protected override void Context()
{
_dataFactory = A.Fake <IDataFactory>();
_simModelExporter = A.Fake <ISimModelExporter>();
_simModelSimulationFactory = A.Fake <ISimModelSimulationFactory>();
_simModelSimulation = A.Fake <ISimulation>();
sut = new SimModelBatch(_simModelExporter, _simModelSimulationFactory, _dataFactory);
A.CallTo(() => _simModelSimulationFactory.Create()).Returns(_simModelSimulation);
_modelCoreSimulation = A.Fake <IModelCoreSimulation>();
_simModelXmlString = "SimModelXml";
A.CallTo(() => _simModelExporter.Export(_modelCoreSimulation, SimModelExportMode.Optimized)).Returns(_simModelXmlString);
_parameterProperties1 = A.Fake <IParameterProperties>();
_parameterProperties2 = A.Fake <IParameterProperties>();
_parameterProperties3 = A.Fake <IParameterProperties>();
A.CallTo(() => _parameterProperties1.Path).Returns("ParameterPath1");
A.CallTo(() => _parameterProperties2.Path).Returns("ParameterPath2");
A.CallTo(() => _parameterProperties3.Path).Returns("ParameterPath3");
_allSimModelParameters = new List <IParameterProperties> {
_parameterProperties1, _parameterProperties2, _parameterProperties3
};
A.CallTo(() => _simModelSimulation.ParameterProperties).Returns(_allSimModelParameters);
_variableParameterPaths = new List <string> {
_parameterProperties1.Path, _parameterProperties2.Path
};
}
public SimModelManagerFactory(ISimModelExporter simModelExporter, ISimModelSimulationFactory simModelSimulationFactory, IMoBiContext context, IDataNamingService dataNamingService, IDisplayUnitRetriever displayUnitRetriever)
{
_simModelExporter = simModelExporter;
_simModelSimulationFactory = simModelSimulationFactory;
_context = context;
_dataNamingService = dataNamingService;
_displayUnitRetriever = displayUnitRetriever;
}
public SimModelManagerFactory(ISimModelExporter simModelExporter, ISimModelSimulationFactory simModelSimulationFactory, IMoBiContext context, IDisplayUnitRetriever displayUnitRetriever, IDataRepositoryTask dataRepositoryTask)
{
_simModelExporter = simModelExporter;
_simModelSimulationFactory = simModelSimulationFactory;
_context = context;
_displayUnitRetriever = displayUnitRetriever;
_dataRepositoryTask = dataRepositoryTask;
}
public SimModelManager(ISimModelExporter simModelExporter, ISimModelSimulationFactory simModelSimulationFactory, IDataFactory dataFactory) : base(simModelExporter, simModelSimulationFactory)
{
_dataFactory = dataFactory;
_executionTimeLimit = 0;
_timer = new Timer {
Interval = 1000
};
_timer.Elapsed += onTimeElapsed;
}
public PopulationRunner(
ISimModelExporter simModelExporter,
ISimModelSimulationFactory simModelSimulationFactory,
IObjectPathFactory objectPathFactory,
IEntitiesInSimulationRetriever entitiesInSimulationRetriever) : base(simModelExporter, simModelSimulationFactory)
{
_objectPathFactory = objectPathFactory;
_entitiesInSimulationRetriever = entitiesInSimulationRetriever;
}
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;
}
protected override void Context()
{
base.Context();
_buildConfigurationFactory = IoC.Resolve <IBuildConfigurationFactory>();
_modelConstructor = IoC.Resolve <IModelConstructor>();
_simModelExporter = IoC.Resolve <ISimModelExporter>();
_dateRepositoryTask = IoC.Resolve <IDataRepositoryTask>();
_directory = Path.Combine(Path.Combine(Path.Combine(Path.Combine(Path.Combine(AppDomain.CurrentDomain.BaseDirectory, "..\\.."), "Core", "SBML", "Testfiles", "SBMLTestSuite"))));
}
public EditTasksForSimulation(IInteractionTaskContext interactionTaskContext, ISimulationPersistor simulationPersistor, IDialogCreator dialogCreator,
