protected override void Context()
{
_populationRunner = A.Fake <IPopulationRunner>();
_exceptionManager = A.Fake <IExceptionManager>();
_eventPubliser = A.Fake <IEventPublisher>();
_progressUpdater = A.Fake <IProgressUpdater>();
_progressManager = A.Fake <IProgressManager>();
_simulationResultsSynchronizer = A.Fake <ISimulationResultsSynchronizer>();
_simMapper = A.Fake <ISimulationToModelCoreSimulationMapper>();
_popExportTask = A.Fake <IPopulationExportTask>();
_simulationPersistableUpdater = A.Fake <ISimulationPersistableUpdater>();
_userSettings = A.Fake <ICoreUserSettings>();
_populationSimulationAnalysisSynchronizer = A.Fake <IPopulationSimulationAnalysisSynchronizer>();
sut = new PopulationSimulationEngine(_populationRunner,
_progressManager,
_eventPubliser,
_exceptionManager,
_simulationResultsSynchronizer,
_popExportTask,
_simMapper,
_simulationPersistableUpdater,
_userSettings,
_populationSimulationAnalysisSynchronizer);
A.CallTo(() => _progressManager.Create()).Returns(_progressUpdater);
}
public ParameterIdentificationExportTask(IDialogCreator dialogCreator, ISimModelExporter simModelExporter, ISimulationToModelCoreSimulationMapper simulationToModelCoreSimulationMapper,
ILazyLoadTask lazyLoadTask, IParameterIdentificationExporter parameterIdentificationExporter, IExportDataTableToExcelTask exportToExcelTask)
{
_dialogCreator = dialogCreator;
_simModelExporter = simModelExporter;
_simulationToModelCoreSimulationMapper = simulationToModelCoreSimulationMapper;
_lazyLoadTask = lazyLoadTask;
_parameterIdentificationExporter = parameterIdentificationExporter;
_exportToExcelTask = exportToExcelTask;
}
public IndividualSimulationEngine(ISimModelManager simModelManager, IProgressManager progressManager,
ISimulationResultsSynchronizer simulationResultsSynchronizer,
IEventPublisher eventPublisher, ISimulationToModelCoreSimulationMapper modelCoreSimulationMapper)
{
_simModelManager = simModelManager;
_progressManager = progressManager;
_simulationResultsSynchronizer = simulationResultsSynchronizer;
_eventPublisher = eventPublisher;
_modelCoreSimulationMapper = modelCoreSimulationMapper;
_simModelManager.Terminated += terminated;
}
protected override void Context()
{
_eventPublisher = A.Fake <IEventPublisher>();
_sensitivityAnalysisVariationDataCreator = A.Fake <ISensitivityAnalysisVariationDataCreator>();
_populationRunner = A.Fake <IPopulationRunner>();
_modelCoreSimulationMapper = A.Fake <ISimulationToModelCoreSimulationMapper>();
_runResultCalculator = A.Fake <ISensitivityAnalysisRunResultCalculator>();
_simulationPersistableUpdater = A.Fake <ISimulationPersistableUpdater>();
sut = new SensitivityAnalysisEngine(_eventPublisher, _sensitivityAnalysisVariationDataCreator, _populationRunner, _modelCoreSimulationMapper, _runResultCalculator, _simulationPersistableUpdater);
_sensitivityAnalysis = A.Fake <SensitivityAnalysis>();
_modelCoreSimulation = A.Fake <IModelCoreSimulation>();
A.CallTo(() => _modelCoreSimulationMapper.MapFrom(_sensitivityAnalysis.Simulation, true)).Returns(_modelCoreSimulation);
}
protected override void Context()
{
_quantityDisplayPathMapper = A.Fake <IQuantityPathToQuantityDisplayPathMapper>();
_buildingBlockTask = A.Fake <IBuildingBlockTask>();
_dialogCreator = A.Fake <IDialogCreator>();
_dataRepositoryTask = A.Fake <IDataRepositoryTask>();
_stringSerializer = A.Fake <IStringSerializer>();
_modelReportCreator = A.Fake <IModelReportCreator>();
_simulationMapper = A.Fake <ISimulationToModelCoreSimulationMapper>();
_simModelExporter = A.Fake <ISimModelExporter>();
_simulationResultsToDataTableConverter = A.Fake <ISimulationResultsToDataTableConverter>();
sut = new SimulationExportTask(_buildingBlockTask, _dialogCreator, _dataRepositoryTask, _quantityDisplayPathMapper,
