protected override void Context()
{
base.Context();
_key1 = "key1";
_key2 = "key2";
_key3 = "key3";
_key4 = "key4";
var loadedProtocol1 = A.Fake <Protocol>().WithName("P1");
loadedProtocol1.IsLoaded = true;
A.CallTo(() => loadedProtocol1.UsedFormulationKeys).Returns(new[] { _key1, _key2 });
var notLoadedProtocol = A.Fake <Protocol>().WithName("P2");
A.CallTo(() => notLoadedProtocol.UsedFormulationKeys).Returns(new[] { "tralala" });
var loadedProtocol2 = A.Fake <Protocol>().WithName("P3");
loadedProtocol2.IsLoaded = true;
A.CallTo(() => loadedProtocol2.UsedFormulationKeys).Returns(new[] { _key2, _key3 });
var project = new PKSimProject();
project.AddBuildingBlock(loadedProtocol1);
project.AddBuildingBlock(loadedProtocol2);
project.AddBuildingBlock(notLoadedProtocol);
var formulation = new Formulation().WithName(_key4);
project.AddBuildingBlock(formulation);
A.CallTo(() => _projectRetriever.CurrentProject).Returns(project);
}
protected override void Context()
{
_project = new PKSimProject();
_projectRetriever = A.Fake <IPKSimProjectRetriever>();
A.CallTo(() => _projectRetriever.Current).Returns(_project);
_compound1 = A.Fake <Compound>();
_compound1.IsLoaded = false;
_compound2 = new Compound {
IsLoaded = true
};
_compound2.AddProcess(new EnzymaticProcess {
MoleculeName = "A", Name = "P1"
});
_compound2.AddProcess(new EnzymaticProcess {
MoleculeName = "C", Name = "P2"
});
_compound2.AddProcess(new EnzymaticProcess {
MoleculeName = "B", Name = "P3"
});
_individual1 = A.Fake <Individual>();
_individual1.IsLoaded = false;
_individual2 = new Individual {
IsLoaded = true
};
_individual2.AddMolecule(new IndividualEnzyme().WithName("B"));
_individual2.AddMolecule(new IndividualEnzyme().WithName("D"));
_project.AddBuildingBlock(_compound1);
_project.AddBuildingBlock(_compound2);
_project.AddBuildingBlock(_individual1);
_project.AddBuildingBlock(_individual2);
sut = new UsedMoleculeRepository(_projectRetriever);
}
protected override async Task Context()
{
await base.Context();
_snapshot = await sut.MapToSnapshot(_individual);
_project = new PKSimProject();
_snapshotContext = new SnapshotContext(_project, ProjectVersions.V11);
_snapshot.Name = "New individual";
_snapshot.Description = "The description that will be deserialized";
//clear enzyme before mapping them again
_individual.RemoveExpressionProfile(_expressionProfile1);
_individual.RemoveExpressionProfile(_expressionProfile2);
//reset parameter
_parameterKidney.ResetToDefault();
_project.AddBuildingBlock(_expressionProfile1);
_project.AddBuildingBlock(_expressionProfile2);
_newOriginData = new Model.OriginData();
A.CallTo(() => _originDataMapper.MapToModel(_snapshot.OriginData, A <SnapshotContext> ._)).Returns(_newOriginData);
A.CallTo(() => _individualFactory.CreateAndOptimizeFor(_newOriginData, _snapshot.Seed))
.Returns(_individual);
}
protected override Task Context()
{
_individualSimulationComparisonMapper = A.Fake <IndividualSimulationComparisonMapper>();
_populationAnalysisChartMapper = A.Fake <PopulationAnalysisChartMapper>();
_objectBaseFactory = A.Fake <IObjectBaseFactory>();
sut = new SimulationComparisonMapper(_individualSimulationComparisonMapper, _populationAnalysisChartMapper, _objectBaseFactory);
_individualSimulation1 = new IndividualSimulation().WithName("IndS1").WithId("IndS1");
_individualSimulation2 = new IndividualSimulation().WithName("IndS2").WithId("IndS2");
_individualSimulationComparison = new IndividualSimulationComparison
{
Name = "IndividualComparison",
Description = "IndividualComparison Description",
};
_individualSimulationComparison.AddSimulation(_individualSimulation1);
_individualSimulationComparison.AddSimulation(_individualSimulation2);
_populationSimulation1 = new PopulationSimulation().WithName("PopS1").WithId("PopS1");
_populationSimulation2 = new PopulationSimulation().WithName("PopS2").WithId("PopS2");
_referenceSimulation = new PopulationSimulation().WithName("PopS3").WithId("PopS3");
_populationSimulationComparison = new PopulationSimulationComparison
{
Name = "PopulationComparison",
Description = "PopulationComparison Description",
};
_populationSimulationAnalysis = new BoxWhiskerAnalysisChart();
_populationSimulationComparison.AddSimulation(_populationSimulation1);
_populationSimulationComparison.AddSimulation(_populationSimulation2);
_populationSimulationComparison.AddAnalysis(_populationSimulationAnalysis);
_populationSimulationComparison.ReferenceGroupingItem = new GroupingItem();
_populationSimulationComparison.ReferenceSimulation = _referenceSimulation;
_curveChart = new CurveChart();
A.CallTo(() => _individualSimulationComparisonMapper.MapToSnapshot(_individualSimulationComparison)).Returns(_curveChart);
_populationAnalysisChartSnapshot = new Snapshots.PopulationAnalysisChart();
A.CallTo(() => _populationAnalysisChartMapper.MapToSnapshot(_populationSimulationAnalysis)).Returns(_populationAnalysisChartSnapshot);
_project = new PKSimProject();
_project.AddBuildingBlock(_individualSimulation1);
_project.AddBuildingBlock(_individualSimulation2);
_project.AddBuildingBlock(_populationSimulation1);
_project.AddBuildingBlock(_populationSimulation2);
_project.AddBuildingBlock(_referenceSimulation);
_snapshotContext = new SnapshotContext(_project, ProjectVersions.V10);
return(_completed);
}
protected override void Context()
{
_projectRetriever = A.Fake <IPKSimProjectRetriever>();
sut = new BuildingBlockRepository(_projectRetriever);
_project = new PKSimProject();
A.CallTo(() => _projectRetriever.Current).Returns(_project);
_individual1 = new Individual().WithName("IND1");
_individual2 = new Individual().WithName("IND2");
_project.AddBuildingBlock(_individual1);
_project.AddBuildingBlock(_individual2);
}
public override void GlobalContext()
{
base.GlobalContext();
var moleculeExpressionTask = IoC.Resolve <IMoleculeExpressionTask <Individual> >();
_templateIndividual = DomainFactoryForSpecs.CreateStandardIndividual();
_templateExpressionProfileCYP3A4 = DomainFactoryForSpecs.CreateExpressionProfile <IndividualEnzyme>("CYP3A4");
moleculeExpressionTask.AddExpressionProfile(_templateIndividual, _templateExpressionProfileCYP3A4);
_templateIndividualUsingSameProfile = DomainFactoryForSpecs.CreateStandardIndividual().WithName("IND2");
moleculeExpressionTask.AddExpressionProfile(_templateIndividualUsingSameProfile, _templateExpressionProfileCYP3A4);