IForbiddenNamesRetriever forbiddenNamesRetriver, IDataRepositoryTask dataRepositoryTask,
IModelReportCreator reportCreator, ISimModelExporter simModelExporter, IDimensionFactory dimensionFactory) : base(interactionTaskContext)
{
_simulationPersistor = simulationPersistor;
_dialogCreator = dialogCreator;
_forbiddenNamesRetriver = forbiddenNamesRetriver;
_dataRepositoryTask = dataRepositoryTask;
_reportCreator = reportCreator;
_simModelExporter = simModelExporter;
_dimensionFactory = dimensionFactory;
}
protected override void Context()
{
_context = A.Fake <IInteractionTaskContext>();
_simulationPersitor = A.Fake <ISimulationPersistor>();
_dialogCreator = A.Fake <IDialogCreator>();
_forbiddenNamesRetriever = A.Fake <IForbiddenNamesRetriever>();
_dataRepositoryTask = A.Fake <IDataRepositoryTask>();
_simulationModelExporter = A.Fake <ISimModelExporter>();
_reportCreator = A.Fake <IModelReportCreator>();
_dimensionFactory = A.Fake <IDimensionFactory>();
sut = new EditTasksForSimulation(_context, _simulationPersitor, _dialogCreator, _forbiddenNamesRetriever, _dataRepositoryTask, _reportCreator, _simulationModelExporter, _dimensionFactory);
}
protected override void Context()
{
_context = A.Fake <IInteractionTaskContext>();
_simulationPersistor = A.Fake <ISimulationPersistor>();
_dialogCreator = A.Fake <IDialogCreator>();
_dataRepositoryTask = A.Fake <IDataRepositoryExportTask>();
_simulationModelExporter = A.Fake <ISimModelExporter>();
_reportCreator = A.Fake <IModelReportCreator>();
_dimensionFactory = A.Fake <IDimensionFactory>();
_parameterIdentificationSimulationPathUpdater = A.Fake <IParameterIdentificationSimulationPathUpdater>();
sut = new EditTasksForSimulation(_context, _simulationPersistor, _dialogCreator, _dataRepositoryTask, _reportCreator, _simulationModelExporter, _dimensionFactory, _parameterIdentificationSimulationPathUpdater);
}
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 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;
}
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 override void GlobalContext()
{
base.GlobalContext();
_simModelExporter = IoC.Resolve <ISimModelExporter>();
_withIdRepository = IoC.Resolve <IWithIdRepository>();
_namingFactory = A.Fake <IDataNamingService>();
_dimensionFactory = IoC.Resolve <IDimensionFactory>();
_objectPathFactory = IoC.Resolve <IObjectPathFactory>();
_displayUnitRetriever = IoC.Resolve <IDisplayUnitRetriever>();
_simulation = IoC.Resolve <SimulationHelperForSpecs>().CreateSimulation();
new RegisterTaskForSpecs(_withIdRepository).RegisterAllIn(_simulation.Model.Root);
var schemaPath = Path.Combine(AppDomain.CurrentDomain.BaseDirectory, "OSPSuite.SimModel.xsd");
XMLSchemaCache.InitializeFromFile(schemaPath);
sut = new SimModelManager(_simModelExporter, new SimModelSimulationFactory(), new DataFactory(_dimensionFactory, _namingFactory, _objectPathFactory, _displayUnitRetriever));
}
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);
}
public EditTasksForSimulation(
IInteractionTaskContext interactionTaskContext,
ISimulationPersistor simulationPersistor,
IDialogCreator dialogCreator,
IDataRepositoryTask dataRepositoryTask,
IModelReportCreator reportCreator,
ISimModelExporter simModelExporter,
IDimensionFactory dimensionFactory,
IParameterIdentificationSimulationPathUpdater parameterIdentificationSimulationPathUpdater) : base(interactionTaskContext)
{
_simulationPersistor = simulationPersistor;
_dialogCreator = dialogCreator;
_dataRepositoryTask = dataRepositoryTask;
_reportCreator = reportCreator;
