Examples of BaseExperiment

org.jamesii.core.experiments.BaseExperiment
Base class for experiments. A computer based experiment with a model (aka simulation) is a set of computations done with a model. Thereby the initial parameters (for the model and the computation algorithms used) may vary from computation to computation. A base experiment contains the definition how to modify which parameters to be used for the computation / model. Basically the {@link #getExperimentVariables() experimentVariables} serves as a "for" loop.Thereby the items per level are progressed synchronous, and they constant while the sub levels are modified according to the rules defined in there.
For a simple experiment you only need to pass a fixed set of parameters which might even be empty, and an URI where the model can be found ( {@link #setModelLocation(URI)}). If you are interest in the trajectory of the simulation you have to add an instrumenter in addition. Everything else is a can, but not a must. Thus you can specify a computation task start time (this value will be used instead of 0 as initial value for the "simulation time") and the default factory to be used for determining the computation task end {@link #setComputationTaskStopPolicyFactory(ComputationTaskStopPolicyFactory)}, to use a distributed setup or a sequential on (default), the number of replications ( {@link #setRepeatRuns(Integer)}, {@link #setReplicationCriterionFactory(ParameterizedFactory)}), and you can specify the data sink to be used ( {@link #setDataStorageFactory(DataStorageFactory)}). May of these can be/or have to be parameterized, but this depends on the factory selected (e.g., you typically need to give username etc. for a database used as data sink).
Check out the {@link org.jamesii.core.experiments.variables.ExperimentVariables} class toread more about how to define which variables.
Using this class you can setup
- "normal" production runs, sometimes called parameter scans
- optimization experiments
- validation experiments
- benchmark experiments
A BaseExperiment does not create computation jobs directly. A base experiment only creates {@link TaskConfiguration} objects which are then transferred tothe {@link org.jamesii.core.experiments.taskrunner.ITaskRunner} to be used toexecute the tasks. This allows to use different execution modes with the same experiment definition (and thus to make the experiment definition scalable), and it eases the parallel creation of job configurations, which is supported as long as the "next" configurations do not depend on results of previous runs (as this might be the case for some optimization algorithms, however of some of those parallel variants exist as well). In addition even the software to be used for computation can be exchanged. By default always the {@link org.jamesii.core.experiments.tasks.setup.internalsimrun.SimulationRunFactory}is used but this can be changed by using the {@link #setSetupFactory(TaskSetupFactory)} method of instances of this class. @author Jan Himmelspach @author Roland Ewald

Examples of org.jamesii.core.experiments.BaseExperiment

  /**
   * Tests parameter combination generation in case one of the modifiers is
   * null.
   */
  public void testNullModifier() {
    BaseExperiment exp = new BaseExperiment();


    List<Integer> firstLevel = new ArrayList<>();
    firstLevel.add(1);
    firstLevel.add(2);


    List<Integer> secondLevel = new ArrayList<>();
    secondLevel.add(1);
    secondLevel.add(2);


    List<Integer> thirdLevel = new ArrayList<>();
    thirdLevel.add(0);


    List<ExperimentVariable<?>> expVars = new ArrayList<>();
    expVars.add(new ExperimentVariable<>("1", firstLevel.get(0),
        new SequenceModifier<>(firstLevel)));
    expVars.add(new ExperimentVariable<>("2", secondLevel.get(0),
        new SequenceModifier<>(secondLevel)));
    expVars.add(new ExperimentVariable<>("load", 0, null));


    exp.setupVariables(expVars);
    exp.getExperimentVariables().init(exp.getExperimentVariables());
    List<TestExecSetup> paramSetups = getSetups(exp.getExperimentVariables());
    for (int i = 0; i < paramSetups.size(); i++) {
      addInformation("#" + (i + 1) + ": "
          + Strings.dispMap(paramSetups.get(i).getFirstValue()));
    }
    assertEquals(firstLevel.size() * secondLevel.size(), paramSetups.size());

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Examples of org.jamesii.core.experiments.BaseExperiment

 * 
 */
public class TestEmptyExperimentErrorHandling {


  public static void main(String[] args) {
    BaseExperiment be = new BaseExperiment();
    be.execute();
  }

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Examples of org.jamesii.core.experiments.BaseExperiment

   */
  protected Pair<BaseExperiment, TaskRuntimeInformationListener> configureExperiment(
      SimTaskDescription taskDescription, ParameterBlock processorSetup) {


    // Set basics
    BaseExperiment exp = new BaseExperiment();
    exp.setModelLocation(taskDescription.uri);
    exp.setDefaultSimStopTime(taskDescription.stopTime);
    exp.setFixedModelParameters(taskDescription.modelParameters);
    exp.setRepeatRuns(replications);
    exp.setProcessorFactoryParameters(processorSetup);


    // Configure instrumenters
    configureInstrumentation(exp);


