees / s
+      //mkommend: commented due to performance issues on the builder
+      //Assert.IsTrue(Math.Round(1000.0 / (msPerRandomTreeCreation)) > 300); // must achieve more than 300 random trees / s
     }
   }

branches/OaaS/HeuristicLab.Tests/HeuristicLab.Encodings.SymbolicExpressionTreeEncoding-3.4/GrowTreeCreatorTest.cs

@@ -83 +83 @@
         "Total nodes created: " + count + Environment.NewLine
         );
-      Assert.IsTrue(Math.Round(1000.0 / (msPerRandomTreeCreation)) > 300); // must achieve more than 300 random trees / s
+      //mkommend: commented due to performance issues on the builder
+      //Assert.IsTrue(Math.Round(1000.0 / (msPerRandomTreeCreation)) > 300); // must achieve more than 300 random trees / s
     }
   }

branches/OaaS/HeuristicLab.Tests/HeuristicLab.Encodings.SymbolicExpressionTreeEncoding-3.4/ProbabilisticTreeCreaterTest.cs

@@ -79 +79 @@
         "Total nodes created: " + count + Environment.NewLine
         );
-      Assert.IsTrue(Math.Round(1000.0 / (msPerRandomTreeCreation)) > 250); // must achieve more than 250 random trees / s
+      //mkommend: commented due to performance issues on the builder
+      // Assert.IsTrue(Math.Round(1000.0 / (msPerRandomTreeCreation)) > 250); // must achieve more than 250 random trees / s
     }
 
@@ -102 +103 @@
         ProbabilisticTreeCreator_Accessor.TryCreateFullTreeFromSeed(random, startNode, targetTreeSize, ((int)Math.Log(targetTreeSize, 2)) + 1);
         tree.Root = rootNode;
-        Assert.AreEqual(targetTreeSize + 2, tree.Length);  //the root and start node must be additionally added
+        //mkommend: commented due to performance issues on the builder
+        // Assert.AreEqual(targetTreeSize + 2, tree.Length);  //the root and start node must be additionally added
       }
     }

branches/OaaS/HeuristicLab.Tests/HeuristicLab.Encodings.SymbolicExpressionTreeEncoding-3.4/SubtreeCrossoverTest.cs

@@ -82 +82 @@
         );
 
-      Assert.IsTrue(Math.Round(1000.0 / (msPerCrossoverEvent)) > 2000); // must achieve more than 2000 x-overs/s
+      //mkommend: commented due to performance issues on the builder
+      //Assert.IsTrue(Math.Round(1000.0 / (msPerCrossoverEvent)) > 2000); // must achieve more than 2000 x-overs/s
     }
   }

branches/OaaS/HeuristicLab.Tests/HeuristicLab.Persistence-3.3/UseCases.cs

@@ -1323 +1323 @@
     }
 
+    public class G<T,T2> {
+      public class S {}
+      public class S2<T3,T4> {}
+    }
+
+    [TestMethod]
+    public void TestInternalClassOfGeneric() {
+      var s = new G<int, char>.S();
+      var typeName = s.GetType().AssemblyQualifiedName;
+      Assert.AreEqual(
+        "UseCases.G<Int32,Char>.S",
+        TypeNameParser.Parse(typeName).GetTypeNameInCode(false));
+      XmlGenerator.Serialize(s, tempFile);
+      var s1 = XmlParser.Deserialize(tempFile);
+    }
+
+    [TestMethod]
+    public void TestInternalClassOfGeneric2() {
+      var s = new G<int, float>.S2<int, char>();
+      var typeName = s.GetType().AssemblyQualifiedName;
+      Assert.AreEqual(
+        "UseCases.G<Int32,Single>.S2<Int32,Char>",
+        TypeNameParser.Parse(typeName).GetTypeNameInCode(false));
+      XmlGenerator.Serialize(s, tempFile);
+      var s1 = XmlParser.Deserialize(tempFile);
+    }
+
     [ClassInitialize]
     public static void Initialize(TestContext testContext) {

branches/OaaS/HeuristicLab.Tests/HeuristicLab.Problems.DataAnalysis-3.4/StatisticCalculatorsTest.cs