_stringSerializer, _modelReportCreator, _simulationMapper, _simModelExporter, _simulationResultsToDataTableConverter);
}
public ParameterIdentificationRun(IResidualCalculatorFactory residualCalculatorFactory, ITimeGridUpdater timeGridUpdater,
ISimModelBatchFactory simModelBatchFactory, ISimulationToModelCoreSimulationMapper modelCoreSimulationMapper,
IParameterIdentificationAlgorithmToOptmizationAlgorithmMapper optimizationAlgorithmMapper, IOutputSelectionUpdater outputSelectionUpdater,
ICoreUserSettings coreUserSettings, IJacobianMatrixCalculator jacobianMatrixCalculator)
{
_residualCalculatorFactory = residualCalculatorFactory;
_timeGridUpdater = timeGridUpdater;
_simModelBatchFactory = simModelBatchFactory;
_modelCoreSimulationMapper = modelCoreSimulationMapper;
_optimizationAlgorithmMapper = optimizationAlgorithmMapper;
_outputSelectionUpdater = outputSelectionUpdater;
_coreUserSettings = coreUserSettings;
_jacobianMatrixCalculator = jacobianMatrixCalculator;
}
protected override void Context()
{
_simModelManager = A.Fake <ISimModelManager>();
_progressUpdater = A.Fake <IProgressUpdater>();
_progressManager = A.Fake <IProgressManager>();
_eventPublisher = A.Fake <IEventPublisher>();
_exceptionManager = A.Fake <IExceptionManager>();
_simulationResultsSynchronizer = A.Fake <ISimulationResultsSynchronizer>();
_modelCoreSimulationMapper = A.Fake <ISimulationToModelCoreSimulationMapper>();
_simulationPersistableUpdater = A.Fake <ISimulationPersistableUpdater>();
A.CallTo(() => _progressManager.Create()).Returns(_progressUpdater);
sut = new IndividualSimulationEngine(_simModelManager, _progressManager, _simulationResultsSynchronizer,
_eventPublisher, _exceptionManager, _modelCoreSimulationMapper, _simulationPersistableUpdater);
}
public SimulationExportTask(IBuildingBlockTask buildingBlockTask, IDialogCreator dialogCreator, IDataRepositoryTask dataRepositoryTask,
IQuantityPathToQuantityDisplayPathMapper quantityDisplayPathMapper, IStringSerializer stringSerializer,
IModelReportCreator modelReportCreator, ISimulationToModelCoreSimulationMapper coreSimulationMapper, ISimModelExporter simModelExporter, ISimulationResultsToDataTableConverter simulationResultsToDataTableConverter)
{
_buildingBlockTask = buildingBlockTask;
_dialogCreator = dialogCreator;
_dataRepositoryTask = dataRepositoryTask;
_quantityDisplayPathMapper = quantityDisplayPathMapper;
_stringSerializer = stringSerializer;
_modelReportCreator = modelReportCreator;
_coreSimulationMapper = coreSimulationMapper;
_simModelExporter = simModelExporter;
_simulationResultsToDataTableConverter = simulationResultsToDataTableConverter;
}
public SensitivityAnalysisEngine(IEventPublisher eventPublisher, ISensitivyAnalysisVariationDataCreator sensitivyAnalysisVariationDataCreator,
IPopulationRunner populationRunner, ICoreUserSettings userSettings, ISimulationToModelCoreSimulationMapper modelCoreSimulationMapper,
ISensitivityAnalysisRunResultCalculator runResultCalculator, ISimulationPersistableUpdater simulationPersistableUpdater)
{
_eventPublisher = eventPublisher;
_sensitivyAnalysisVariationDataCreator = sensitivyAnalysisVariationDataCreator;
_populationRunner = populationRunner;
_userSettings = userSettings;
_modelCoreSimulationMapper = modelCoreSimulationMapper;
_runResultCalculator = runResultCalculator;
_simulationPersistableUpdater = simulationPersistableUpdater;
_populationRunner.Terminated += terminated;
_populationRunner.SimulationProgress += simulationProgress;
}
protected override void Context()
{
_deletedDirectories = new List <string>();
_parameterIdentificationExporter = A.Fake <IParameterIdentificationExporter>();
_lazyLoadTask = A.Fake <ILazyLoadTask>();