_templateIndividualUsingAnotherProfile = DomainFactoryForSpecs.CreateStandardIndividual().WithName("IND3");
_templateExpressionProfileCYP2D6 = DomainFactoryForSpecs.CreateExpressionProfile <IndividualEnzyme>("CYP2D6");
moleculeExpressionTask.AddExpressionProfile(_templateIndividualUsingAnotherProfile, _templateExpressionProfileCYP2D6);
var compound = DomainFactoryForSpecs.CreateStandardCompound();
var protocol = DomainFactoryForSpecs.CreateStandardIVBolusProtocol();
_simulation = DomainFactoryForSpecs.CreateSimulationWith(_templateIndividual, compound, protocol) as IndividualSimulation;
var project = new PKSimProject();
project.AddBuildingBlock(compound);
project.AddBuildingBlock(protocol);
project.AddBuildingBlock(_simulation);
project.AddBuildingBlock(_templateIndividual);
project.AddBuildingBlock(_templateIndividualUsingSameProfile);
project.AddBuildingBlock(_templateIndividualUsingAnotherProfile);
project.AddBuildingBlock(_templateExpressionProfileCYP3A4);
project.AddBuildingBlock(_templateExpressionProfileCYP2D6);
var workspace = IoC.Resolve <ICoreWorkspace>();
workspace.Project = project;
}
protected override void Context()
{
_project = new PKSimProject();
_projectRetriever = A.Fake <IPKSimProjectRetriever>();
_transporterContainerTemplateRepository = A.Fake <ITransporterContainerTemplateRepository>();
A.CallTo(() => _projectRetriever.Current).Returns(_project);
_compound1 = A.Fake <Compound>();
_compound1.IsLoaded = false;
_compound2 = new Compound {
IsLoaded = true
};
_compound2.AddProcess(new EnzymaticProcess {
MoleculeName = "ProjA", Name = "P1"
});
_compound2.AddProcess(new EnzymaticProcess {
MoleculeName = "ProjC", Name = "P2"
});
_compound2.AddProcess(new EnzymaticProcess {
MoleculeName = "ProjB", Name = "P3"
});
_ontogenyRepository = A.Fake <IOntogenyRepository>();
_moleculeParameterRepository = A.Fake <IMoleculeParameterRepository>();
_expressionProfile = A.Fake <ExpressionProfile>();
_expressionProfile.IsLoaded = true;
A.CallTo(() => _expressionProfile.MoleculeName).Returns("ProjE");
_project.AddBuildingBlock(_compound1);
_project.AddBuildingBlock(_compound2);
_project.AddBuildingBlock(_expressionProfile);
sut = new UsedMoleculeRepository(_projectRetriever, _ontogenyRepository, _moleculeParameterRepository, _transporterContainerTemplateRepository);
var molParam1 = new MoleculeParameter {
MoleculeName = "DbB"
};
var molParam2 = new MoleculeParameter {
MoleculeName = "DbA"
};
A.CallTo(() => _moleculeParameterRepository.All()).Returns(new[] { molParam1, molParam2 });
A.CallTo(() => _transporterContainerTemplateRepository.AllTransporterNames).Returns(new[] { "ATRANS1", "TRANS2" });
A.CallTo(() => _ontogenyRepository.AllFor(CoreConstants.Species.HUMAN)).Returns(new[] { new DatabaseOntogeny {
Name = "OntoC"
} });
}
public IPKSimProject MapFrom(ProjectMetaData projectMetaData)
{
var project = new PKSimProject
{
Name = projectMetaData.Name,
Description = projectMetaData.Description
};
//Observed data needs to be loaded first into project
projectMetaData.AllObservedData.Each(x => project.AddObservedData(mapFrom(x)));
projectMetaData.BuildingBlocks.Each(x => project.AddBuildingBlock(mapFrom(x)));
//we need a shared context for all object referencing observed data and simulations
using (var context = _serializationContextFactory.Create(project.AllObservedData, project.All <ISimulation>()))
{
var localContext = context;
projectMetaData.ParameterIdentifications.Each(x => project.AddParameterIdentification(mapFrom(x, localContext)));
projectMetaData.SensitivityAnalyses.Each(x => project.AddSensitivityAnalysis(mapFrom(x, localContext)));
}
projectMetaData.SimulationComparisons.Each(x => project.AddSimulationComparison(mapFrom(x)));
//Once reference to dynamic meta data was added, deserialize the project itself
_serializationManager.Deserialize(project, projectMetaData.Content.Data);
//if the project DB Version is the same as the current project, the project did not change
if (projectMetaData.Version == ProjectVersions.Current)
{
project.HasChanged = false;
}
return(project);
}
public override Task GlobalContext()
{
_project = new PKSimProject();
_dialogCreator = A.Fake <IDialogCreator>();
_workspace = A.Fake <IWorkspace>();
_executionContext = A.Fake <IExecutionContext>();
_applicationController = A.Fake <IApplicationController>();
_workspaceLayoutUpdater = A.Fake <IWorkspaceLayoutUpdater>();
_userSettings = A.Fake <IUserSettings>();
_journalTask = A.Fake <IJournalTask>();
_journalRetriever = A.Fake <IJournalRetriever>();
_snapshotTask = A.Fake <ISnapshotTask>();
_buildingBlockInSimulationManager = A.Fake <IBuildingBlockInSimulationManager>();
_workspace.Project = _project;
_workspace.WorkspaceLayout = new WorkspaceLayout();
_heavyWorkManager = new HeavyWorkManagerForSpecs();
_simulation = new IndividualSimulation();
_project.AddBuildingBlock(_simulation);
sut = new ProjectTask(_workspace, _applicationController, _dialogCreator,
_executionContext, _heavyWorkManager, _workspaceLayoutUpdater, _userSettings,
_journalTask, _journalRetriever, _snapshotTask, _buildingBlockInSimulationManager);
_oldFileExitst = FileHelper.FileExists;
return(_completed);
}
protected override Task Context()
{
_parameterMapper = A.Fake <ParameterMapper>();
_eventMappingFactory = A.Fake <IEventMappingFactory>();
sut = new EventMappingMapper(_parameterMapper, _eventMappingFactory);
_event = new PKSimEvent()
.WithName("E1")
.WithId("EventId");
_eventMapping = new EventMapping
{
TemplateEventId = _event.Id,
StartTime = DomainHelperForSpecs.ConstantParameterWithValue(1)
};
_snapshotEventStartTime1 = new Parameter {
Name = "P1"
};
_project = new PKSimProject();
_project.AddBuildingBlock(_event);
A.CallTo(() => _parameterMapper.MapToSnapshot(_eventMapping.StartTime)).Returns(_snapshotEventStartTime1);
return(_completed);
}
public override void GlobalContext()
{
base.GlobalContext();
_templateIndividual = DomainFactoryForSpecs.CreateStandardIndividual();
var compound = DomainFactoryForSpecs.CreateStandardCompound();
var protocol = DomainFactoryForSpecs.CreateStandardIVBolusProtocol();
_simulation = DomainFactoryForSpecs.CreateSimulationWith(_templateIndividual, compound, protocol) as IndividualSimulation;
_workspace = IoC.Resolve <IWorkspace>();
var project = new PKSimProject();
project.AddBuildingBlock(compound);
project.AddBuildingBlock(protocol);
