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Ignore:
Timestamp:
01/13/17 12:55:06 (7 years ago)
Author:
abeham
Message:

#2701: Updated branch to trunk

Location:
branches/MemPRAlgorithm
Files:
25 edited

Legend:

Unmodified
Added
Removed

  • branches/MemPRAlgorithm

  • branches/MemPRAlgorithm/HeuristicLab.Algorithms.DataAnalysis

  • branches/MemPRAlgorithm/HeuristicLab.Algorithms.DataAnalysis/3.4/BaselineClassifiers/OneR.cs

    r14185 r14562  
    2222using System.Collections.Generic;
    2323using System.Linq;
     24using System.Threading;
    2425using HeuristicLab.Common;
    2526using HeuristicLab.Core;
    … …  
    5859    }
    5960
    60     protected override void Run() {
     61    protected override void Run(CancellationToken cancellationToken) {
    6162      var solution = CreateOneRSolution(Problem.ProblemData, MinBucketSizeParameter.Value.Value);
    6263      Results.Add(new Result("OneR solution", "The 1R classifier.", solution));

  • branches/MemPRAlgorithm/HeuristicLab.Algorithms.DataAnalysis/3.4/BaselineClassifiers/ZeroR.cs

    r14185 r14562  
    2121
    2222using System.Linq;
     23using System.Threading;
    2324using HeuristicLab.Common;
    2425using HeuristicLab.Core;
    … …  
    4950    }
    5051
    51     protected override void Run() {
     52    protected override void Run(CancellationToken cancellationToken) {
    5253      var solution = CreateZeroRSolution(Problem.ProblemData);
    5354      Results.Add(new Result("ZeroR solution", "The simplest possible classifier, ZeroR always predicts the majority class.", solution));

  • branches/MemPRAlgorithm/HeuristicLab.Algorithms.DataAnalysis/3.4/FixedDataAnalysisAlgorithm.cs

    r14185 r14562  
    2121
    2222using System;
    23 using System.Threading;
    24 using System.Threading.Tasks;
    2523using HeuristicLab.Common;
    2624using HeuristicLab.Optimization;
    … …  
    3028namespace HeuristicLab.Algorithms.DataAnalysis {
    3129  [StorableClass]
    32   public abstract class FixedDataAnalysisAlgorithm<T> : Algorithm,
    33     IDataAnalysisAlgorithm<T>,
    34     IStorableContent
    35     where T : class, IDataAnalysisProblem {
    36     public string Filename { get; set; }
    37 
     30  public abstract class FixedDataAnalysisAlgorithm<T> : BasicAlgorithm where T : class, IDataAnalysisProblem {
    3831    #region Properties
    3932    public override Type ProblemType {
    … …  
    4437      set { base.Problem = value; }
    4538    }
    46     [Storable]
    47     private ResultCollection results;
    48     public override ResultCollection Results {
    49       get { return results; }
    50     }
    5139    #endregion
    5240
    53     private DateTime lastUpdateTime;
     41    public override bool SupportsPause { get { return false; } }
    5442
    5543    [StorableConstructor]
    5644    protected FixedDataAnalysisAlgorithm(bool deserializing) : base(deserializing) { }
    57     protected FixedDataAnalysisAlgorithm(FixedDataAnalysisAlgorithm<T> original, Cloner cloner)
    58       : base(original, cloner) {
    59       results = cloner.Clone(original.Results);
    60     }
    61     public FixedDataAnalysisAlgorithm()
    62       : base() {
    63       results = new ResultCollection();
    64     }
    65 
    66     public override void Prepare() {
    67       if (Problem != null) base.Prepare();
    68       results.Clear();
    69       OnPrepared();
    70     }
    71 
    72     public override void Start() {
    73       base.Start();
    74       var cancellationTokenSource = new CancellationTokenSource();
    75 
    76       OnStarted();
    77       Task task = Task.Factory.StartNew(Run, cancellationTokenSource.Token, cancellationTokenSource.Token);
    78       task.ContinueWith(t => {
    79         try {
    80           t.Wait();
    81         }
    82         catch (AggregateException ex) {
    83           try {
    84             ex.Flatten().Handle(x => x is OperationCanceledException);
    85           }
    86           catch (AggregateException remaining) {
    87             if (remaining.InnerExceptions.Count == 1) OnExceptionOccurred(remaining.InnerExceptions[0]);
    88             else OnExceptionOccurred(remaining);
    89           }
    90         }
    91         cancellationTokenSource.Dispose();
    92         cancellationTokenSource = null;
    93         OnStopped();
    94       });
    95     }
    96     private void Run(object state) {
    97       CancellationToken cancellationToken = (CancellationToken)state;
    98       lastUpdateTime = DateTime.UtcNow;
    99       System.Timers.Timer timer = new System.Timers.Timer(250);
    100       timer.AutoReset = true;
    101       timer.Elapsed += new System.Timers.ElapsedEventHandler(timer_Elapsed);
    102       timer.Start();
    103       try {
    104         Run();
    105       }
    106       finally {
    107         timer.Elapsed -= new System.Timers.ElapsedEventHandler(timer_Elapsed);
    108         timer.Stop();
    109         ExecutionTime += DateTime.UtcNow - lastUpdateTime;
    110       }
    111 
    112       cancellationToken.ThrowIfCancellationRequested();
    113     }
    114     protected abstract void Run();
    115     #region Events
    116     protected override void OnProblemChanged() {
    117       Problem.Reset += new EventHandler(Problem_Reset);
    118       base.OnProblemChanged();
    119     }
    120     private void timer_Elapsed(object sender, System.Timers.ElapsedEventArgs e) {
    121       System.Timers.Timer timer = (System.Timers.Timer)sender;
    122       timer.Enabled = false;
    123       DateTime now = DateTime.UtcNow;
    124       ExecutionTime += now - lastUpdateTime;
    125       lastUpdateTime = now;
    126       timer.Enabled = true;
    127     }
    128     #endregion
     45    protected FixedDataAnalysisAlgorithm(FixedDataAnalysisAlgorithm<T> original, Cloner cloner) : base(original, cloner) { }
     46    public FixedDataAnalysisAlgorithm() : base() { }
    12947
    13048  }

