public DataRepositoryDataPresenter(IDataRepositoryDataView view, IDataRepositoryTask dataRepositoryTask, IEditObservedDataTask editObservedDataTask)
: base(view)
{
_dataRepositoryTask = dataRepositoryTask;
_editObservedDataTask = editObservedDataTask;
_numericFormatter = new NumericFormatter <double>(NumericFormatterOptions.Instance);
}
public DataRepositoryTestPresenter(
IDataRepositoryTestView view,
IDataRepositoryDataPresenter dataPresenter,
IDataRepositoryChartPresenter chartPresenter,
IDataRepositoryMetaDataPresenter metaDataPresenter,
IImportObservedDataTask importObservedDataTask,
IDataRepositoryTask dataRepositoryTask,
IDialogCreator dialogCreator) : base(view)
{
_dataPresenter = dataPresenter;
_chartPresenter = chartPresenter;
_metaDataPresenter = metaDataPresenter;
_dataRepositoryTask = dataRepositoryTask;
_dialogCreator = dialogCreator;
_subPresenterManager.Add(_dataPresenter);
_subPresenterManager.Add(_chartPresenter);
_subPresenterManager.Add(_metaDataPresenter);
_view.AddChartView(_chartPresenter.BaseView);
_view.AddDataView(_dataPresenter.BaseView);
_view.AddMetaDataView(_metaDataPresenter.BaseView);
InitializeWith(new OSPSuiteMacroCommand <OSPSuiteExecutionContext>());
Edit(importObservedDataTask.ImportObservedData());
}
protected override void Context()
{
_editObservedDataTask = A.Fake <IEditObservedDataTask>();
_view = A.Fake <IDataRepositoryDataView>();
_dataRepositoryTask = A.Fake <IDataRepositoryTask>();
_commandCollector = A.Fake <ICommandCollector>();
sut = new DataRepositoryDataPresenter(_view, _dataRepositoryTask, _editObservedDataTask);
sut.InitializeWith(_commandCollector);
//common setup
_dataRepository = new DataRepository();
_dataTable = new DataTable();
A.CallTo(() => _dataRepositoryTask.ToDataTable(_dataRepository, A <DataColumnExportOptions> ._)).Returns(new[] { _dataTable });
var col = _dataTable.AddColumn <float>("test");
col.ExtendedProperties.Add(Constants.DATA_REPOSITORY_COLUMN_ID, "col");
_baseGrid = new BaseGrid("base", "base", Constants.Dimension.NO_DIMENSION)
{
Values = new ArraySegment <float>()
};
_dim = A.Fake <IDimension>();
_col = new DataColumn("col", "col", _dim, _baseGrid)
{
Values = new ArraySegment <float>()
};
_dataRepository.Add(_baseGrid);
_dataRepository.Add(_col);
}
protected ObservedDataTask(IDialogCreator dialogCreator, IOSPSuiteExecutionContext executionContext, IDataRepositoryTask dataRepositoryTask, IContainerTask containerTask, IObjectTypeResolver objectTypeResolver)
{
_dialogCreator = dialogCreator;
_executionContext = executionContext;
_dataRepositoryTask = dataRepositoryTask;
_containerTask = containerTask;
_objectTypeResolver = objectTypeResolver;
}
public SimModelManagerFactory(ISimModelExporter simModelExporter, ISimModelSimulationFactory simModelSimulationFactory, IMoBiContext context, IDisplayUnitRetriever displayUnitRetriever, IDataRepositoryTask dataRepositoryTask)
{
_simModelExporter = simModelExporter;
_simModelSimulationFactory = simModelSimulationFactory;
_context = context;
_displayUnitRetriever = displayUnitRetriever;
_dataRepositoryTask = dataRepositoryTask;
}
public PKAnalysisExportTask(IDialogCreator dialogCreator, IDataRepositoryTask dataRepositoryTask, IQuantityPathToQuantityDisplayPathMapper quantityDisplayPathMapper,
IGlobalPKAnalysisToDataTableMapper globalPKAnalysisToDataTableMapper)
{
_dialogCreator = dialogCreator;
_dataRepositoryTask = dataRepositoryTask;
_globalPKAnalysisToDataTableMapper = globalPKAnalysisToDataTableMapper;
_quantityDisplayPathMapper = quantityDisplayPathMapper;
}
public DataRepositoryFromResultsCreator(
IDimensionRepository dimensionRepository,
IObjectPathFactory objectPathFactory,
IDataRepositoryTask dataRepositoryTask)
{
_dimensionRepository = dimensionRepository;
_objectPathFactory = objectPathFactory;
_dataRepositoryTask = dataRepositoryTask;
}
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"))));
}