project.AddBuildingBlock(_simulation);
project.AddBuildingBlock(_templateIndividual);
_workspace.Project = project;
}
protected override Task Context()
{
_parameterIdentificationConfigurationMapper = A.Fake <ParameterIdentificationConfigurationMapper>();
_outputMappingMapper = A.Fake <OutputMappingMapper>();
_identificationParameterMapper = A.Fake <IdentificationParameterMapper>();
_parameterIdentificationAnalysisMapper = A.Fake <ParameterIdentificationAnalysisMapper>();
_objectBaseFactory = A.Fake <IObjectBaseFactory>();
_logger = A.Fake <IOSPSuiteLogger>();
_project = new PKSimProject();
_snapshotContext = new SnapshotContext(_project, ProjectVersions.Current);
_simulation = new IndividualSimulation().WithName("S1");
_project.AddBuildingBlock(_simulation);
_parameterIdentification = new ModelParameterIdentification();
_snapshotParameterIndentificationConfiguration = new ParameterIdentificationConfiguration();
_snapshotOutputMapping = new Snapshots.OutputMapping();
_outputMapping = new OutputMapping();
_parameterIdentification.AddSimulation(_simulation);
_parameterIdentification.AddOutputMapping(_outputMapping);
_identificationParameter = new IdentificationParameter {
Name = "IP"
};
_parameterIdentification.AddIdentificationParameter(_identificationParameter);
_snapshotIdentificationParameter = new Snapshots.IdentificationParameter();
_snapshotParameterIdentificationAnalysis = new ParameterIdentificationAnalysis();
_parameterIdentificationAnalysis = A.Fake <ISimulationAnalysis>();
_parameterIdentification.AddAnalysis(_parameterIdentificationAnalysis);
sut = new ParameterIdentificationMapper(
_parameterIdentificationConfigurationMapper,
_outputMappingMapper,
_identificationParameterMapper,
_parameterIdentificationAnalysisMapper,
_objectBaseFactory,
_logger
);
A.CallTo(() => _parameterIdentificationConfigurationMapper.MapToSnapshot(_parameterIdentification.Configuration)).Returns(_snapshotParameterIndentificationConfiguration);
A.CallTo(() => _outputMappingMapper.MapToSnapshot(_outputMapping)).Returns(_snapshotOutputMapping);
A.CallTo(() => _identificationParameterMapper.MapToSnapshot(_identificationParameter)).Returns(_snapshotIdentificationParameter);
A.CallTo(() => _parameterIdentificationAnalysisMapper.MapToSnapshot(_parameterIdentificationAnalysis)).Returns(_snapshotParameterIdentificationAnalysis);
return(_completed);
}
protected override void Context()
{
_context = A.Fake <IExecutionContext>();
_oldSimulation = new IndividualSimulation().WithName("Old");
_newSimulation = new IndividualSimulation().WithName("New");
_project = new PKSimProject();
_simulationDifferenceBuilder = A.Fake <ISimulationCommandDescriptionBuilder>();
_simulationReferenceUpdater = A.Fake <ISimulationReferenceUpdater>();
A.CallTo(() => _context.CurrentProject).Returns(_project);
A.CallTo(() => _context.Resolve <ISimulationCommandDescriptionBuilder>()).Returns(_simulationDifferenceBuilder);
A.CallTo(() => _context.Resolve <ISimulationReferenceUpdater>()).Returns(_simulationReferenceUpdater);
var reportPart = new ReportPart();
reportPart.AddToContent("toto");
A.CallTo(() => _simulationDifferenceBuilder.BuildDifferenceBetween(_oldSimulation, _newSimulation)).Returns(reportPart);
sut = new SwapSimulationCommand(_oldSimulation, _newSimulation, _context);
_project.AddBuildingBlock(_oldSimulation);
}
protected override Task Context()
{
_parameterMapper = A.Fake <ParameterMapper>();
_identificationParameterFactory = A.Fake <IIdentificationParameterFactory>();
_logger = A.Fake <IOSPSuiteLogger>();
_identificationParameterTask = A.Fake <IIdentificationParameterTask>();
sut = new IdentificationParameterMapper(_parameterMapper, _identificationParameterFactory, _identificationParameterTask, _logger);
_identificationParameter = new IdentificationParameter
{
IsFixed = true,
UseAsFactor = true,
Scaling = Scalings.Linear
};
_startValueParameter = DomainHelperForSpecs.ConstantParameterWithValue().WithName(Constants.Parameters.START_VALUE);
_identificationParameter.Add(_startValueParameter);
_identificationParameter.Name = "PARAM";
_parameter1 = DomainHelperForSpecs.ConstantParameterWithValue().WithName("P1");
_parameter2 = DomainHelperForSpecs.ConstantParameterWithValue().WithName("P2");
_simulation = A.Fake <Simulation>().WithName("S");
_simulation.Model.Root = new Container {
_parameter1, _parameter2
};
_identificationParameter.Scaling = Scalings.Linear;
_parameterSelection1 = new ParameterSelection(_simulation, _parameter1.Name);
_parameterSelection2 = new ParameterSelection(_simulation, _parameter2.Name);
_identificationParameter.AddLinkedParameter(_parameterSelection1);
_identificationParameter.AddLinkedParameter(_parameterSelection2);
_snapshotStartValueParameter = new Parameter();
A.CallTo(() => _parameterMapper.MapToSnapshot(_startValueParameter)).Returns(_snapshotStartValueParameter);
_project = new PKSimProject();
_project.AddBuildingBlock(_simulation);
_snapshotContext = new SnapshotContext(_project, ProjectVersions.Current);
_parameterIdentification = new ParameterIdentification();
_parameterIdentificationContext = new ParameterIdentificationContext(_parameterIdentification, _snapshotContext);
return(_completed);
}
protected override void Context()
{
_executionContext = A.Fake <IExecutionContext>();
_project = new PKSimProject();
A.CallTo(() => _executionContext.CurrentProject).Returns(_project);
_compound = new Compound().WithId("Tralala").WithName("Tralala");
_project.AddBuildingBlock(_compound);
_proc = new EnzymaticProcess().WithName("ActProc1");
var serializedStream = new byte[1];
A.CallTo(() => _executionContext.Serialize(_proc)).Returns(serializedStream);
A.CallTo(() => _executionContext.Deserialize <CompoundProcess>(serializedStream)).Returns(_proc);
A.CallTo(() => _executionContext.Get <Compound>(_compound.Id)).Returns(_compound);
A.CallTo(() => _executionContext.Get <CompoundProcess>(_proc.Id)).Returns(_proc);
sut = new AddProcessToCompoundCommand(_proc, _compound, _executionContext);
}
public override void GlobalContext()
{
base.GlobalContext();
_sim1 = new IndividualSimulation
{
Id = "Sim1",
Name = "Sim1",
IsLoaded = true,
Model = new Model {
Root = new Container()
}
};
_sim1.Model.Root.Add(new Container {
new Parameter().WithName("P")
}.WithName("Liver"));
var objectBaseRepository = IoC.Resolve <IWithIdRepository>();
var workspace = IoC.Resolve <IWorkspace>();