  • branches/MemPRAlgorithm/HeuristicLab.Algorithms.DataAnalysis/3.4/GBM/GradientBoostingRegressionAlgorithm.cs

    r14185 r14562  
    4444  [StorableClass]
    4545  [Creatable(CreatableAttribute.Categories.DataAnalysisRegression, Priority = 350)]
    46   public class GradientBoostingRegressionAlgorithm : BasicAlgorithm {
    47     public override Type ProblemType {
    48       get { return typeof(IRegressionProblem); }
    49     }
    50 
    51     public new IRegressionProblem Problem {
    52       get { return (IRegressionProblem)base.Problem; }
    53       set { base.Problem = value; }
    54     }
     46  public class GradientBoostingRegressionAlgorithm : FixedDataAnalysisAlgorithm<IRegressionProblem> {
    5547
    5648    #region ParameterNames

  • branches/MemPRAlgorithm/HeuristicLab.Algorithms.DataAnalysis/3.4/GaussianProcess/GaussianProcessBase.cs

    r14185 r14562  
    2121#endregion
    2222
     23using System.Linq;
    2324using HeuristicLab.Algorithms.GradientDescent;
    2425using HeuristicLab.Common;
    … …  
    119120
    120121      // necessary for BFGS
    121       Parameters.Add(new ValueParameter<BoolValue>("Maximization", new BoolValue(false)));
    122       Parameters["Maximization"].Hidden = true;
     122      Parameters.Add(new FixedValueParameter<BoolValue>("Maximization (BFGS)", new BoolValue(false)));
     123      Parameters["Maximization (BFGS)"].Hidden = true;
    123124
    124125      var randomCreator = new HeuristicLab.Random.RandomCreator();
    … …  
    164165      modelCreator.Successor = updateResults;
    165166
     167      updateResults.MaximizationParameter.ActualName = "Maximization (BFGS)";
    166168      updateResults.StateParameter.ActualName = bfgsInitializer.StateParameter.Name;
    167169      updateResults.QualityParameter.ActualName = NegativeLogLikelihoodParameterName;
    … …  
    197199      // BackwardsCompatibility3.4
    198200      #region Backwards compatible code, remove with 3.5
    199       if (!Parameters.ContainsKey("Maximization")) {
    200         Parameters.Add(new ValueParameter<BoolValue>("Maximization", new BoolValue(false)));
    201         Parameters["Maximization"].Hidden = true;
     201      if (Parameters.ContainsKey("Maximization")) {
     202        Parameters.Remove("Maximization");
     203      }
     204
     205      if (!Parameters.ContainsKey("Maximization (BFGS)")) {
     206        Parameters.Add(new FixedValueParameter<BoolValue>("Maximization (BFGS)", new BoolValue(false)));
     207        Parameters["Maximization (BFGS)"].Hidden = true;
     208        OperatorGraph.Operators.OfType<LbfgsUpdateResults>().First().MaximizationParameter.ActualName = "Maximization BFGS";
    202209      }
    203210