@@ -139 +139 @@
       }
     }
+
+    [TestMethod]
+    public void CalculateHoeffdingsDTest() {
+      OnlineCalculatorError error;
+      // direct perfect dependency
+      var xs = new double[] { 1.0, 2.0, 3.0, 4.0, 5.0, 6.0, 7.0, 8.0 };
+      var ys = new double[] { 2.0, 3.0, 4.0, 5.0, 6.0, 7.0, 8.0, 9.0 };
+      var d = HoeffdingsDependenceCalculator.CalculateHoeffdings(xs, ys, out error);
+      Assert.AreEqual(error, OnlineCalculatorError.None);
+      Assert.AreEqual(d, 1.0, 1E-5);
+
+      // perfect negative dependency
+      ys = xs.Select(x => -x).ToArray();
+      d = HoeffdingsDependenceCalculator.CalculateHoeffdings(xs, ys, out error);
+      Assert.AreEqual(error, OnlineCalculatorError.None);
+      Assert.AreEqual(d, 1.0, 1E-5);
+
+      // ties
+      xs = new double[] { 1.0, 1.0, 2.0, 2.0, 3.0, 3.0, 4.0, 4.0, 5.0, 5.0, 5.0 };
+      ys = new double[] { 2.0, 2.0, 3.0, 3.0, 4.0, 4.0, 5.0, 5.0, 6.0, 6.0, 6.0 };
+      d = HoeffdingsDependenceCalculator.CalculateHoeffdings(xs, ys, out error);
+      Assert.AreEqual(error, OnlineCalculatorError.None);
+      Assert.AreEqual(d, 0.6783, 1E-5);
+
+      // ties
+      xs = new double[] { 1.0, 1.0, 1.0, 2.0, 3.0, 4.0, 5.0, 6.0, 6.0, 6.0 };
+      ys = xs.Select(x => x * x).ToArray();
+      d = HoeffdingsDependenceCalculator.CalculateHoeffdings(xs, ys, out error);
+      Assert.AreEqual(error, OnlineCalculatorError.None);
+      Assert.AreEqual(d, 0.75, 1E-5);
+
+      // degenerate
+      xs = new double[] { 1.0, 1.0, 1.0, 1.0, 1.0, 1.0, 1.0, 1.0, 1.0, 1.0 };
+      ys = new double[] { 2.0, 2.0, 2.0, 2.0, 2.0, 2.0, 2.0, 2.0, 2.0, 2.0 };
+      d = HoeffdingsDependenceCalculator.CalculateHoeffdings(xs, ys, out error);
+      Assert.AreEqual(error, OnlineCalculatorError.None);
+      Assert.AreEqual(d, -0.3516, 1E-4);
+
+
+      var normal = new HeuristicLab.Random.NormalDistributedRandom(new HeuristicLab.Random.MersenneTwister(31415), 0, 1);
+
+      xs = Enumerable.Range(0, 1000).Select(i => normal.NextDouble()).ToArray();
+      ys = Enumerable.Range(0, 1000).Select(i => normal.NextDouble()).ToArray();
+
+      // independent
+      d = HoeffdingsDependenceCalculator.CalculateHoeffdings(xs, ys, out error);
+      Assert.AreEqual(error, OnlineCalculatorError.None);
+      Assert.AreEqual(d, -0.00023, 1E-5);
+
+
+      xs = Enumerable.Range(0, 1000).Select(i => normal.NextDouble()).ToArray();
+      ys = xs.Select(x => x * x).ToArray();
+
+      d = HoeffdingsDependenceCalculator.CalculateHoeffdings(xs, ys, out error);
+      Assert.AreEqual(error, OnlineCalculatorError.None);
+      Assert.AreEqual(d, 0.25071, 1E-5);
+
+      // symmetric?
+      d = HoeffdingsDependenceCalculator.CalculateHoeffdings(ys, xs, out error);
+      Assert.AreEqual(error, OnlineCalculatorError.None);
+      Assert.AreEqual(d, 0.25071, 1E-5);
+
+    }
   }
 }

branches/OaaS/HeuristicLab.Tests/HeuristicLab.Problems.DataAnalysis.Symbolic-3.4/SymbolicDataAnalysisExpressionTreeInterpreterTest.cs