_project = IoC.Resolve <PKSimProject>();
workspace.Project = _project;
objectBaseRepository.Register(_sim1);
_project.AddBuildingBlock(_sim1);
_sensitivityAnalysis = new SensitivityAnalysis
{
Name = "SA",
Simulation = _sim1
};
_sensitivityParameter1 = DomainHelperForSpecs.SensitivityParameter(range: 0.5d, steps: 5);
_parameterSelection1 = new ParameterSelection(_sim1, new QuantitySelection("Liver|P", QuantityType.Parameter));
_sensitivityParameter1.ParameterSelection = _parameterSelection1;
_sensitivityAnalysis.AddSensitivityParameter(_sensitivityParameter1);
_deserializedSensitivityAnalysis = SerializeAndDeserialize(_sensitivityAnalysis);
}
public override void GlobalContext()
{
base.GlobalContext();
_observedData = DomainHelperForSpecs.ObservedData();
_sim1 = new IndividualSimulation
{
Id = "Sim1",
Name = "Sim1",
IsLoaded = true,
Model = new Model {
Root = new Container()
}
};
_sim1.Model.Root.Add(new Container {
new Parameter().WithName("P")
}.WithName("Liver"));
_sim2 = new IndividualSimulation
{
Id = "Sim2",
Name = "Sim2",
IsLoaded = true,
Model = new Model {
Root = new Container()
}
};
_sim2.Model.Root.Add(new Container {
new Parameter().WithName("P")
}.WithName("Liver"));
_objectBaseRepository = IoC.Resolve <IWithIdRepository>();
var workspace = IoC.Resolve <ICoreWorkspace>();
_project = IoC.Resolve <PKSimProject>();
workspace.Project = _project;
_objectBaseRepository.Register(_sim1);
_objectBaseRepository.Register(_sim2);
_project.AddObservedData(_observedData);
_project.AddBuildingBlock(_sim1);
_project.AddBuildingBlock(_sim2);
_parameterIdentification = new ParameterIdentification();
_parameterIdentification.AddSimulation(_sim1);
_parameterIdentification.AddSimulation(_sim2);
_outputMapping = new OutputMapping
{
WeightedObservedData = new WeightedObservedData(_observedData),
OutputSelection = new SimulationQuantitySelection(_sim1, new QuantitySelection("A|B", QuantityType.Metabolite)),
Weight = 5,
Scaling = Scalings.Log
};
_outputMapping.WeightedObservedData.Weights[1] = 10;
_parameterIdentification.AddOutputMapping(_outputMapping);
_identificationParameter = DomainHelperForSpecs.IdentificationParameter(min: 1, max: 10, startValue: 5);
_parameterSelection1 = new ParameterSelection(_sim1, new QuantitySelection("Liver|P", QuantityType.Parameter));
_parameterSelection2 = new ParameterSelection(_sim2, new QuantitySelection("Liver|P", QuantityType.Parameter));
_identificationParameter.AddLinkedParameter(_parameterSelection1);
_identificationParameter.AddLinkedParameter(_parameterSelection2);
_parameterIdentification.AddIdentificationParameter(_identificationParameter);
_identificationParameter.Scaling = Scalings.Linear;
_parameterIdentification.Configuration.AlgorithmProperties = new OptimizationAlgorithmProperties("AA");
_parameterIdentification.AlgorithmProperties.Add(new ExtendedProperty <double> {
Name = "Toto", Value = 5
});
_runResult = new ParameterIdentificationRunResult();
_parameterIdentification.AddResult(_runResult);
_parameterIdentification.AddAnalysis(new ParameterIdentificationPredictedVsObservedChart());
_parameterIdentification.AddAnalysis(new ParameterIdentificationTimeProfileChart());
_parameterIdentification.AddAnalysis(new ParameterIdentificationResidualHistogram());
_parameterIdentification.AddAnalysis(new ParameterIdentificationResidualVsTimeChart());
GlobalBecause();
}
protected override Task Context()
{
_solverSettingsMapper = A.Fake <SolverSettingsMapper>();
_outputSchemaMapper = A.Fake <OutputSchemaMapper>();
_outputSelectionMapper = A.Fake <OutputSelectionsMapper>();
_parameterMapper = A.Fake <ParameterMapper>();
_compoundPropertiesMapper = A.Fake <CompoundPropertiesMapper>();
_advancedParameterMapper = A.Fake <AdvancedParameterMapper>();
_eventMappingMapper = A.Fake <EventMappingMapper>();
_observerSetMappingMapper = A.Fake <ObserverSetMappingMapper>();
_curveChartMapper = A.Fake <SimulationTimeProfileChartMapper>();
_processMappingMapper = A.Fake <ProcessMappingMapper>();
_simulationFactory = A.Fake <ISimulationFactory>();
_executionContext = A.Fake <IExecutionContext>();
_simulationModelCreator = A.Fake <ISimulationModelCreator>();
_simulationBuildingBlockUpdater = A.Fake <ISimulationBuildingBlockUpdater>();
_modelPropertiesTask = A.Fake <IModelPropertiesTask>();
_simulationRunner = A.Fake <ISimulationRunner>();
_populationAnalysisChartMapper = A.Fake <PopulationAnalysisChartMapper>();
_simulationParameterOriginIdUpdater = A.Fake <ISimulationParameterOriginIdUpdater>();
_logger = A.Fake <ILogger>();
_containerTask = A.Fake <IContainerTask>();
_entityPathResolver = A.Fake <IEntityPathResolver>();
sut = new SimulationMapper(_solverSettingsMapper, _outputSchemaMapper,
_outputSelectionMapper, _compoundPropertiesMapper, _parameterMapper,
_advancedParameterMapper, _eventMappingMapper, _observerSetMappingMapper, _curveChartMapper,
_populationAnalysisChartMapper, _processMappingMapper,
_simulationFactory, _executionContext, _simulationModelCreator,
_simulationBuildingBlockUpdater, _modelPropertiesTask,
_simulationRunner, _simulationParameterOriginIdUpdater,
_logger, _containerTask, _entityPathResolver
);
_project = new PKSimProject();
_individual = new Individual {
Name = "IND", Id = "IND"
};
_compound = new Compound {
Name = "COMP", Id = "COMP"
};
_observerSet = new ObserverSet {
Name = "OBS_SET", Id = "OBS_SET"
};
_protocol = new SimpleProtocol {
Name = "PROT", Id = "PROT"
};
_inductionProcess = new InductionProcess().WithName("Interaction process");
_compound.AddProcess(_inductionProcess);
_event = new PKSimEvent {
Name = "Event"
};
_population = new RandomPopulation()
{
Name = "POP"
};
_observedData = new DataRepository("OBS_ID").WithName("OBS");
_project.AddBuildingBlock(_individual);
_project.AddBuildingBlock(_compound);
_project.AddBuildingBlock(_event);
_project.AddBuildingBlock(_population);
_project.AddBuildingBlock(_observerSet);
_project.AddObservedData(_observedData);
_simulationProperties = new SimulationProperties
{
ModelProperties = new ModelProperties
{
ModelConfiguration = new ModelConfiguration {
ModelName = "4Comp"
}
}
};
_interactionSelection = new InteractionSelection {
ProcessName = _inductionProcess.Name
};
_noInteractionSelection = new InteractionSelection {
MoleculeName = "CYP2D6"
};
_simulationProperties.InteractionProperties.AddInteraction(_interactionSelection);
