protected override void Context()
{
_view = A.Fake <IMoleculesView>();
A.CallTo(() => _view.TreeView).Returns(A.Fake <IUxTreeView>());
_moleculeExpressionTask = A.Fake <IMoleculeExpressionTask <Individual> >();
_treeNodeFactory = A.Fake <ITreeNodeFactory>();
_contextMenyFactory = A.Fake <ITreeNodeContextMenuFactory>();
_dialogCreator = A.Fake <IDialogCreator>();
_entityTask = A.Fake <IEntityTask>();
_commandRegister = A.Fake <ICommandCollector>();
_expressionsPresenterMapper = A.Fake <IRootNodeToIndividualExpressionsPresenterMapper <Individual> >();
_noitemInSelectionPresenter = A.Fake <INoItemInSelectionPresenter>();
_enzymeList = new List <IndividualEnzyme>();
_moleculeList = new List <IndividualMolecule>();
_otherProteinList = new List <IndividualOtherProtein>();
_transporterList = new List <IndividualTransporter>();
_individual = A.Fake <Individual>();
_enzymeFolderNode = new RootNode(PKSimRootNodeTypes.IndividualMetabolizingEnzymes);
_otherProteinsFolderNode = new RootNode(PKSimRootNodeTypes.IndividualProteinBindingPartners);
_transporterFolderNode = new RootNode(PKSimRootNodeTypes.IndividualTransportProteins);
A.CallTo(() => _individual.AllMolecules <IndividualEnzyme>()).Returns(_enzymeList);
A.CallTo(() => _individual.AllMolecules <IndividualOtherProtein>()).Returns(_otherProteinList);
A.CallTo(() => _individual.AllMolecules <IndividualTransporter>()).Returns(_transporterList);
A.CallTo(() => _individual.AllMolecules()).Returns(_moleculeList);
A.CallTo(() => _treeNodeFactory.CreateFor(PKSimRootNodeTypes.IndividualMetabolizingEnzymes)).Returns(_enzymeFolderNode);
A.CallTo(() => _treeNodeFactory.CreateFor(PKSimRootNodeTypes.IndividualProteinBindingPartners)).Returns(_otherProteinsFolderNode);
A.CallTo(() => _treeNodeFactory.CreateFor(PKSimRootNodeTypes.IndividualTransportProteins)).Returns(_transporterFolderNode);
A.CallTo(() => _view.TreeView.NodeById(PKSimRootNodeTypes.IndividualMetabolizingEnzymes.Id)).Returns(_enzymeFolderNode);
A.CallTo(() => _view.TreeView.NodeById(PKSimRootNodeTypes.IndividualProteinBindingPartners.Id)).Returns(_otherProteinsFolderNode);
A.CallTo(() => _view.TreeView.NodeById(PKSimRootNodeTypes.IndividualTransportProteins.Id)).Returns(_transporterFolderNode);
sut = new IndividualMoleculesPresenter(_view, _moleculeExpressionTask, _treeNodeFactory, _contextMenyFactory, _dialogCreator, _entityTask, _expressionsPresenterMapper, _noitemInSelectionPresenter);
sut.InitializeWith(_commandRegister);
}
public EditMoleculeTask(
IMoleculeExpressionTask <TSimulationSubject> moleculeExpressionTask,
IApplicationController applicationController)
{
_moleculeExpressionTask = moleculeExpressionTask;
_applicationController = applicationController;
}
protected override void Context()
{
_view = A.Fake <ISimulationExpressionsView>();
_simulationExpressionsDTOMapper = A.Fake <IExpressionParametersToSimulationExpressionsDTOMapper>();
_editParameterPresenterTask = A.Fake <IEditParameterPresenterTask>();
_moleculeExpressionTask = A.Fake <IMoleculeExpressionTask <Individual> >();
_entityPathResolver = A.Fake <IEntityPathResolver>();
_parameterTask = A.Fake <IParameterTask>();
_moleculeParametersPresenter = A.Fake <IMultiParameterEditPresenter>();
_commandCollector = A.Fake <ICommandCollector>();
sut = new SimulationExpressionsPresenter(_view, _simulationExpressionsDTOMapper, _editParameterPresenterTask, _moleculeExpressionTask, _entityPathResolver, _parameterTask, _moleculeParametersPresenter);
sut.InitializeWith(_commandCollector);
_simulationExpressionDTO = new SimulationExpressionsDTO(new ParameterDTO(_propertyParameter), new ParameterDTO(_propertyParameter), new ParameterDTO(_propertyParameter),