_simulationToModelCoreSimulationMapper = A.Fake <ISimulationToModelCoreSimulationMapper>();
_simModelExporter = A.Fake <ISimModelExporter>();
_dialogCreator = A.Fake <IDialogCreator>();
_exportToExcelTask = A.Fake <IExportDataTableToExcelTask>();
_parameterIdentification = A.Fake <ParameterIdentification>();
_writtenFileCache = new Cache <string, string>();
_parameterIdentification.Name = "name with spaces";
_createdDirectories = new List <string>();
sut = new ParameterIdentificationExportTask(_dialogCreator, _simModelExporter, _simulationToModelCoreSimulationMapper, _lazyLoadTask, _parameterIdentificationExporter, _exportToExcelTask);
}
public PopulationExportTask(IApplicationController applicationController, IEntityPathResolver entityPathResolver,
ILazyLoadTask lazyLoadTask, ISimModelExporter simModelExporter, ISimulationToModelCoreSimulationMapper modelCoreSimulationMapper,
IWorkspace workspace, IPKSimConfiguration configuration, ISimulationSettingsRetriever simulationSettingsRetriever,
IDialogCreator dialogCreator, ICloner cloner)
{
_applicationController = applicationController;
_entityPathResolver = entityPathResolver;
_lazyLoadTask = lazyLoadTask;
_simModelExporter = simModelExporter;
_modelCoreSimulationMapper = modelCoreSimulationMapper;
_workspace = workspace;
_configuration = configuration;
_simulationSettingsRetriever = simulationSettingsRetriever;
_dialogCreator = dialogCreator;
_cloner = cloner;
}
public MoBiExportTask(IBuildConfigurationTask buildConfigurationTask, ISimulationToModelCoreSimulationMapper simulationMapper,
IRepresentationInfoRepository representationInfoRepository, IPKSimConfiguration configuration,
ILazyLoadTask lazyLoadTask, IDialogCreator dialogCreator, ISimulationPersistor simulationPersistor, IProjectRetriever projectRetriever,
IObjectIdResetter objectIdResetter, IJournalRetriever journalRetriever)
{
_buildConfigurationTask = buildConfigurationTask;
_simulationMapper = simulationMapper;
_representationInfoRepository = representationInfoRepository;
_configuration = configuration;
_lazyLoadTask = lazyLoadTask;
_dialogCreator = dialogCreator;
_simulationPersistor = simulationPersistor;
_projectRetriever = projectRetriever;
_objectIdResetter = objectIdResetter;
_journalRetriever = journalRetriever;
}
protected override void Context()
{
_buildConfigurationTask = A.Fake <IBuildConfigurationTask>();
_simulationMapper = A.Fake <ISimulationToModelCoreSimulationMapper>();
_representationInfoRepository = A.Fake <IRepresentationInfoRepository>();
_configuration = A.Fake <IPKSimConfiguration>();
_lazyLoadTask = A.Fake <ILazyLoadTask>();
_dialogCreator = A.Fake <IDialogCreator>();
_simulationPersistor = A.Fake <ISimulationPersistor>();
_projectRetriever = A.Fake <IProjectRetriever>();
_objectIdResetter = A.Fake <IObjectIdResetter>();
_journalRetriever = A.Fake <IJournalRetriever>();
sut = new MoBiExportTask(_buildConfigurationTask, _simulationMapper, _representationInfoRepository,
_configuration, _lazyLoadTask, _dialogCreator, _simulationPersistor, _projectRetriever, _objectIdResetter, _journalRetriever);
}
protected override Task Context()
{
_quantityDisplayPathMapper = A.Fake <IQuantityPathToQuantityDisplayPathMapper>();
_lazyLoadTask = A.Fake <ILazyLoadTask>();
_dialogCreator = A.Fake <IDialogCreator>();
_dataRepositoryTask = A.Fake <IDataRepositoryExportTask>();
_stringSerializer = A.Fake <IStringSerializer>();
_modelReportCreator = A.Fake <IModelReportCreator>();
_simulationMapper = A.Fake <ISimulationToModelCoreSimulationMapper>();
_simModelExporter = A.Fake <ISimModelExporter>();
_simulationResultsToDataTableConverter = A.Fake <ISimulationResultsToDataTableConverter>();
_populationSimulationPKAnalysesToDataTableConverter = A.Fake <IPopulationSimulationPKAnalysesToDataTableConverter>();