_simulationProperties.InteractionProperties.AddInteraction(_noInteractionSelection);
_settings = new SimulationSettings();
_rootContainer = new Container().WithName("Sim");
_model = new OSPSuite.Core.Domain.Model {
Root = _rootContainer
};
_individualSimulation = new IndividualSimulation
{
Name = "S1",
Properties = _simulationProperties,
SimulationSettings = _settings,
Description = "Simulation Description",
Model = _model
};
_simulationTimeProfile = new SimulationTimeProfileChart();
_snapshotSimulationTimeProfile = new CurveChart();
_individualSimulation.AddAnalysis(_simulationTimeProfile);
A.CallTo(() => _curveChartMapper.MapToSnapshot(_simulationTimeProfile)).Returns(_snapshotSimulationTimeProfile);
_populationSimulation = new PopulationSimulation
{
Properties = _simulationProperties,
SimulationSettings = _settings,
Model = _model
};
_advancedParameterCollection = new AdvancedParameterCollection();
_populationSimulationAnalysisChart = new BoxWhiskerAnalysisChart();
_populationSimulation.SetAdvancedParameters(_advancedParameterCollection);
_populationSimulation.AddAnalysis(_populationSimulationAnalysisChart);
_populationSimulation.AddUsedBuildingBlock(new UsedBuildingBlock("IndTemplateId", PKSimBuildingBlockType.Individual)
{
BuildingBlock = _individual
});
_snapshotPopulationAnalysisChart = new Snapshots.PopulationAnalysisChart();
A.CallTo(() => _populationAnalysisChartMapper.MapToSnapshot(_populationSimulationAnalysisChart)).Returns(_snapshotPopulationAnalysisChart);
_snapshotInteraction = new CompoundProcessSelection();
A.CallTo(() => _processMappingMapper.MapToSnapshot(_interactionSelection)).Returns(_snapshotInteraction);
_snapshotInteraction.CompoundName = _compound.Name;
_snapshotInteraction.Name = _inductionProcess.Name;
_noSelectionSnapshotInteraction = new CompoundProcessSelection();
A.CallTo(() => _processMappingMapper.MapToSnapshot(_noInteractionSelection)).Returns(_noSelectionSnapshotInteraction);
_noSelectionSnapshotInteraction.MoleculeName = _noInteractionSelection.MoleculeName;
_compoundProperties = new CompoundProperties();
_snapshotCompoundProperties = new Snapshots.CompoundProperties {
Name = _compound.Name
};
_individualSimulation.Properties.AddCompoundProperties(_compoundProperties);
_eventMapping = new EventMapping();
_individualSimulation.EventProperties.AddEventMapping(_eventMapping);
_observerSetMapping = new ObserverSetMapping();
_individualSimulation.ObserverSetProperties.AddObserverSetMapping(_observerSetMapping);
A.CallTo(() => _compoundPropertiesMapper.MapToSnapshot(_compoundProperties, _project)).Returns(_snapshotCompoundProperties);
_eventSelection = new EventSelection
{
Name = _event.Name,
};
_observerSetSelection = new ObserverSetSelection
{
Name = _observerSet.Name,
};
_individualSimulation.AddUsedBuildingBlock(new UsedBuildingBlock("IndTemplateId", PKSimBuildingBlockType.Individual)
{
BuildingBlock = _individual,
Altered = true
});
_individualSimulation.AddUsedBuildingBlock(new UsedBuildingBlock("CompTemplateId", PKSimBuildingBlockType.Compound)
{
BuildingBlock = _compound
});
_individualSimulation.AddUsedBuildingBlock(new UsedBuildingBlock("ProtTemplateId", PKSimBuildingBlockType.Protocol)
{
BuildingBlock = _protocol
});
_individualSimulation.AddUsedBuildingBlock(new UsedBuildingBlock("ObserveSetTemplateId", PKSimBuildingBlockType.ObserverSet)
{
BuildingBlock = _observerSet
});
_populationSimulation.AddUsedBuildingBlock(new UsedBuildingBlock("PopTemplateId", PKSimBuildingBlockType.Population)
{
BuildingBlock = _population
});
_individualSimulation.AddUsedObservedData(_observedData);
A.CallTo(() => _eventMappingMapper.MapToSnapshot(_eventMapping, _project)).Returns(_eventSelection);
A.CallTo(() => _observerSetMappingMapper.MapToSnapshot(_observerSetMapping, _project)).Returns(_observerSetSelection);
_outputSelectionSnapshot = new OutputSelections();
A.CallTo(() => _outputSelectionMapper.MapToSnapshot(_individualSimulation.OutputSelections)).Returns(_outputSelectionSnapshot);
A.CallTo(() => _processMappingMapper.MapToModel(_snapshotInteraction, _inductionProcess)).Returns(_interactionSelection);
return(_completed);
}
protected override void Context()
{
_view = A.Fake <IBuildingBlockExplorerView>();
A.CallTo(() => _view.TreeView).Returns(A.Fake <IUxTreeView>());
_regionResolver = A.Fake <IRegionResolver>();
_region = A.Fake <IRegion>();
A.CallTo(() => _regionResolver.RegionWithName(RegionNames.BuildingBlockExplorer)).Returns(_region);
_project = new PKSimProject();
var compound = new Compound().WithName("compound");
_individual = new Individual().WithName("individual");
_individual.OriginData = new OriginData {
Species = new Species()
};
_project.AddBuildingBlock(_individual);
_project.AddBuildingBlock(compound);
_observedDataInExplorerPresenter = A.Fake <IObservedDataInExplorerPresenter>();
_buildingBlockIconRetriever = A.Fake <IBuildingBlockIconRetriever>();
_treeNodeFactory = A.Fake <ITreeNodeFactory>();
_contextMenuFactory = A.Fake <ITreeNodeContextMenuFactory>();
_buildingBlockTask = A.Fake <IBuildingBlockTask>();
_toolTipCreator = A.Fake <IToolTipPartCreator>();
_projectRetriever = A.Fake <IProjectRetriever>();
_classificationPresenter = A.Fake <IClassificationPresenter>();
_multipleTreeNodeContextMenuFactory = A.Fake <IMultipleTreeNodeContextMenuFactory>();
sut = new BuildingBlockExplorerPresenter(_view, _treeNodeFactory, _contextMenuFactory, _multipleTreeNodeContextMenuFactory, _buildingBlockIconRetriever, _regionResolver,
_buildingBlockTask, _toolTipCreator, _projectRetriever, _classificationPresenter, _observedDataInExplorerPresenter);
_compoundFolderNode = new RootNode(PKSimRootNodeTypes.CompoundFolder);
_individualFolderNode = new RootNode(PKSimRootNodeTypes.IndividualFolder);
_formulationFolderNode = new RootNode(PKSimRootNodeTypes.FormulationFolder);
_protocolFolderNode = new RootNode(PKSimRootNodeTypes.ProtocolFolder);
_observersFolderNode = new RootNode(PKSimRootNodeTypes.ObserverSetFolder);
_populationFolderNode = new RootNode(PKSimRootNodeTypes.PopulationFolder);
_eventRootNode = new RootNode(PKSimRootNodeTypes.EventFolder);
_simulationNode = new SimulationNode(new ClassifiableSimulation {
Subject = new IndividualSimulation {
Id = "1"
}
});
_compoundNode = new ObjectWithIdAndNameNode <Compound>(compound);
_individualNode = new ObjectWithIdAndNameNode <Individual>(_individual);