new List <ExpressionContainerDTO>());
_propertyParameter = DomainHelperForSpecs.ConstantParameterWithValue().WithName("PROP");
_relativeExpressionParameter = DomainHelperForSpecs.ConstantParameterWithValue().WithName("REL_EXP");
_allParameters = new List <IParameter> {
_propertyParameter, _relativeExpressionParameter
};
_pathCache = new PathCacheForSpecs <IParameter>();
A.CallTo(() => _parameterTask.PathCacheFor(A <IEnumerable <IParameter> > .That.Matches(x => x.ContainsAll(_allParameters)))).Returns(_pathCache);
A.CallTo(() => _simulationExpressionsDTOMapper.MapFrom(A <IEnumerable <IParameter> > .That.Matches(x => x.ContainsAll(_allParameters)))).Returns(_simulationExpressionDTO);
}
protected override void Context()
{
_moleculeExpressionTask = A.Fake <IMoleculeExpressionTask <Individual> >();
_querySettingsMapper = A.Fake <IMoleculeToQueryExpressionSettingsMapper>();
_geneExpressionsDatabasePathManager = A.Fake <IGeneExpressionsDatabasePathManager>();
_applicationController = A.Fake <IApplicationController>();
sut = new EditMoleculeTask <Individual>(_moleculeExpressionTask, _applicationController);
_expressionProfileSelectionPresenter = A.Fake <IExpressionProfileSelectionPresenter>();
A.CallTo(() => _applicationController.Start <IExpressionProfileSelectionPresenter>()).Returns(_expressionProfileSelectionPresenter);
_moleculeContainer1 = new MoleculeExpressionContainer().WithName("C1");
_moleculeContainer1.Add(DomainHelperForSpecs.ConstantParameterWithValue(5).WithName(CoreConstants.Parameters.REL_EXP));
_moleculeContainer2 = new MoleculeExpressionContainer().WithName("C2");
_moleculeContainer2.Add(DomainHelperForSpecs.ConstantParameterWithValue(5).WithName(CoreConstants.Parameters.REL_EXP));
_individual = new Individual {
OriginData = new OriginData {
Species = new Species {
Name = "Human", DisplayName = "Human"
}
}
};
_molecule = new IndividualEnzyme {
Name = "CYP3A4"
};
_molecule.Add(_moleculeContainer1);
_molecule.Add(_moleculeContainer2);
}
public SimulationExpressionsPresenter(ISimulationExpressionsView view, IExpressionParametersToSimulationExpressionsDTOMapper mapper,
IEditParameterPresenterTask editParameterPresenterTask, IMoleculeExpressionTask <Individual> moleculeExpressionTask, IEntityPathResolver entityPathResolver, IParameterTask parameterTask)
: base(view, editParameterPresenterTask)
{
_mapper = mapper;
_moleculeExpressionTask = moleculeExpressionTask;
_parameterTask = parameterTask;
_pathCache = new PathCache <IParameter>(entityPathResolver);
}
public ExpressionLocalizationPresenter(
IExpressionLocalizationView view,
IMoleculeExpressionTask <TSimulationSubject> moleculeExpressionTask,
IDialogCreator dialogCreator) :
base(view)
{
_moleculeExpressionTask = moleculeExpressionTask;
_dialogCreator = dialogCreator;
}
protected override void Context()
{
_view = A.Fake <IIndividualTransporterExpressionsView>();
_parameterTask = A.Fake <IEditParameterPresenterTask>();
_moleculeTask = A.Fake <IMoleculeExpressionTask <Individual> >();
_transporterMapper = A.Fake <IIndividualTransporterToTransporterExpressionDTOMapper>();
_transportRepository = A.Fake <ITransporterContainerTemplateRepository>();
_moleculePropertiesPresenter = A.Fake <IIndividualMoleculePropertiesPresenter <Individual> >();
sut = new IndividualTransporterExpressionsPresenter <Individual>(_view, _parameterTask, _moleculeTask, _transporterMapper, _transportRepository, _moleculePropertiesPresenter);
}
public ExpressionProfileProteinDatabaseTask(
IGeneExpressionsDatabasePathManager geneExpressionsDatabasePathManager,
IApplicationController applicationController,