@@ -91 +91 @@
       }
       double nodesPerSec = Util.CalculateEvaluatedNodesPerSec(randomTrees, interpreter, dataset, 3);
-      Assert.IsTrue(nodesPerSec > nodesPerSecThreshold); // evaluated nodes per seconds must be larger than 15mNodes/sec
+      //mkommend: commented due to performance issues on the builder
+      // Assert.IsTrue(nodesPerSec > nodesPerSecThreshold); // evaluated nodes per seconds must be larger than 15mNodes/sec
     }
 
@@ -107 +108 @@
       }
       double nodesPerSec = Util.CalculateEvaluatedNodesPerSec(randomTrees, interpreter, dataset, 3);
-      Assert.IsTrue(nodesPerSec > nodesPerSecThreshold); // evaluated nodes per seconds must be larger than 15mNodes/sec
+      //mkommend: commented due to performance issues on the builder
+      //Assert.IsTrue(nodesPerSec > nodesPerSecThreshold); // evaluated nodes per seconds must be larger than 15mNodes/sec
     }
 
@@ -124 +126 @@
 
       double nodesPerSec = Util.CalculateEvaluatedNodesPerSec(randomTrees, interpreter, dataset, 3);
-      Assert.IsTrue(nodesPerSec > nodesPerSecThreshold); // evaluated nodes per seconds must be larger than 15mNodes/sec
+      //mkommend: commented due to performance issues on the builder
+      //Assert.IsTrue(nodesPerSec > nodesPerSecThreshold); // evaluated nodes per seconds must be larger than 15mNodes/sec
     }
 

branches/OaaS/HeuristicLab.Tests/HeuristicLab.Problems.Instances-3.3/QAPLIBInstanceProviderTest.cs

@@ -46 +46 @@
       Assert.IsTrue(erroneousInstances.Length == 0, "Some instances could not be parsed: " + Environment.NewLine + erroneousInstances.ToString());
     }
+
+    [TestMethod()]
+    public void GetMicroarrayQAPInstanceTest() {
+      var target = new MicroarrayQAPInstanceProvider();
+      StringBuilder erroneousInstances = new StringBuilder();
+      int count = 0;
+      foreach (var id in target.GetDataDescriptors()) {
+        try {
+          target.LoadData(id);
+        } catch (Exception ex) {
+          erroneousInstances.AppendLine(id.Name + ": " + ex.Message);
+        }
+        count++;
+      }
+      Assert.IsTrue(count > 0, "No problem instances were found.");
+      Assert.IsTrue(erroneousInstances.Length == 0, "Some instances could not be parsed: " + Environment.NewLine + erroneousInstances.ToString());
+    }
+
+    [TestMethod()]
+    public void GetDreznerQAPInstanceTest() {
+      var target = new DreznerQAPInstanceProvider();
+      StringBuilder erroneousInstances = new StringBuilder();
+      int count = 0;
+      foreach (var id in target.GetDataDescriptors()) {
+        try {
+          target.LoadData(id);
+        } catch (Exception ex) {
+          erroneousInstances.AppendLine(id.Name + ": " + ex.Message);
+        }
+        count++;
+      }
+      Assert.IsTrue(count > 0, "No problem instances were found.");
+      Assert.IsTrue(erroneousInstances.Length == 0, "Some instances could not be parsed: " + Environment.NewLine + erroneousInstances.ToString());
+    }
+
+    [TestMethod()]
+    public void GetTaillardQAPInstanceTest() {
+      var target = new TaillardQAPInstanceProvider();
+      StringBuilder erroneousInstances = new StringBuilder();
+      int count = 0;
+      foreach (var id in target.GetDataDescriptors()) {
+        try {
+          target.LoadData(id);
+        } catch (Exception ex) {
+          erroneousInstances.AppendLine(id.Name + ": " + ex.Message);
+        }
+        count++;
+      }
+      Assert.IsTrue(count > 0, "No problem instances were found.");
+      Assert.IsTrue(erroneousInstances.Length == 0, "Some instances could not be parsed: " + Environment.NewLine + erroneousInstances.ToString());
+    }
   }
 }

branches/OaaS/HeuristicLab.Tests/HeuristicLab.Problems.Instances.DataAnalysis-3.3/ClassificationInstanceProviderTest.cs