    // Configure parallel execution
    exp.setTaskRunnerFactory(new ParameterizedFactory<TaskRunnerFactory>(
        new ParallelComputationTaskRunnerFactory(), new ParameterBlock()
            .addSubBl(ParallelComputationTaskRunnerFactory.NUM_CORES, threads)));


    // Add listener
    TaskRuntimeInformationListener taskRTIListener =
        new TaskRuntimeInformationListener();
    exp.getExecutionController().addExecutionListener(taskRTIListener);
    return new Pair<>(exp, taskRTIListener);
  }

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Examples of org.jamesii.core.experiments.BaseExperiment

    // nothing to do, yet
  }


  @Override
  public void finish(IWizard wizard) {
    BaseExperiment exp = wizard.getValue(ExperimentSetup.EXPERIMENT);


    // add data sink setup
    DataStorageFactory dsf = wizard.getValue(DataSinkSetup.DATASINK_FACTORY);
    ParameterBlock block = wizard.getValue(DataSinkSetup.DATASINK_PARAMETERS);
    if (dsf != null) {
      exp.setDataStorageFactory(new ParameterizedFactory<>(
          dsf, block));
    }


    ModelInstrumenterFactory mf =
        wizard.getValue(InstrumenterSetup.MODEL_INSTRUMENTER_FACTORY);
    ComputationInstrumenterFactory sf =
        wizard.getValue(InstrumenterSetup.SIMULATION_INSTRUMENTER_FACTORY);
    // read already selected parameters
    ParameterBlock mBlock =
        wizard.getValue(InstrumenterSetup.MODEL_INSTRUMENTER_PARAMETERS);
    ParameterBlock sBlock =
        wizard.getValue(InstrumenterSetup.SIMULATION_INSTRUMENTER_PARAMETERS);


    if (sf != null) {
      exp.setComputationInstrumenterFactory(new ParameterizedFactory<>(
          sf, sBlock));
    }
    if (mf != null) {
      exp.setModelInstrumenterFactory(new ParameterizedFactory<>(
          mf, mBlock));
    }


    // SimSystem.getTempDirectory()
    SimSystem.report(Level.INFO, "Starting the experiment from the workflow");


    // read model from
    // ISymbolicModel<?> model = (ISymbolicModel<?>)
    // wizard.getValue("model");


    /** The model location (temporary file of model description). */
    URI modelLocation = null;


    modelLocation = wizard.getValue(ModelLoader.MODEL_URI);
    // Entity.report("Will use model " + modelLocation);
    // Entity.report("Will not use model " +
    // wizard.getValue("modellocation"));


    exp.setModelLocation(modelLocation);


    exp.setName("Tut. WF Exp.: " + Files.getFileName(modelLocation));


    // exp.setDefaultSimStopTime(1000);
    // exp.setStartComputationTasksPaused(true);
    // exp.setComputationTaskInterStepDelay(500);

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Examples of org.jamesii.core.experiments.BaseExperiment

    return super.getNextPage(currentPage, wizard);
  }


  @Override
  public void finish(IWizard wizard) {
    BaseExperiment exp = new BaseExperiment();


    // SimSystem.getTempDirectory()


    SimSystem.report(Level.INFO, "Starting the experiment from the workflow");


    // read model from
    // ISymbolicModel<?> model = (ISymbolicModel<?>) wizard.getValue("model");


    /** The model location (temporary file of model description). */
    URI modelLocation = null;


    modelLocation = wizard.getValue(ModelEditor.MODEL_LOCATION);
    // Entity.report("Will use model " + modelLocation);
    // Entity.report("Will not use model " + wizard.getValue("modellocation"));


    Map<String, ?> state =
        wizard.getValue(ModelParameterEditor.MODEL_PARAMETERS);
    Object user = wizard.getValue(ModelParameterEditor.USER_PARAMETERS);


    exp.setModelLocation(modelLocation);


    exp.setName("Tut. WF Exp.: " + Files.getFileName(modelLocation));


    exp.setExperimentVariables(new ExperimentVariables());


    ArrayList<Object> al = new ArrayList<>();
    al.add(state);


    // set model parameters
    if (state != null) {
      exp.getFixedModelParameters().putAll(state);
    }


    al = new ArrayList<>();
    al.add(user);
    exp.getExperimentVariables().addVariable(
        new ExperimentVariable<>("user.parameters",
            new SequenceModifier<>(al)));


    ParameterBlock afp = new ParameterBlock();
    afp.addSubBlock(AbstractModelInstrumenterFactory.MODELURI, modelLocation);