protected override void Context()
{
_dialogCreator = A.Fake <IDialogCreator>();
_dataRepositoryTask = A.Fake <IDataRepositoryTask>();
_quantityDisplayPathMapper = A.Fake <IQuantityPathToQuantityDisplayPathMapper>();
_pkAnalysisTask = A.Fake <IPKAnalysisTask>();
_globalPKAnalysisMapper = A.Fake <IGlobalPKAnalysisToDataTableMapper>();
sut = new PKAnalysisExportTask(_dialogCreator, _dataRepositoryTask, _quantityDisplayPathMapper, _globalPKAnalysisMapper);
}
public PopulationAnalysisTask(
IDialogCreator dialogCreator, IDataRepositoryTask dataRepositoryTask, ExportSimulationAnalysisToPDFCommand exportSimulationAnalysisToPDFCommand,
IChartDataToTableMapperFactory chartDataToTableMapperFactory, IPKSimProjectRetriever projectRetriever)
{
_exportSimulationAnalysisToPDFCommand = exportSimulationAnalysisToPDFCommand;
_chartDataToTableMapperFactory = chartDataToTableMapperFactory;
_projectRetriever = projectRetriever;
_dialogCreator = dialogCreator;
_dataRepositoryTask = dataRepositoryTask;
}
protected override void Context()
{
_dimensionRepository = A.Fake <IDimensionFactory>();
A.CallTo(() => _dimensionRepository.NoDimension).Returns(Constants.Dimension.NO_DIMENSION);
_objectBaseFactory = new ObjectBaseFactoryForSpecs(_dimensionRepository);
_objectToClone = createEntityToClone();
_dataRepositoryTask = A.Fake <IDataRepositoryTask>();
_modelFinalizer = A.Fake <IModelFinalizer>();
sut = new CloneManagerForModel(_objectBaseFactory, _dataRepositoryTask, _modelFinalizer);
}
protected override void Context()
{
_dimensionRepository = A.Fake <IDimensionFactory>();
_dataRepositoryTask = A.Fake <IDataRepositoryTask>();
A.CallTo(() => _dimensionRepository.NoDimension).Returns(new Dimension());
_objectBaseFactory = new ObjectBaseFactoryForSpecs(_dimensionRepository);
_objectToClone = createEntityToClone();
_formulaCache = new FormulaCache();
sut = new CloneManagerForBuildingBlock(_objectBaseFactory, _dataRepositoryTask);
}
public DataFactory(
IDimensionFactory dimensionFactory,
IObjectPathFactory objectPathFactory,
IDisplayUnitRetriever displayUnitRetriever,
IDataRepositoryTask dataRepositoryTask)
{
_dimensionFactory = dimensionFactory;
_objectPathFactory = objectPathFactory;
_displayUnitRetriever = displayUnitRetriever;
_dataRepositoryTask = dataRepositoryTask;
}
protected override void Context()
{
_dataRepositoryTask = A.Fake <IDataRepositoryTask>();
_quantityDisplayPathMapper = A.Fake <IQuantityPathToQuantityDisplayPathMapper>();
_batchSimulationExportMapper = A.Fake <ISimulationResultsToBatchSimulationExportMapper>();
sut = new SimulationResultsExporter(_dataRepositoryTask, _quantityDisplayPathMapper, _batchSimulationExportMapper);
_simulation = A.Fake <ISimulation>();
_results = new DataRepository();
_fileName = FileHelper.GenerateTemporaryFileName();
}
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);
}
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>();
_simulationPersistor = A.Fake <ISimulationPersistor>();
_dialogCreator = A.Fake <IDialogCreator>();
_dataRepositoryTask = A.Fake <IDataRepositoryTask>();
_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);
}
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()
{
_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);
}
protected override void Context()
{
_dialogCreator = A.Fake <IDialogCreator>();
_context = A.Fake <IOSPSuiteExecutionContext>();
_dataRepositoryTask = A.Fake <IDataRepositoryTask>();
_containerTask = A.Fake <IContainerTask>();
_objectTypeResolver = A.Fake <IObjectTypeResolver>();
sut = new ObservedDataTaskForSpecs(_dialogCreator, _context, _dataRepositoryTask, _containerTask, _objectTypeResolver);
_obsData1 = DomainHelperForSpecs.ObservedData("OBS1");
_obsData2 = DomainHelperForSpecs.ObservedData("OBS2");
A.CallTo(() => _context.Project.AllUsersOfObservedData).Returns(_allUserOfObservedData);
}
protected override void Context()
{