@@ -30 +30 @@
 
     [TestMethod()]
-    public void GetRealWorldInstanceTest() {
-      var target = new ClassificationRealWorldInstanceProvider();
+    public void UCIInstanceTest() {
+      var target = new UCIInstanceProvider();
       StringBuilder erroneousInstances = new StringBuilder();
       int count = 0;

branches/OaaS/HeuristicLab.Tests/HeuristicLab.Problems.Instances.DataAnalysis-3.3/TableFileParserTest.cs

@@ -498 +498 @@
 
     [TestMethod]
+    public void ParseEnglishSpaceSeparatedWithNamesManyColumns() {
+      string tempFileName = Path.GetTempFileName();
+      WriteToFile(tempFileName,
+      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+");
+      TableFileParser parser = new TableFileParser();
+      try {
+        parser.Parse(tempFileName);
+        Assert.AreEqual(3, parser.Rows);
+        Assert.AreEqual(4507, parser.Columns);
+      }
+      finally {
+        File.Delete(tempFileName);
+      }
+    }
+
+    [TestMethod]
     public void ParseSpaceSeparatedWithoutCommas() {
       string tempFileName = Path.GetTempFileName();

branches/OaaS/HeuristicLab.Tests/HeuristicLab.Tests.csproj

@@ -102 +102 @@
   </PropertyGroup>
   <ItemGroup>
-    <Reference Include="ALGLIB-3.5.0, Version=3.5.0.0, Culture=neutral, PublicKeyToken=ba48961d6f65dcec, processorArchitecture=MSIL">
-      <HintPath>..\bin\ALGLIB-3.5.0.dll</HintPath>
+    <Reference Include="ALGLIB-3.7.0, Version=3.7.0.0, Culture=neutral, PublicKeyToken=ba48961d6f65dcec, processorArchitecture=MSIL">
+      <HintPath>..\bin\ALGLIB-3.7.0.dll</HintPath>
     </Reference>
     <Reference Include="HeuristicLab.Algorithms.DataAnalysis-3.4, Version=3.4.0.0, Culture=neutral, PublicKeyToken=ba48961d6f65dcec, processorArchitecture=MSIL">
@@ -120 +120 @@
       <HintPath>..\bin\HeuristicLab.Algorithms.ParticleSwarmOptimization-3.3.dll</HintPath>
     </Reference>
+    <Reference Include="HeuristicLab.Algorithms.RAPGA-3.3">
+      <HintPath>..\bin\HeuristicLab.Algorithms.RAPGA-3.3.dll</HintPath>
+    </Reference>
+    <Reference Include="HeuristicLab.Algorithms.ScatterSearch-3.3">
+      <HintPath>..\bin\HeuristicLab.Algorithms.ScatterSearch-3.3.dll</HintPath>
+    </Reference>
     <Reference Include="HeuristicLab.Algorithms.SimulatedAnnealing-3.3, Version=3.3.0.0, Culture=neutral, PublicKeyToken=ba48961d6f65dcec, processorArchitecture=MSIL">
       <HintPath>..\bin\HeuristicLab.Algorithms.SimulatedAnnealing-3.3.dll</HintPath>
@@ -156 +162 @@
       <HintPath>..\bin\HeuristicLab.Encodings.RealVectorEncoding-3.3.dll</HintPath>
     </Reference>
+    <Reference Include="HeuristicLab.Encodings.ScheduleEncoding-3.3">
+      <HintPath>..\bin\HeuristicLab.Encodings.ScheduleEncoding-3.3.dll</HintPath>
+    </Reference>
+    <Reference Include="HeuristicLab.Encodings.ScheduleEncoding.Views-3.3">
+      <HintPath>..\bin\HeuristicLab.Encodings.ScheduleEncoding.Views-3.3.dll</HintPath>
+    </Reference>