_simModelExporter = simModelExporter;
_dimensionFactory = dimensionFactory;
_parameterIdentificationSimulationPathUpdater = parameterIdentificationSimulationPathUpdater;
}
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 override void GlobalContext()
{
base.GlobalContext();
_simModelExporter = IoC.Resolve <ISimModelExporter>();
_withIdRepository = IoC.Resolve <IWithIdRepository>();
_objectPathFactory = IoC.Resolve <IObjectPathFactory>();
_entityInSimulationRetriever = IoC.Resolve <IEntitiesInSimulationRetriever>();
_simulation = IoC.Resolve <SimulationHelperForSpecs>().CreateSimulation();
new RegisterTaskForSpecs(_withIdRepository).RegisterAllIn(_simulation.Model.Root);
_populationData = createPopTableParameters();
_agingData = createPopAgingParameters();
_initialValuesData = createPopInitialValues();
_runOptions = new RunOptions();
sut = new PopulationRunner(_simModelExporter, new SimModelSimulationFactory(), _objectPathFactory, _entityInSimulationRetriever);
_results = sut.RunPopulationAsync(_simulation, _runOptions, _populationData, _agingData).Result;
}
public override void GlobalContext()
{
base.GlobalContext();
_simModelExporter = IoC.Resolve <ISimModelExporter>();
_withIdRepository = IoC.Resolve <IWithIdRepository>();
_objectPathFactory = IoC.Resolve <IObjectPathFactory>();
_simulation = IoC.Resolve <SimulationHelperForSpecs>().CreateSimulation();
new RegisterTaskForSpecs(_withIdRepository).RegisterAllIn(_simulation.Model.Root);
var schemaPath = Path.Combine(AppDomain.CurrentDomain.BaseDirectory, "OSPSuite.SimModel.xsd");
XMLSchemaCache.InitializeFromFile(schemaPath);
_populationData = createPopTableParameters();
_agingData = createPopAgingParameters();
_initialValuesData = createPopInitialValues();
sut = new PopulationRunner(_simModelExporter, new SimModelSimulationFactory(), _objectPathFactory);
_results = sut.RunPopulationAsync(_simulation, _populationData, _agingData).Result;
}
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;
}
public SimulationAnalyzer(ISimModelExporter simModelExporter, ISimModelSimulationFactory simModelSimulationFactory) : base(simModelExporter, simModelSimulationFactory)
{
}
public SimModelBatch(ISimModelExporter simModelExporter, ISimModelSimulationFactory simModelSimulationFactory, IDataFactory dataFactory) : base(
simModelExporter, simModelSimulationFactory)
{
_dataFactory = dataFactory;
KeepXMLNodeInSimModelSimulation = false;
}
protected SimModelManagerBase(ISimModelExporter simModelExporter, ISimModelSimulationFactory simModelSimulationFactory)
{
_simModelExporter = simModelExporter;
_simModelSimulationFactory = simModelSimulationFactory;
}
public SimModelManagerForSpecs(ISimModelExporter simModelExporter, ISimModelSimulationFactory simModelSimulationFactory) : base(simModelExporter, simModelSimulationFactory)
{
}
internal MatlabHelper(ISimModelExporter simModelExporter, ISimulationTransferLoader simulationTransferLoader)
{
_simModelExporter = simModelExporter;
_simulationTransferLoader = simulationTransferLoader;
}
public SimModelBatch(ISimModelExporter simModelExporter, ISimModelSimulationFactory simModelSimulationFactory, IDataFactory dataFactory) : base(simModelExporter, simModelSimulationFactory)
{
_dataFactory = dataFactory;
_parameterValueCache = new Cache <string, double>();
}
public PopulationRunner(ISimModelExporter simModelExporter, ISimModelSimulationFactory simModelSimulationFactory, IObjectPathFactory objectPathFactory) : base(simModelExporter, simModelSimulationFactory)
{
_objectPathFactory = objectPathFactory;
NumberOfCoresToUse = 1;
}