_observationRootNode = new RootNode(RootNodeTypes.ObservedDataFolder);
A.CallTo(() => _treeNodeFactory.CreateFor(PKSimRootNodeTypes.CompoundFolder)).Returns(_compoundFolderNode);
A.CallTo(() => _treeNodeFactory.CreateFor(PKSimRootNodeTypes.IndividualFolder)).Returns(_individualFolderNode);
A.CallTo(() => _treeNodeFactory.CreateFor(PKSimRootNodeTypes.ProtocolFolder)).Returns(_protocolFolderNode);
A.CallTo(() => _treeNodeFactory.CreateFor(PKSimRootNodeTypes.ObserverSetFolder)).Returns(_observersFolderNode);
A.CallTo(() => _treeNodeFactory.CreateFor(PKSimRootNodeTypes.FormulationFolder)).Returns(_formulationFolderNode);
A.CallTo(() => _treeNodeFactory.CreateFor(PKSimRootNodeTypes.PopulationFolder)).Returns(_populationFolderNode);
A.CallTo(() => _treeNodeFactory.CreateFor(RootNodeTypes.ObservedDataFolder)).Returns(_observationRootNode);
A.CallTo(() => _treeNodeFactory.CreateFor(PKSimRootNodeTypes.EventFolder)).Returns(_eventRootNode);
A.CallTo(() => _treeNodeFactory.CreateFor(_individual)).Returns(_individualNode);
A.CallTo(() => _treeNodeFactory.CreateFor(compound)).Returns(_compoundNode);
A.CallTo(() => _view.TreeView.NodeById(PKSimRootNodeTypes.CompoundFolder.Id)).Returns(_compoundFolderNode);
A.CallTo(() => _view.TreeView.NodeById(PKSimRootNodeTypes.IndividualFolder.Id)).Returns(_individualFolderNode);
A.CallTo(() => _view.TreeView.NodeById(PKSimRootNodeTypes.ProtocolFolder.Id)).Returns(_protocolFolderNode);
A.CallTo(() => _view.TreeView.NodeById(PKSimRootNodeTypes.ObserverSetFolder.Id)).Returns(_observersFolderNode);
A.CallTo(() => _view.TreeView.NodeById(PKSimRootNodeTypes.FormulationFolder.Id)).Returns(_formulationFolderNode);
A.CallTo(() => _view.TreeView.NodeById(PKSimRootNodeTypes.PopulationFolder.Id)).Returns(_populationFolderNode);
A.CallTo(() => _view.TreeView.NodeById(RootNodeTypes.ObservedDataFolder.Id)).Returns(_observationRootNode);
A.CallTo(() => _view.TreeView.NodeById(PKSimRootNodeTypes.EventFolder.Id)).Returns(_eventRootNode);
A.CallTo(() => _view.AddNode(A <ITreeNode> ._)).ReturnsLazily(s => s.Arguments[0].DowncastTo <ITreeNode>());
}
protected override Task Context()
{
_classificationMapper = A.Fake <ClassificationMapper>();
_snapshotMapper = A.Fake <ISnapshotMapper>();
_executionContext = A.Fake <IExecutionContext>();
_lazyLoadTask = A.Fake <ILazyLoadTask>();
_simulationMapper = A.Fake <SimulationMapper>();
_simulationComparisonMapper = A.Fake <SimulationComparisonMapper>();
_parameterIdentificationMapper = A.Fake <ParameterIdentificationMapper>();
_classificationSnapshotTask = A.Fake <IClassificationSnapshotTask>();
_qualificationPlanMapper = A.Fake <QualificationPlanMapper>();
_creationMetaDataFactory = A.Fake <ICreationMetaDataFactory>();
_logger = A.Fake <ILogger>();
sut = new ProjectMapper(
_simulationMapper,
_simulationComparisonMapper,
_parameterIdentificationMapper,
_qualificationPlanMapper,
_executionContext,
_classificationSnapshotTask,
_lazyLoadTask,
_creationMetaDataFactory,
_logger);
A.CallTo(() => _executionContext.Resolve <ISnapshotMapper>()).Returns(_snapshotMapper);
_individual = new Individual().WithName("IND");
_compound = new Compound().WithName("COMP");
_event = new PKSimEvent().WithName("EVENT");
_formulation = new Formulation().WithName("FORM");
_protocol = new SimpleProtocol().WithName("PROTO");
_population = new RandomPopulation().WithName("POP");
_observedData = new DataRepository().WithName("OD");
_parameterIdentification = new OSPSuite.Core.Domain.ParameterIdentifications.ParameterIdentification().WithName("PI").WithId("PI_ID");
_classifiableObservedData = new ClassifiableObservedData {
Subject = _observedData
};
_classification = new Classification {
ClassificationType = ClassificationType.ObservedData
}.WithName("OD Classification");
_simulationComparison = new IndividualSimulationComparison().WithName("COMP").WithId("SimComp");
_simulation = new IndividualSimulation().WithName("IND_SIM").WithId("IndSim");
_qualificationPlan = new QualificationPlan().WithName("QP").WithId("QP_ID");
_project = new PKSimProject();
_project.AddBuildingBlock(_individual);
_project.AddBuildingBlock(_compound);
_project.AddBuildingBlock(_event);
_project.AddBuildingBlock(_formulation);
_project.AddBuildingBlock(_protocol);
_project.AddBuildingBlock(_population);
_project.AddObservedData(_observedData);
_project.AddBuildingBlock(_simulation);
_project.AddClassifiable(_classifiableObservedData);
_project.AddClassification(_classification);
_project.AddSimulationComparison(_simulationComparison);
_project.AddParameterIdentification(_parameterIdentification);
_project.AddQualificationPlan(_qualificationPlan);
_compoundSnapshot = new Snapshots.Compound();
_individualSnapshot = new Snapshots.Individual();
_eventSnapshot = new Event();
_formulationSnapshot = new Snapshots.Formulation();
_protocolSnapshot = new Snapshots.Protocol();
_populationSnapshot = new Snapshots.Population();
_observedDataSnapshot = new Snapshots.DataRepository();
_parameterIdentificationSnapshot = new ParameterIdentification();
_observedDataClassificationSnapshot = new Snapshots.Classification();
_simulationComparisonSnapshot = new SimulationComparison();
_simulationClassificationSnapshot = new Snapshots.Classification();
_comparisonClassificationSnapshot = new Snapshots.Classification();
_parameterIdentificationClassificationSnapshot = new Snapshots.Classification();
_qualificationPlanClassificationSnapshot = new Snapshots.Classification();
_qualificationPlanSnapshot = new Snapshots.QualificationPlan();
_simulationSnapshot = new Simulation();
A.CallTo(() => _snapshotMapper.MapToSnapshot(_compound)).Returns(_compoundSnapshot);
A.CallTo(() => _snapshotMapper.MapToSnapshot(_individual)).Returns(_individualSnapshot);
A.CallTo(() => _snapshotMapper.MapToSnapshot(_event)).Returns(_eventSnapshot);
A.CallTo(() => _snapshotMapper.MapToSnapshot(_formulation)).Returns(_formulationSnapshot);
A.CallTo(() => _snapshotMapper.MapToSnapshot(_protocol)).Returns(_protocolSnapshot);
A.CallTo(() => _snapshotMapper.MapToSnapshot(_population)).Returns(_populationSnapshot);
A.CallTo(() => _snapshotMapper.MapToSnapshot(_observedData)).Returns(_observedDataSnapshot);
A.CallTo(() => _simulationMapper.MapToSnapshot(_simulation, _project)).Returns(_simulationSnapshot);
A.CallTo(() => _simulationComparisonMapper.MapToSnapshot(_simulationComparison)).Returns(_simulationComparisonSnapshot);