sut = new SimulationExportTask(_lazyLoadTask, _dialogCreator, _dataRepositoryTask, _quantityDisplayPathMapper,
_stringSerializer, _modelReportCreator, _simulationMapper, _simModelExporter, _simulationResultsToDataTableConverter, _populationSimulationPKAnalysesToDataTableConverter);
return(_completed);
}
protected override Task Context()
{
_simModelManager = A.Fake <ISimModelManager>();
_progressUpdater = A.Fake <IProgressUpdater>();
_progressManager = A.Fake <IProgressManager>();
_eventPublisher = A.Fake <IEventPublisher>();
_simulationResultsSynchronizer = A.Fake <ISimulationResultsSynchronizer>();
_modelCoreSimulationMapper = A.Fake <ISimulationToModelCoreSimulationMapper>();
sut = new IndividualSimulationEngine(_simModelManager, _progressManager, _simulationResultsSynchronizer,
_eventPublisher, _modelCoreSimulationMapper);
A.CallTo(() => _progressManager.Create()).Returns(_progressUpdater);
_simulationRunOption = new SimulationRunOptions {
RaiseEvents = true
};
return(_completed);
}
public PopulationSimulationEngine(IPopulationRunner populationRunner, IProgressManager progressManager,
IEventPublisher eventPublisher, IExceptionManager exceptionManager,
ISimulationResultsSynchronizer simulationResultsSynchronizer, IPopulationExportTask populationExporter,
ISimulationToModelCoreSimulationMapper modelCoreSimulationMapper, ISimulationPersistableUpdater simulationPersistableUpdater, ICoreUserSettings userSettings,
IPopulationSimulationAnalysisSynchronizer populationSimulationAnalysisSynchronizer)
{
_populationRunner = populationRunner;
_progressManager = progressManager;
_eventPublisher = eventPublisher;
_exceptionManager = exceptionManager;
_simulationResultsSynchronizer = simulationResultsSynchronizer;
_populationExporter = populationExporter;
_modelCoreSimulationMapper = modelCoreSimulationMapper;
_simulationPersistableUpdater = simulationPersistableUpdater;
_userSettings = userSettings;
_populationSimulationAnalysisSynchronizer = populationSimulationAnalysisSynchronizer;
_populationRunner.Terminated += terminated;
_populationRunner.SimulationProgress += simulationProgress;
}
protected override void Context()
{
_configuration = A.Fake <IPKSimConfiguration>();
_applicationController = A.Fake <IApplicationController>();
_workspace = A.Fake <IWorkspace>();
_entityPathResolver = A.Fake <IEntityPathResolver>();
_selectFilePresenter = A.Fake <ISelectFilePresenter>();
_lazyLoadTask = A.Fake <ILazyLoadTask>();
_simModelExporter = A.Fake <ISimModelExporter>();
_modelCoreSimulationMapper = A.Fake <ISimulationToModelCoreSimulationMapper>();
_simulationSettingsRetriever = A.Fake <ISimulationSettingsRetriever>();
_dialogCreator = A.Fake <IDialogCreator>();
_cloner = A.Fake <ICloner>();
_population = A.Fake <Population>().WithName("MyPop");
A.CallTo(() => _population.AllCovariateNames).Returns(new[] { CoreConstants.Covariates.GENDER, CoreConstants.Covariates.RACE });
A.CallTo(() => _applicationController.Start <ISelectFilePresenter>()).Returns(_selectFilePresenter);
sut = new PopulationExportTask(_applicationController, _entityPathResolver, _lazyLoadTask, _simModelExporter,
_modelCoreSimulationMapper, _workspace, _configuration, _simulationSettingsRetriever, _dialogCreator, _cloner);
}
public SimulationExportTask(
ILazyLoadTask lazyLoadTask,
IDialogCreator dialogCreator,
IDataRepositoryExportTask dataRepositoryTask,
IQuantityPathToQuantityDisplayPathMapper quantityDisplayPathMapper,
IStringSerializer stringSerializer,
IModelReportCreator modelReportCreator,
ISimulationToModelCoreSimulationMapper coreSimulationMapper,
ISimModelExporter simModelExporter,
ISimulationResultsToDataTableConverter simulationResultsToDataTableConverter,