_objectPathFactory = new ObjectPathFactory(new AliasCreator());
_dimensionFactory = DimensionFactoryForSpecs.Factory;
_objectBaseFactory = new ObjectBaseFactoryForSpecs(_dimensionFactory);
_formulaTask = new FormulaTask(_objectPathFactory, _objectBaseFactory, new AliasCreator(), _dimensionFactory);
_tableFormulaToTableFormulaExportMapper = A.Fake <ITableFormulaToTableFormulaExportMapper>();
_dataRepositoryTask = A.Fake <IDataRepositoryTask>();
_modelFinalizer = new ModelFinalizer(_objectPathFactory, new ReferencesResolver());
_concentrationBasedFormulaUpdater = new ConcentrationBasedFormulaUpdater(new CloneManagerForModel(new ObjectBaseFactoryForSpecs(_dimensionFactory), _dataRepositoryTask, _modelFinalizer),
_objectBaseFactory, _dimensionFactory, _formulaTask);
_model = new Model().WithName("Model");
_root = new Container().WithName("Root");
_model.Root = _root;
sut = new CreateExportModelVisitor(_objectPathFactory, _tableFormulaToTableFormulaExportMapper, _concentrationBasedFormulaUpdater);
}
protected override Task Context()
{
_snapshotTask = A.Fake <ISnapshotTask>();
_jsonSerializer = A.Fake <IJsonSerializer>();
_workspace = A.Fake <ICoreWorkspace>();
_workspacePersistor = A.Fake <IWorkspacePersistor>();
_exportSimulationRunner = A.Fake <IExportSimulationRunner>();
_logger = A.Fake <ILogger>();
_dataRepositoryTask = A.Fake <IDataRepositoryTask>();
_markdownReporterTask = A.Fake <IMarkdownReporterTask>();
sut = new QualificationRunner(_snapshotTask, _jsonSerializer, _workspace, _workspacePersistor, _exportSimulationRunner, _dataRepositoryTask, _markdownReporterTask, _logger);
_runOptions = new QualificationRunOptions();
_qualificationConfiguration = new QualifcationConfiguration();
return(_completed);
}
protected override void Context()
{
_containerTask = A.Fake <IContainerTask>();
_projectRetriever = A.Fake <IPKSimProjectRetriever>();
_dataRepositoryTask = A.Fake <IDataRepositoryTask>();
_executionContext = A.Fake <IExecutionContext>();
_dialogCreator = A.Fake <IDialogCreator>();
_applicationController = A.Fake <IApplicationController>();
_templateTask = A.Fake <ITemplateTask>();
_project = A.Fake <IPKSimProject>();
_observedDataPersistor = A.Fake <IObservedDataPersistor>();
A.CallTo(() => _projectRetriever.CurrentProject).Returns(_project);
A.CallTo(() => _projectRetriever.Current).Returns(_project);
A.CallTo(() => _executionContext.Project).Returns(_project);
_objectTypeResolver = A.Fake <IObjectTypeResolver>();
sut = new Services.ObservedDataTask(_projectRetriever, _executionContext, _dialogCreator, _applicationController,
_dataRepositoryTask, _templateTask, _containerTask, _observedDataPersistor, _objectTypeResolver);
}
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()
{
_dialogCreator = A.Fake <IDialogCreator>();
_dataRepositoryTask = A.Fake <IDataRepositoryTask>();
_dimensionFactory = A.Fake <IDimensionFactory>();
sut = new CurveChartExportTask(_dialogCreator, _dataRepositoryTask, _dimensionFactory);
var dataRepository = DomainHelperForSpecs.SimulationDataRepositoryFor("Sim");
_curve = new Curve();
_curve.SetxData(dataRepository.BaseGrid, _dimensionFactory);
var dataColumn = dataRepository.AllButBaseGrid().First();
_curve.SetyData(dataColumn, _dimensionFactory);
_mergedDimensionDataColum = A.Fake <IDimension>();
A.CallTo(() => _dimensionFactory.MergedDimensionFor(dataRepository.BaseGrid)).Returns(dataRepository.BaseGrid.Dimension);
A.CallTo(() => _dimensionFactory.MergedDimensionFor(dataColumn)).Returns(_mergedDimensionDataColum);
}
public QualificationRunner(ISnapshotTask snapshotTask,
IJsonSerializer jsonSerializer,
ICoreWorkspace workspace,
IWorkspacePersistor workspacePersistor,
IExportSimulationRunner exportSimulationRunner,
IDataRepositoryTask dataRepositoryTask,
IMarkdownReporterTask markdownReporterTask,
ILogger logger
)
{
_snapshotTask = snapshotTask;
_jsonSerializer = jsonSerializer;
_workspace = workspace;