A.CallTo(() => _parameterIdentificationMapper.MapToSnapshot(_parameterIdentification, _project)).Returns(_parameterIdentificationSnapshot);
A.CallTo(() => _qualificationPlanMapper.MapToSnapshot(_qualificationPlan)).Returns(_qualificationPlanSnapshot);
A.CallTo(() => _classificationSnapshotTask.MapClassificationsToSnapshots <ClassifiableObservedData>(_project)).Returns(new[] { _observedDataClassificationSnapshot });
A.CallTo(() => _classificationSnapshotTask.MapClassificationsToSnapshots <ClassifiableSimulation>(_project)).Returns(new[] { _simulationClassificationSnapshot });
A.CallTo(() => _classificationSnapshotTask.MapClassificationsToSnapshots <ClassifiableComparison>(_project)).Returns(new[] { _comparisonClassificationSnapshot });
A.CallTo(() => _classificationSnapshotTask.MapClassificationsToSnapshots <ClassifiableParameterIdentification>(_project)).Returns(new[] { _parameterIdentificationClassificationSnapshot });
A.CallTo(() => _classificationSnapshotTask.MapClassificationsToSnapshots <ClassifiableQualificationPlan>(_project)).Returns(new[] { _qualificationPlanClassificationSnapshot });
return(_completed);
}
protected override Task Context()
{
_calculationMethodCacheMapper = A.Fake <CalculationMethodCacheMapper>();
_processMappingMapper = A.Fake <ProcessMappingMapper>();
_logger = A.Fake <ILogger>();
_project = new PKSimProject();
_calculationMethodSnapshot = new CalculationMethodCache();
sut = new CompoundPropertiesMapper(_calculationMethodCacheMapper, _processMappingMapper, _logger);
_compoundGroupSelectionOneAlternative = new CompoundGroupSelection
{
AlternativeName = "ALT1",
GroupName = "ALTERNATIVE_GROUP_1"
};
_compoundGroupSelectionTwoAlternatives = new CompoundGroupSelection
{
AlternativeName = "ALT2",
GroupName = "ALTERNATIVE_GROUP_2"
};
_compound = new Compound
{
Name = "COMP",
};
_protocol = new SimpleProtocol
{
Name = "PROTOCOL"
};
_parameterAlternativeGroupWithOneAlternative = new ParameterAlternativeGroup {
Name = _compoundGroupSelectionOneAlternative.GroupName
};
_parameterAlternativeGroupWithTwoAlternatives = new ParameterAlternativeGroup {
Name = _compoundGroupSelectionTwoAlternatives.GroupName
};
_parameterAlternativeGroupWithTwoAlternatives.AddAlternative(new ParameterAlternative {
Name = "ALT1"
});
_parameterAlternativeGroupWithTwoAlternatives.AddAlternative(new ParameterAlternative {
Name = "ALT2"
});
_compound.AddParameterAlternativeGroup(_parameterAlternativeGroupWithOneAlternative);
_compound.AddParameterAlternativeGroup(_parameterAlternativeGroupWithTwoAlternatives);
_compoundProperties = new Model.CompoundProperties();
_compoundProperties.AddCompoundGroupSelection(_compoundGroupSelectionOneAlternative);
_compoundProperties.AddCompoundGroupSelection(_compoundGroupSelectionTwoAlternatives);
_compoundProperties.Compound = _compound;
_enzymaticProcess = new EnzymaticProcess {
Name = "EnzymaticProcess"
};
_anotherEnzymaticProcess = new EnzymaticProcess {
Name = "AnotherEnzymaticProcess", MoleculeName = "CYP3A4"
};
_specificBindingProcess = new SpecificBindingPartialProcess {
Name = "SpecificBinding"
};
_gfrTransportProcess = new SystemicProcess {
Name = "Transport", SystemicProcessType = SystemicProcessTypes.GFR
};
_hepaticEnzymaticProcess = new SystemicProcess {
Name = "Plasma Clearance", SystemicProcessType = SystemicProcessTypes.Hepatic
};
_compound.AddProcess(_enzymaticProcess);
_compound.AddProcess(_specificBindingProcess);
_compound.AddProcess(_gfrTransportProcess);
_compound.AddProcess(_hepaticEnzymaticProcess);
_enzymaticPartialProcessSelection = new EnzymaticProcessSelection {
ProcessName = _enzymaticProcess.Name
};
_noEnzymaticSystemicProcessSelection = new SystemicProcessSelection {
ProcessType = SystemicProcessTypes.Hepatic
};
_specificBindingPartialProcessSelection = new ProcessSelection {
ProcessName = _specificBindingProcess.Name
};
_transportSystemicProcessSelection = new SystemicProcessSelection {
ProcessName = _gfrTransportProcess.Name, ProcessType = _gfrTransportProcess.SystemicProcessType,
};
_noEnzymaticPartialProcessSelection = new EnzymaticProcessSelection {
MoleculeName = _anotherEnzymaticProcess.MoleculeName
};
_compoundProperties.Processes.MetabolizationSelection.AddPartialProcessSelection(_enzymaticPartialProcessSelection);
_compoundProperties.Processes.MetabolizationSelection.AddPartialProcessSelection(_noEnzymaticPartialProcessSelection);
_compoundProperties.Processes.MetabolizationSelection.AddSystemicProcessSelection(_noEnzymaticSystemicProcessSelection);
_compoundProperties.Processes.SpecificBindingSelection.AddPartialProcessSelection(_specificBindingPartialProcessSelection);
_compoundProperties.Processes.TransportAndExcretionSelection.AddSystemicProcessSelection(_transportSystemicProcessSelection);
_snapshotProcess1 = new CompoundProcessSelection {
Name = _enzymaticPartialProcessSelection.ProcessName
};
_snapshotProcess2 = new CompoundProcessSelection {
Name = _specificBindingPartialProcessSelection.ProcessName
};
_snapshotProcess3 = new CompoundProcessSelection {
Name = _transportSystemicProcessSelection.ProcessName
};
_snapshotProcess4 = new CompoundProcessSelection {
SystemicProcessType = _noEnzymaticSystemicProcessSelection.ProcessType.SystemicProcessTypeId.ToString()
};
_snapshotProcess5 = new CompoundProcessSelection {
MoleculeName = _noEnzymaticPartialProcessSelection.MoleculeName
};
_formulation = new Formulation
{
Id = "123456"
};
_compoundProperties.ProtocolProperties.Protocol = _protocol;
_compoundProperties.ProtocolProperties.AddFormulationMapping(new FormulationMapping
{
FormulationKey = "F1",
TemplateFormulationId = _formulation.Id
});
_project.AddBuildingBlock(_formulation);
A.CallTo(() => _calculationMethodCacheMapper.MapToSnapshot(_compoundProperties.CalculationMethodCache)).Returns(_calculationMethodSnapshot);
A.CallTo(() => _processMappingMapper.MapToSnapshot(_enzymaticPartialProcessSelection)).Returns(_snapshotProcess1);
A.CallTo(() => _processMappingMapper.MapToSnapshot(_specificBindingPartialProcessSelection)).Returns(_snapshotProcess2);
A.CallTo(() => _processMappingMapper.MapToSnapshot(_transportSystemicProcessSelection)).Returns(_snapshotProcess3);
A.CallTo(() => _processMappingMapper.MapToSnapshot(_noEnzymaticSystemicProcessSelection)).Returns(_snapshotProcess4);
A.CallTo(() => _processMappingMapper.MapToSnapshot(_noEnzymaticPartialProcessSelection)).Returns(_snapshotProcess5);