     <Reference Include="HeuristicLab.Encodings.SymbolicExpressionTreeEncoding-3.4, Version=3.4.0.0, Culture=neutral, PublicKeyToken=ba48961d6f65dcec, processorArchitecture=MSIL">
       <HintPath>..\bin\HeuristicLab.Encodings.SymbolicExpressionTreeEncoding-3.4.dll</HintPath>
@@ -201 +213 @@
       <HintPath>..\bin\HeuristicLab.Problems.DataAnalysis.Symbolic.Regression-3.4.dll</HintPath>
     </Reference>
+    <Reference Include="HeuristicLab.Problems.DataAnalysis.Symbolic.TimeSeriesPrognosis-3.4, Version=3.4.0.0, Culture=neutral, PublicKeyToken=ba48961d6f65dcec, processorArchitecture=MSIL">
+      <HintPath>..\bin\HeuristicLab.Problems.DataAnalysis.Symbolic.TimeSeriesPrognosis-3.4.dll</HintPath>
+    </Reference>
     <Reference Include="HeuristicLab.Problems.Instances-3.3, Version=3.3.0.0, Culture=neutral, PublicKeyToken=ba48961d6f65dcec, processorArchitecture=MSIL">
       <HintPath>..\bin\HeuristicLab.Problems.Instances-3.3.dll</HintPath>
@@ -216 +231 @@
       <HintPath>..\bin\HeuristicLab.Problems.Instances.QAPLIB-3.3.dll</HintPath>
     </Reference>
+    <Reference Include="HeuristicLab.Problems.Instances.Scheduling-3.3, Version=3.3.0.0, Culture=neutral, PublicKeyToken=ba48961d6f65dcec, processorArchitecture=MSIL">
+      <HintPath>..\bin\HeuristicLab.Problems.Instances.Scheduling-3.3.dll</HintPath>
+    </Reference>
     <Reference Include="HeuristicLab.Problems.Instances.TSPLIB-3.3, Version=3.3.0.0, Culture=neutral, PublicKeyToken=ba48961d6f65dcec, processorArchitecture=MSIL">
       <HintPath>..\bin\HeuristicLab.Problems.Instances.TSPLIB-3.3.dll</HintPath>
@@ -236 +254 @@
     <Reference Include="HeuristicLab.Problems.QuadraticAssignment-3.3, Version=3.3.0.0, Culture=neutral, PublicKeyToken=ba48961d6f65dcec, processorArchitecture=MSIL">
       <HintPath>..\bin\HeuristicLab.Problems.QuadraticAssignment-3.3.dll</HintPath>
+    </Reference>
+    <Reference Include="HeuristicLab.Problems.Scheduling-3.3">
+      <HintPath>..\bin\HeuristicLab.Problems.Scheduling-3.3.dll</HintPath>
+    </Reference>
+    <Reference Include="HeuristicLab.Problems.Scheduling.Views-3.3">
+      <HintPath>..\bin\HeuristicLab.Problems.Scheduling.Views-3.3.dll</HintPath>
     </Reference>
     <Reference Include="HeuristicLab.Problems.TestFunctions-3.3, Version=3.3.0.0, Culture=neutral, PublicKeyToken=ba48961d6f65dcec, processorArchitecture=MSIL">
@@ -289 +313 @@
     <Compile Include="HeuristicLab-3.3\ThreadSafeLogTest.cs" />
     <Compile Include="HeuristicLab-3.3\ToStringTest.cs" />
+    <Compile Include="HeuristicLab.Algorithms.DataAnalysis-3.4\GaussianProcessModelTest.cs" />
+    <Compile Include="HeuristicLab.Algorithms.DataAnalysis-3.4\GaussianProcessFunctionsTest.cs" />
+    <Compile Include="HeuristicLab.Algorithms.DataAnalysis-3.4\GaussianProcessRegressionTest.cs" />
     <Compile Include="HeuristicLab.Analysis-3.3\MultidimensionalScalingTest.cs" />
+    <Compile Include="HeuristicLab.Collections-3.3\BidirectionalDictionaryTest.cs" />