  • branches/MemPRAlgorithm/HeuristicLab.Algorithms.DataAnalysis/3.4/GradientBoostedTrees/GradientBoostedTreesAlgorithm.cs

    r14345 r14562  
    3838  [StorableClass]
    3939  [Creatable(CreatableAttribute.Categories.DataAnalysisRegression, Priority = 125)]
    40   public class GradientBoostedTreesAlgorithm : BasicAlgorithm {
    41     public override Type ProblemType {
    42       get { return typeof(IRegressionProblem); }
    43     }
    44     public new IRegressionProblem Problem {
    45       get { return (IRegressionProblem)base.Problem; }
    46       set { base.Problem = value; }
    47     }
    48 
     40  public class GradientBoostedTreesAlgorithm : FixedDataAnalysisAlgorithm<IRegressionProblem> {
    4941    #region ParameterNames
    5042    private const string IterationsParameterName = "Iterations";

  • branches/MemPRAlgorithm/HeuristicLab.Algorithms.DataAnalysis/3.4/Linear/LinearDiscriminantAnalysis.cs

    r14400 r14562  
    2323using System.Collections.Generic;
    2424using System.Linq;
     25using System.Threading;
    2526using HeuristicLab.Common;
    2627using HeuristicLab.Core;
    … …  
    5960
    6061    #region Fisher LDA
    61     protected override void Run() {
     62    protected override void Run(CancellationToken cancellationToken) {
    6263      var solution = CreateLinearDiscriminantAnalysisSolution(Problem.ProblemData);
    6364      Results.Add(new Result(LinearDiscriminantAnalysisSolutionResultName, "The linear discriminant analysis.", solution));

  • branches/MemPRAlgorithm/HeuristicLab.Algorithms.DataAnalysis/3.4/Linear/LinearRegression.cs

    r14400 r14562  
    2323using System.Collections.Generic;
    2424using System.Linq;
     25using System.Threading;
    2526using HeuristicLab.Common;
    2627using HeuristicLab.Core;
    … …  
    6061
    6162    #region linear regression
    62     protected override void Run() {
     63    protected override void Run(CancellationToken cancellationToken) {
    6364      double rmsError, cvRmsError;
    6465      var solution = CreateLinearRegressionSolution(Problem.ProblemData, out rmsError, out cvRmsError);

  • branches/MemPRAlgorithm/HeuristicLab.Algorithms.DataAnalysis/3.4/Linear/MultinomialLogitClassification.cs

    r14400 r14562  
    2323using System.Collections.Generic;
    2424using System.Linq;
     25using System.Threading;
    2526using HeuristicLab.Common;
    2627using HeuristicLab.Core;
    … …  
    5758
    5859    #region logit classification
    59     protected override void Run() {
     60    protected override void Run(CancellationToken cancellationToken) {
    6061      double rmsError, relClassError;
    6162      var solution = CreateLogitClassificationSolution(Problem.ProblemData, out rmsError, out relClassError);

  • branches/MemPRAlgorithm/HeuristicLab.Algorithms.DataAnalysis/3.4/MctsSymbolicRegression/MctsSymbolicRegressionAlgorithm.cs

    r14185 r14562  
    3838  [StorableClass]
    3939  [Creatable(CreatableAttribute.Categories.DataAnalysisRegression, Priority = 250)]
    40   public class MctsSymbolicRegressionAlgorithm : BasicAlgorithm {
    41     public override Type ProblemType {
    42       get { return typeof(IRegressionProblem); }
    43     }
    44     public new IRegressionProblem Problem {
    45       get { return (IRegressionProblem)base.Problem; }
    46       set { base.Problem = value; }
    47     }
     40  public class MctsSymbolicRegressionAlgorithm : FixedDataAnalysisAlgorithm<IRegressionProblem> {
    4841
    4942    #region ParameterNames