IPopulationSimulationPKAnalysesToDataTableConverter populationSimulationPKAnalysesToDataTableConverter)
{
_lazyLoadTask = lazyLoadTask;
_dialogCreator = dialogCreator;
_dataRepositoryTask = dataRepositoryTask;
_quantityDisplayPathMapper = quantityDisplayPathMapper;
_stringSerializer = stringSerializer;
_modelReportCreator = modelReportCreator;
_coreSimulationMapper = coreSimulationMapper;
_simModelExporter = simModelExporter;
_simulationResultsToDataTableConverter = simulationResultsToDataTableConverter;
_populationSimulationPKAnalysesToDataTableConverter = populationSimulationPKAnalysesToDataTableConverter;
}
protected override void Context()
{
_modelCoreSimulationMapper = A.Fake <ISimulationToModelCoreSimulationMapper>();
_residualCalculatorFactory = A.Fake <IResidualCalculatorFactory>();
_timeGridUpdater = A.Fake <ITimeGridUpdater>();
_simModelBatchFactory = A.Fake <ISimModelBatchFactory>();
_optimizationAlgorithmMapper = A.Fake <IParameterIdentificationAlgorithmToOptmizationAlgorithmMapper>();
_outputSelectionUpdater = A.Fake <IOutputSelectionUpdater>();
_coreUserSettings = A.Fake <ICoreUserSettings>();
_jacobianMatrixCalculator = A.Fake <IJacobianMatrixCalculator>();
_coreUserSettings.MaximumNumberOfCoresToUse = 2;
sut = new ParameterIdentificationRun(_residualCalculatorFactory, _timeGridUpdater, _simModelBatchFactory, _modelCoreSimulationMapper,
_optimizationAlgorithmMapper, _outputSelectionUpdater, _coreUserSettings, _jacobianMatrixCalculator);
_simulation = A.Fake <ISimulation>();
_parameter1 = A.Fake <IParameter>();
_parameter1.Dimension = DomainHelperForSpecs.ConcentrationDimensionForSpecs();
_parameter1.Value = 15;
_parameter2 = A.Fake <IParameter>();
_parameter2.Value = 35;
_parameter2.Dimension = DomainHelperForSpecs.ConcentrationDimensionForSpecs();
_parameterIdentification = new ParameterIdentification();
_parameterIdentification.Configuration.LLOQMode = LLOQModes.OnlyObservedData;
_parameterIdentification.Configuration.RemoveLLOQMode = RemoveLLOQModes.NoTrailing;
_parameterIdentification.AddSimulation(_simulation);
_parameterSelection1 = ParameterSelectionFor(_parameter1, "ParameterPath1");
_parameterSelection2 = ParameterSelectionFor(_parameter2, "ParameterPath2");
_identificationParameter = DomainHelperForSpecs.IdentificationParameter("IdParam", min: 10, max: 20, startValue: 15);
_identificationParameter.AddLinkedParameter(_parameterSelection1);
_identificationParameter.AddLinkedParameter(_parameterSelection2);
_modelCoreSimulation = A.Fake <IModelCoreSimulation>();
A.CallTo(() => _modelCoreSimulationMapper.MapFrom(_simulation, true)).Returns(_modelCoreSimulation);
_outputMapping = A.Fake <OutputMapping>();
A.CallTo(() => _outputMapping.UsesSimulation(_simulation)).Returns(true);
A.CallTo(() => _outputMapping.WeightedObservedData.ObservedData).Returns(DomainHelperForSpecs.ObservedData());
_parameterIdentification.AddOutputMapping(_outputMapping);
_simModelBatch = A.Fake <ISimModelBatch>();
A.CallTo(() => _simModelBatchFactory.Create()).Returns(_simModelBatch);
_parameterIdentification.AddIdentificationParameter(_identificationParameter);
_residualCalculator = A.Fake <IResidualCalculator>();
A.CallTo(_residualCalculatorFactory).WithReturnType <IResidualCalculator>().Returns(_residualCalculator);
_algorithm = A.Fake <IOptimizationAlgorithm>();
A.CallTo(() => _optimizationAlgorithmMapper.MapFrom(_parameterIdentification.AlgorithmProperties)).Returns(_algorithm);
_cancellationTokenSource = new CancellationTokenSource();
_cancellationToken = _cancellationTokenSource.Token;
_runInitializer = A.Fake <IParameterIdentifcationRunInitializer>();
A.CallTo(() => _runInitializer.InitializeRun()).ReturnsAsync(_parameterIdentification);
PerformExtraInitializationSteps();
sut.InitializeWith(_runInitializer);
}