+    <Compile Include="HeuristicLab.Collections-3.3\BidirectionalLookupTest.cs" />
+    <Compile Include="HeuristicLab.Collections-3.3\ObservableKeyedListTest.cs" />
     <Compile Include="HeuristicLab.Encodings.BinaryVectorEncoding-3.3\Auxiliary.cs" />
     <Compile Include="HeuristicLab.Encodings.BinaryVectorEncoding-3.3\NPointCrossoverTest.cs" />
@@ -334 +364 @@
     <Compile Include="HeuristicLab.Encodings.RealVectorEncoding-3.3\SinglePointCrossoverTest.cs" />
     <Compile Include="HeuristicLab.Encodings.RealVectorEncoding-3.3\UniformOnePositionManipulatorTest.cs" />
+    <Compile Include="HeuristicLab.Encodings.ScheduleEncoding-3.3\DirectScheduleGTCrossoverTest.cs" />
+    <Compile Include="HeuristicLab.Encodings.ScheduleEncoding-3.3\JSMJOXCrossoverTest.cs" />
+    <Compile Include="HeuristicLab.Encodings.ScheduleEncoding-3.3\JSMShiftChangeManipulatorTest.cs" />
+    <Compile Include="HeuristicLab.Encodings.ScheduleEncoding-3.3\JSMSXXCrossoverTest.cs" />
+    <Compile Include="HeuristicLab.Encodings.ScheduleEncoding-3.3\PWRGOXCrossoverTest.cs" />
+    <Compile Include="HeuristicLab.Encodings.ScheduleEncoding-3.3\PWRPPXCrossoverTest.cs" />
+    <Compile Include="HeuristicLab.Encodings.ScheduleEncoding-3.3\TestUtils.cs" />
     <Compile Include="HeuristicLab.Encodings.SymbolicExpressionTreeEncoding-3.4\AllArchitectureAlteringOperatorsTest.cs" />
     <Compile Include="HeuristicLab.Encodings.SymbolicExpressionTreeEncoding-3.4\ArgumentCreaterTest.cs" />
@@ -352 +389 @@
     <Compile Include="HeuristicLab.Persistence-3.3\UseCases.cs" />
     <Compile Include="HeuristicLab.PluginInfraStructure-3.3\InstallationManagerTest.cs" />
+    <Compile Include="HeuristicLab.PluginInfraStructure-3.3\TypeDiscoveryTest.cs" />
+    <Compile Include="HeuristicLab.Problems.DataAnalysis-3.4\ThresholdCalculatorsTest.cs" />
     <Compile Include="HeuristicLab.Problems.DataAnalysis-3.4\OnlineCalculatorPerformanceTest.cs" />
     <Compile Include="HeuristicLab.Problems.DataAnalysis-3.4\StatisticCalculatorsTest.cs" />
+    <Compile Include="HeuristicLab.Problems.DataAnalysis.Symbolic.TimeSeriesPrognosis-3.4\SymbolicDataAnalysisExpressionTreeInterpreterTest.cs" />
+    <Compile Include="HeuristicLab.Problems.DataAnalysis.Symbolic.TimeSeriesPrognosis-3.4\Util.cs" />
     <Compile Include="HeuristicLab.Problems.Instances.DataAnalysis-3.3\RegressionInstanceProviderTest.cs" />
     <Compile Include="HeuristicLab.Problems.Instances.DataAnalysis-3.3\TableFileParserTest.cs" />
@@ -386 +427 @@
   </ItemGroup>
   <ItemGroup>
+    <Content Include="HeuristicLab.Algorithms.DataAnalysis-3.4\co2.txt">
+      <CopyToOutputDirectory>Always</CopyToOutputDirectory>
+    </Content>
     <None Include="app.config" />
     <None Include="Builder.testsettings">

@@ -21 +21 @@
 protoc.exe
 _ReSharper.HeuristicLab 3.3 Tests
+Google.ProtocolBuffers-2.4.1.473.dll
 packages

@@ -4 +4 @@
 *.vs10x
 _ReSharper.HeuristicLab 3.3 Tests
+*.user
+*.suo