  • branches/MemPRAlgorithm/HeuristicLab.Algorithms.DataAnalysis/3.4/NearestNeighbour/NearestNeighbourClassification.cs

    r14235 r14562  
    2222using System;
    2323using System.Linq;
     24using System.Threading;
    2425using HeuristicLab.Common;
    2526using HeuristicLab.Core;
    … …  
    9192
    9293    #region nearest neighbour
    93     protected override void Run() {
     94    protected override void Run(CancellationToken cancellationToken) {
    9495      double[] weights = null;
    9596      if (Weights != null) weights = Weights.CloneAsArray();

  • branches/MemPRAlgorithm/HeuristicLab.Algorithms.DataAnalysis/3.4/NearestNeighbour/NearestNeighbourRegression.cs

    r14235 r14562  
    2121
    2222using System;
     23using System.Threading;
    2324using HeuristicLab.Common;
    2425using HeuristicLab.Core;
    … …  
    9293
    9394    #region nearest neighbour
    94     protected override void Run() {
     95    protected override void Run(CancellationToken cancellationToken) {
    9596      double[] weights = null;
    9697      if (Weights != null) weights = Weights.CloneAsArray();

  • branches/MemPRAlgorithm/HeuristicLab.Algorithms.DataAnalysis/3.4/NeuralNetwork/NeuralNetworkClassification.cs

    r14400 r14562  
    2323using System.Collections.Generic;
    2424using System.Linq;
     25using System.Threading;
    2526using HeuristicLab.Common;
    2627using HeuristicLab.Core;
    … …  
    168169
    169170    #region neural network
    170     protected override void Run() {
     171    protected override void Run(CancellationToken cancellationToken) {
    171172      double rmsError, avgRelError, relClassError;
    172173      var solution = CreateNeuralNetworkClassificationSolution(Problem.ProblemData, HiddenLayers, NodesInFirstHiddenLayer, NodesInSecondHiddenLayer, Decay, Restarts, out rmsError, out avgRelError, out relClassError);

  • branches/MemPRAlgorithm/HeuristicLab.Algorithms.DataAnalysis/3.4/NeuralNetwork/NeuralNetworkEnsembleClassification.cs

    r14400 r14562  
    2323using System.Collections.Generic;
    2424using System.Linq;
     25using System.Threading;
    2526using HeuristicLab.Common;
    2627using HeuristicLab.Core;
    … …  
    154155
    155156    #region neural network ensemble
    156     protected override void Run() {
     157    protected override void Run(CancellationToken cancellationToken) {
    157158      double rmsError, avgRelError, relClassError;
    158159      var solution = CreateNeuralNetworkEnsembleClassificationSolution(Problem.ProblemData, EnsembleSize, HiddenLayers, NodesInFirstHiddenLayer, NodesInSecondHiddenLayer, Decay, Restarts, out rmsError, out avgRelError, out relClassError);

  • branches/MemPRAlgorithm/HeuristicLab.Algorithms.DataAnalysis/3.4/NeuralNetwork/NeuralNetworkEnsembleRegression.cs

    r14400 r14562  
    2323using System.Collections.Generic;
    2424using System.Linq;
     25using System.Threading;
    2526using HeuristicLab.Common;
    2627using HeuristicLab.Core;
    … …  
    154155
    155156    #region neural network ensemble
    156     protected override void Run() {
     157    protected override void Run(CancellationToken cancellationToken) {
    157158      double rmsError, avgRelError;
    158159      var solution = CreateNeuralNetworkEnsembleRegressionSolution(Problem.ProblemData, EnsembleSize, HiddenLayers, NodesInFirstHiddenLayer, NodesInSecondHiddenLayer, Decay, Restarts, out rmsError, out avgRelError);

  • branches/MemPRAlgorithm/HeuristicLab.Algorithms.DataAnalysis/3.4/NeuralNetwork/NeuralNetworkRegression.cs

    r14400 r14562  
    2323using System.Collections.Generic;
    2424using System.Linq;
     25using System.Threading;
    2526using HeuristicLab.Common;
    2627using HeuristicLab.Core;
    … …  
    170171
    171172    #region neural network
    172     protected override void Run() {
     173    protected override void Run(CancellationToken cancellationToken) {
    173174      double rmsError, avgRelError;
    174175      var solution = CreateNeuralNetworkRegressionSolution(Problem.ProblemData, HiddenLayers, NodesInFirstHiddenLayer, NodesInSecondHiddenLayer, Decay, Restarts, out rmsError, out avgRelError);