_workspacePersistor = workspacePersistor;
_logger = logger;
_exportSimulationRunner = exportSimulationRunner;
_dataRepositoryTask = dataRepositoryTask;
_markdownReporterTask = markdownReporterTask;
}
protected override void Context()
{
_dataImporter = A.Fake <IDataImporter>();
_dimensionFactory = A.Fake <IDimensionFactory>();
_context = A.Fake <IMoBiContext>();
_dialogCreator = A.Fake <IDialogCreator>();
_dataRepository = new DataRepository {
new BaseGrid("", DimensionFactoryForSpecs.Factory.Dimension("Time"))
};
_interactionTask = A.Fake <IInteractionTask>();
_dataRepositoryTask = A.Fake <IDataRepositoryTask>();
_containerTask = A.Fake <IContainerTask>();
_objectTypeResolver = A.Fake <IObjectTypeResolver>();
sut = new ObservedDataTask(_dataImporter, _dimensionFactory, _context, _dialogCreator, _interactionTask, _dataRepositoryTask, _containerTask, _objectTypeResolver);
_project = new MoBiProject();
A.CallTo(() => _context.Project).Returns(_project);
A.CallTo(() => _context.CurrentProject).Returns(_project);
}
protected override void Context()
{
_dataFactory = A.Fake <IDataRepositoryTask>();
_dimensionRepository = A.Fake <IDimensionRepository>();
sut = new DataRepositoryFromResultsCreator(
_dimensionRepository, new ObjectPathFactoryForSpecs(), _dataFactory);
_simulation = new IndividualSimulation().WithName("S");
_simulation.Model = new OSPSuite.Core.Domain.Model();
var root = new Container().WithContainerType(ContainerType.Simulation).WithName(_simulation.Name);
_simulation.Model.Root = root;
var liver = new Container().WithName("LIVER");
liver.Add(new Observer().WithName("C"));
var kidney = new Container().WithName("KIDNEY");
kidney.Add(new Observer().WithName("C"));
root.Add(liver);
root.Add(kidney);
_simulationResults = new SimulationResults();
_simulation.Results = _simulationResults;
_timeValues = new QuantityValues {
QuantityPath = "Time", Values = new[] { 1f, 2f, 3f }
};
_simulationResults.Time = _timeValues;
_individualResults = new IndividualResults();
_individualResults.Add(new QuantityValues {
QuantityPath = "LIVER|C", Time = _timeValues, Values = new[] { 10f, 20f, 30f }
});
_individualResults.Add(new QuantityValues {
QuantityPath = "KIDNEY|C", Time = _timeValues, Values = new[] { 11f, 22f, 33f }
});
_outputSelection = new OutputSelections();
_outputSelection.AddOutput(new QuantitySelection(new[] { "LIVER", "C" }.ToPathString(), QuantityType.Molecule));
_simulation.SimulationSettings = new SimulationSettings();
_simulation.SimulationSettings.OutputSelections = _outputSelection;
}
protected override void Context()
{
base.Context();
var container = A.Fake <IContainer>();
var noDimension = A.Fake <IDimension>();
var dimensionFactory = A.Fake <IDimensionFactory>();
A.CallTo(() => dimensionFactory.NoDimension).Returns(noDimension);
var objectBaseFactory = new ObjectBaseFactory(container, dimensionFactory, new IdGenerator(), A.Fake <ICreationMetaDataFactory>());
_dataRepositoryTask = A.Fake <IDataRepositoryTask>();
_cloneManagerForBuildingBlock = new CloneManagerForBuildingBlock(objectBaseFactory, _dataRepositoryTask);
sut.ForAll = false;
sut.AddMoleculeName("A");
sut.AddMoleculeName("B");
sut.AddMoleculeNameToExclude("C");
sut.AddMoleculeNameToExclude("D");
}
protected override void Context()
{
_dataRepositoryTask = A.Fake <IDataRepositoryTask>();
_dimensionFactory = A.Fake <IDimensionFactory>();
sut = new WeightedDataRepositoryToDataTableMapper(_dataRepositoryTask, _dimensionFactory);
var baseGrid = new BaseGrid("name", _dimensionFactory.NoDimension)
{
Values = new[] { 0.0f }
};
var dataColumn = new DataColumn {
Values = new[] { 0.0f }
};
_dataRepository = new DataRepository {
baseGrid, dataColumn
};
_weightedObservedData = new WeightedObservedData(_dataRepository);
A.CallTo(() => _dataRepositoryTask.ToDataTable(A <IEnumerable <DataColumn> > ._, A <bool> ._, A <bool> ._, A <bool> ._)).Returns(new[] { new DataTable() });
}