    List<ModelInstrumenterFactory> modelInstrFacs = null;
    List<ComputationInstrumenterFactory> simInstrFacs = null;
    boolean modelInstrumenter = true;
    boolean simInstumenter = true;
    try {
      modelInstrFacs =
          SimSystem.getRegistry().getFactoryList(
              AbstractModelInstrumenterFactory.class, afp);
    } catch (NoFactoryFoundException nffe) {
      modelInstrumenter = false;
    }


    try {
      simInstrFacs =
          SimSystem.getRegistry().getFactoryList(
              AbstractComputationInstrumenterFactory.class, afp);
    } catch (NoFactoryFoundException nffe) {
      simInstumenter = false;
      SimSystem.report(Level.INFO, null, "No instrumenter found for model: "
          + modelLocation, null);
    }
    if (simInstumenter || modelInstrumenter) {
      List<Factory> instrFacs = new ArrayList<>();
      if (modelInstrFacs != null) {
        instrFacs.addAll(modelInstrFacs);
      }
      if (simInstrFacs != null) {
        instrFacs.addAll(simInstrFacs);
      }


      FactorySelectionDialog<Factory<?>> diag =
          new FactorySelectionDialog(null, instrFacs, null,
              "Select Instrumentation", true);
      diag.setVisible(true);
      if (diag.isOkButtonPressed()) {
        List<ParameterizedFactory<Factory<?>>> selected =
            diag.getSelectedFactoriesAndParameters();


        ParameterizedFactory<Factory<?>> sel = new ParameterizedFactory<>();
        
        if (selected.size() > 0) {
          sel = selected.get(0);
        }


        if (sel.getFactory() instanceof ModelInstrumenterFactory) {
          ModelInstrumenterFactory min =
              (ModelInstrumenterFactory) sel.getFactory();
          
          exp.setModelInstrumenterFactory(new ParameterizedFactory<>(min,sel.getParameters()));
        }


        if (sel.getFactory() instanceof ComputationInstrumenterFactory) {
          ComputationInstrumenterFactory min =
              (ComputationInstrumenterFactory) sel.getFactory();
          
          exp.setComputationInstrumenterFactory(new ParameterizedFactory<>(min,sel.getParameters()));
        }
      }
      // for (ModelInstrumenterFactory m : instrFacs) {
      // if (m.getClass().getName().compareTo(sel.toString()) == 0) min = m;
      // }

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Examples of org.jamesii.core.experiments.BaseExperiment

  public void openExperiment(ExperimentReaderFactory expRWFac,
      ParameterBlock param) {
    // IExperimentWriter writer = expRWFac.getWriter(param);
    IExperimentReader reader = expRWFac.create(param, SimSystem.getRegistry().createContext());
    try {
      BaseExperiment exp = reader.readExperiment(param);
      if (exp == null) {
        SimSystem.report(Level.SEVERE, null,
            "Error opening experiment located at '" + getExpLocation(param)
                + "' with reader + '" + reader.getClass().toString() + "'",
            null);
        return;
      }
      getWindowManager().addWindow(new ExperimentEditor(exp, param));
      SimSystem.report(Level.INFO, null, "Opened experiment '" + exp.getName()
          + "' from " + getExpLocation(param), null);
    } catch (IOException ex) {
      SimSystem.report(Level.SEVERE, null,
          "Error opening experiment located at '" + getExpLocation(param)
              + "' with reader + '" + reader.getClass().toString() + "'", null,

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Examples of org.jamesii.core.experiments.BaseExperiment

    pb.addSubBlock("experimentInfo", new ParameterBlock(info));
    IExperimentReader reader =
        SimSystem.getRegistry()
            .getFactory(AbstractExperimentReaderFactory.class, pb).create(null, SimSystem.getRegistry().createContext());


    BaseExperiment exp = null;
    try {
      exp = reader.readExperiment(pb);
    } catch (IOException ex) {
      SimSystem.report(ex);
    }

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Examples of org.jamesii.core.experiments.BaseExperiment

   *           if something goes wrong
   */
  @Override
  protected List<List<RunInformation>> doInBackground() {
    experiment.execute();
    BaseExperiment exp = experiment;
    experiment = null;
    return exp.getResults();
  }

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Examples of org.jamesii.core.experiments.BaseExperiment


  @Override
  public void execute() {
    CreateNewExperimentDialog newExpDialog =
        new CreateNewExperimentDialog(null, null);
    BaseExperiment experiment = newExpDialog.showDialog();
    if (experiment == null) {
      return;
    }
    winManager.addWindow(new ExperimentEditor(experiment, null, null));
  }

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Examples of org.jamesii.core.experiments.BaseExperiment

      SimSystem.report(Level.SEVERE, "Error: Malformed URI. The URI '"
          + uriString + "' is malformed.");
      return;
    }


    experiment = new BaseExperiment();
    experiment.setName(experimentNameField.getText());
    experiment.setModelLocation(uriToUse);
    // TODO: Let model reading be parameterisable
    // experiment.setModelRWParameters();
    this.setVisible(false);

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