  • branches/MemPRAlgorithm/HeuristicLab.Algorithms.DataAnalysis/3.4/NonlinearRegression/NonlinearRegression.cs

    r14319 r14562  
    2222using System;
    2323using System.Linq;
     24using System.Threading;
    2425using HeuristicLab.Analysis;
    2526using HeuristicLab.Common;
    … …  
    157158
    158159    #region nonlinear regression
    159     protected override void Run() {
     160    protected override void Run(CancellationToken cancellationToken) {
    160161      IRegressionSolution bestSolution = null;
    161162      if (InitializeParametersRandomly) {

  • branches/MemPRAlgorithm/HeuristicLab.Algorithms.DataAnalysis/3.4/RandomForest/RandomForestClassification.cs

    r14185 r14562  
    2020#endregion
    2121
     22using System.Threading;
    2223using HeuristicLab.Common;
    2324using HeuristicLab.Core;
    … …  
    132133
    133134    #region random forest
    134     protected override void Run() {
     135    protected override void Run(CancellationToken cancellationToken) {
    135136      double rmsError, relClassificationError, outOfBagRmsError, outOfBagRelClassificationError;
    136137      if (SetSeedRandomly) Seed = new System.Random().Next();

  • branches/MemPRAlgorithm/HeuristicLab.Algorithms.DataAnalysis/3.4/RandomForest/RandomForestRegression.cs

    r14185 r14562  
    2020#endregion
    2121
     22using System.Threading;
    2223using HeuristicLab.Common;
    2324using HeuristicLab.Core;
    … …  
    131132
    132133    #region random forest
    133     protected override void Run() {
     134    protected override void Run(CancellationToken cancellationToken) {
    134135      double rmsError, avgRelError, outOfBagRmsError, outOfBagAvgRelError;
    135136      if (SetSeedRandomly) Seed = new System.Random().Next();

  • branches/MemPRAlgorithm/HeuristicLab.Algorithms.DataAnalysis/3.4/SupportVectorMachine/SupportVectorClassification.cs

    r14185 r14562  
    2323using System.Collections.Generic;
    2424using System.Linq;
     25using System.Threading;
    2526using HeuristicLab.Common;
    2627using HeuristicLab.Core;
    … …  
    143144
    144145    #region support vector classification
    145     protected override void Run() {
     146    protected override void Run(CancellationToken cancellationToken) {
    146147      IClassificationProblemData problemData = Problem.ProblemData;
    147148      IEnumerable<string> selectedInputVariables = problemData.AllowedInputVariables;

  • branches/MemPRAlgorithm/HeuristicLab.Algorithms.DataAnalysis/3.4/SupportVectorMachine/SupportVectorRegression.cs

    r14185 r14562  
    2323using System.Collections.Generic;
    2424using System.Linq;
     25using System.Threading;
    2526using HeuristicLab.Common;
    2627using HeuristicLab.Core;
    … …  
    151152
    152153    #region support vector regression
    153     protected override void Run() {
     154    protected override void Run(CancellationToken cancellationToken) {
    154155      IRegressionProblemData problemData = Problem.ProblemData;
    155156      IEnumerable<string> selectedInputVariables = problemData.AllowedInputVariables;

  • branches/MemPRAlgorithm/HeuristicLab.Algorithms.DataAnalysis/3.4/TimeSeries/AutoregressiveModeling.cs

    r14400 r14562  
    2222using System;
    2323using System.Linq;
     24using System.Threading;
    2425using HeuristicLab.Common;
    2526using HeuristicLab.Core;
    … …  
    6364    }
    6465
    65     protected override void Run() {
     66    protected override void Run(CancellationToken cancellationToken) {
    6667      double rmsError, cvRmsError;
    6768      var solution = CreateAutoRegressiveSolution(Problem.ProblemData, TimeOffset, out rmsError, out cvRmsError);

  • branches/MemPRAlgorithm/HeuristicLab.Algorithms.DataAnalysis/3.4/kMeans/KMeansClustering.cs

    r14400 r14562  
    2323using System.Collections.Generic;
    2424using System.Linq;
     25using System.Threading;
    2526using HeuristicLab.Common;
    2627using HeuristicLab.Core;
    … …  
    7778
    7879    #region k-Means clustering
    79     protected override void Run() {
     80    protected override void Run(CancellationToken cancellationToken) {
    8081      var solution = CreateKMeansSolution(Problem.ProblemData, K.Value, Restarts.Value);
    8182      Results.Add(new Result(KMeansSolutionResultName, "The k-Means clustering solution.", solution));
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