A.CallTo(() => _processMappingMapper.MapToModel(_snapshotProcess1, _enzymaticProcess)).Returns(_enzymaticPartialProcessSelection);
A.CallTo(() => _processMappingMapper.MapToModel(_snapshotProcess2, _specificBindingProcess)).Returns(_specificBindingPartialProcessSelection);
A.CallTo(() => _processMappingMapper.MapToModel(_snapshotProcess3, _gfrTransportProcess)).Returns(_transportSystemicProcessSelection);
A.CallTo(() => _processMappingMapper.MapToModel(_snapshotProcess4, A <NotSelectedSystemicProcess> ._)).Returns(_noEnzymaticSystemicProcessSelection);
A.CallTo(() => _processMappingMapper.MapToModel(_snapshotProcess5, A <EnzymaticProcess> ._)).Returns(_noEnzymaticPartialProcessSelection);
return(_completed);
}
protected override void Context()
{
_buildingBlockIconRetriever = A.Fake <IBuildingBlockIconRetriever>();
_view = A.Fake <ISimulationExplorerView>();
A.CallTo(() => _view.TreeView).Returns(A.Fake <IUxTreeView>());
_treeNodeFactory = A.Fake <ITreeNodeFactory>();
_contextMenuFactory = A.Fake <ITreeNodeContextMenuFactory>();
_regionResolver = A.Fake <IRegionResolver>();
_buildingBlockInSimulationManager = A.Fake <IBuildingBlockInSimulationManager>();
_buildingBlockTask = A.Fake <IBuildingBlockTask>();
_toolTipNodeCreator = A.Fake <IToolTipPartCreator>();
_projectRetriever = A.Fake <IProjectRetriever>();
_multipleTreeNodeContextMenuFactory = A.Fake <IMultipleTreeNodeContextMenuFactory>();
_parameterAnalysablesInExplorerPresenter = A.Fake <IParameterAnalysablesInExplorerPresenter>();
_simulationComparisonTask = A.Fake <ISimulationComparisonTask>();
_simulationFolderNode = new RootNode(RootNodeTypes.SimulationFolder);
_comparisonFolderNode = new RootNode(RootNodeTypes.ComparisonFolder);
_project = new PKSimProject();
_usedObservedData = new UsedObservedData {
Id = "UsedData"
};
_simulation = new IndividualSimulation().WithName("individualSimulation").WithId("individualSimulation");
_populationSimulation = new PopulationSimulation().WithName("populationSimulation").WithId("populationSimulation");
_importedSimulaton = A.Fake <Simulation>().WithName("ImportedSimulation").WithId("ImportedSimulation");
A.CallTo(() => _importedSimulaton.IsImported).Returns(true);
_simulation.Properties = new SimulationProperties();
_simulation.ModelProperties = new ModelProperties();
_simulation.ModelConfiguration = A.Fake <ModelConfiguration>();
_populationSimulation.Properties = new SimulationProperties();
_populationSimulation.ModelProperties = new ModelProperties();
_populationSimulation.ModelConfiguration = A.Fake <ModelConfiguration>();
_classificationPresenter = A.Fake <IClassificationPresenter>();
_project.AddBuildingBlock(_simulation);
_project.AddBuildingBlock(_populationSimulation);
var classifiableIndividualSimulation = new ClassifiableSimulation {
Subject = _simulation
};
var classfiablePopulationSimulation = new ClassifiableSimulation {
Subject = _populationSimulation
};
var classifiableImportSimulation = new ClassifiableSimulation {
Subject = _importedSimulaton
};
_project.AddClassifiable(classifiableIndividualSimulation);
_project.AddClassifiable(classfiablePopulationSimulation);
_individualSimulationNode = new SimulationNode(classifiableIndividualSimulation);
_populationSimulationNode = new SimulationNode(classfiablePopulationSimulation);
_importedSimulationNode = new SimulationNode(classifiableImportSimulation);
_usedObservedDataNode = A.Fake <ITreeNode>();
A.CallTo(() => _treeNodeFactory.CreateFor(classifiableIndividualSimulation)).Returns(_individualSimulationNode);
A.CallTo(() => _treeNodeFactory.CreateFor(classfiablePopulationSimulation)).Returns(_populationSimulationNode);
A.CallTo(() => _treeNodeFactory.CreateFor(classifiableImportSimulation)).Returns(_importedSimulationNode);
A.CallTo(() => _treeNodeFactory.CreateFor(_usedObservedData)).Returns(_usedObservedDataNode);
_project.AddBuildingBlock(_importedSimulaton);
var simulationComparison = A.Fake <ISimulationComparison>().WithId("SimComp_Id");
var classifiableComparison = new ClassifiableComparison {
Subject = simulationComparison
};
_comparisonNode = new ComparisonNode(classifiableComparison);
_project.AddSimulationComparison(simulationComparison);
A.CallTo(() => _treeNodeFactory.CreateFor(classifiableComparison)).Returns(_comparisonNode);
_usedCompoundBuildingBlock = new UsedBuildingBlock("toto", PKSimBuildingBlockType.Compound)
{
Id = "usedBB"
};
_simulation.AddUsedBuildingBlock(_usedCompoundBuildingBlock);
_simulation.AddUsedObservedData(_usedObservedData);
_project.AddClassifiable(classifiableComparison);
_templageCompoundBuildingBlock = A.Fake <IPKSimBuildingBlock>();
_usedBuildingBlockNode = new UsedBuildingBlockInSimulationNode(_simulation, _usedCompoundBuildingBlock, _templageCompoundBuildingBlock);
A.CallTo(() => _treeNodeFactory.CreateFor(_simulation, _usedCompoundBuildingBlock)).Returns(_usedBuildingBlockNode);
A.CallTo(() => _buildingBlockIconRetriever.IconFor(_simulation)).Returns(ApplicationIcons.SimulationGreen);
A.CallTo(() => _buildingBlockIconRetriever.IconFor(_populationSimulation)).Returns(ApplicationIcons.SimulationGreen);
A.CallTo(() => _buildingBlockIconRetriever.IconFor(_usedCompoundBuildingBlock)).Returns(ApplicationIcons.CompoundRed);
A.CallTo(() => _view.TreeView.NodeById(_simulation.Id)).Returns(_individualSimulationNode);
A.CallTo(() => _view.TreeView.NodeById(_usedCompoundBuildingBlock.Id)).Returns(_usedBuildingBlockNode);
A.CallTo(() => _view.TreeView.NodeById(RootNodeTypes.SimulationFolder.Id)).Returns(_simulationFolderNode);
A.CallTo(() => _view.TreeView.NodeById(RootNodeTypes.ComparisonFolder.Id)).Returns(_comparisonFolderNode);
_observedDataInSimulationManager = A.Fake <IObservedDataInSimulationManager>();
sut = new SimulationExplorerPresenter(
_view, _treeNodeFactory, _contextMenuFactory,
_multipleTreeNodeContextMenuFactory, _buildingBlockIconRetriever,
_regionResolver, _buildingBlockTask, _buildingBlockInSimulationManager,
_toolTipNodeCreator, _projectRetriever, _classificationPresenter,
_parameterAnalysablesInExplorerPresenter, _observedDataInSimulationManager, _simulationComparisonTask);
A.CallTo(() => _projectRetriever.CurrentProject).Returns(_project);
}
public void should_add_the_new_simulation_to_the_project()
{
A.CallTo(() => _project.AddBuildingBlock(_newSimulation)).MustHaveHappened();
}