IMoleculeToQueryExpressionSettingsMapper queryExpressionSettingsMapper,
IMoleculeExpressionTask <Individual> moleculeExpressionTask)
{
_geneExpressionsDatabasePathManager = geneExpressionsDatabasePathManager;
_applicationController = applicationController;
_queryExpressionSettingsMapper = queryExpressionSettingsMapper;
_moleculeExpressionTask = moleculeExpressionTask;
}
protected override void Context()
{
_sourceIndividual = DomainHelperForSpecs.CreateIndividual();
_targetIndividual = DomainHelperForSpecs.CreateIndividual();
_expressionProfile1 = new ExpressionProfile();
_targetIndividualOtherSpecies = DomainHelperForSpecs.CreateIndividual(speciesName: "OTHER_SPECIES");
_moleculeExpressionTask = A.Fake <IMoleculeExpressionTask <Individual> >();
_dialogCreator = A.Fake <IDialogCreator>();
sut = new IndividualExpressionsUpdater(_moleculeExpressionTask, _dialogCreator);
_sourceIndividual.AddExpressionProfile(_expressionProfile1);
}
public IndividualTransporterExpressionsPresenter(IIndividualTransporterExpressionsView view, IEditParameterPresenterTask parameterTask, IMoleculeExpressionTask <TSimulationSubject> moleculeExpressionTask,
IIndividualTransporterToTransporterExpressionDTOMapper transporterExpressionDTOMapper,
ITransporterContainerTemplateRepository transporterContainerTemplateRepository, IIndividualMoleculePropertiesPresenter <TSimulationSubject> moleculePropertiesPresenter)
: base(view, parameterTask)
{
_moleculeExpressionTask = moleculeExpressionTask;
_transporterExpressionDTOMapper = transporterExpressionDTOMapper;
_moleculePropertiesPresenter = moleculePropertiesPresenter;
_transporterContainerTemplateRepository = transporterContainerTemplateRepository;
AddSubPresenters(_moleculePropertiesPresenter);
view.AddMoleculePropertiesView(_moleculePropertiesPresenter.View);
}
protected IndividualProteinExpressionsPresenter(IIndividualProteinExpressionsView view, IEditParameterPresenterTask parameterTask,
IMoleculeExpressionTask <TSimulationSubject> moleculeExpressionTask, IIndividualProteinToProteinExpressionDTOMapper proteinExpressionDTOMapper,
IRepresentationInfoRepository representationInfoRepository, IIndividualMoleculePropertiesPresenter <TSimulationSubject> moleculePropertiesPresenter)
: base(view, parameterTask)
{
_moleculeExpressionTask = moleculeExpressionTask;
_proteinExpressionDTOMapper = proteinExpressionDTOMapper;
_representationInfoRepository = representationInfoRepository;
_moleculePropertiesPresenter = moleculePropertiesPresenter;
AddSubPresenters(_moleculePropertiesPresenter);
_updateViewHandler = o => updateView();
view.AddMoleculePropertiesView(_moleculePropertiesPresenter.View);
}
public IndividualMapper(
ParameterMapper parameterMapper,
ExpressionProfileMapper expressionProfileMapper,
OriginDataMapper originDataMapper,
IIndividualFactory individualFactory,
IMoleculeExpressionTask <ModelIndividual> moleculeExpressionTask
)
{
_parameterMapper = parameterMapper;
_expressionProfileMapper = expressionProfileMapper;
_individualFactory = individualFactory;
_moleculeExpressionTask = moleculeExpressionTask;
_originDataMapper = originDataMapper;
}
protected override void Context()
{
_geneExpressionDatabasePathManager = A.Fake <IGeneExpressionsDatabasePathManager>();
_applicationController = A.Fake <IApplicationController>();
_querySettingsMapper = A.Fake <IMoleculeToQueryExpressionSettingsMapper>();
_moleculeExpressionTask = A.Fake <IMoleculeExpressionTask <Individual> >();
sut = new ExpressionProfileProteinDatabaseTask(_geneExpressionDatabasePathManager, _applicationController, _querySettingsMapper, _moleculeExpressionTask);
_proteinExpressionPresenter = A.Fake <IProteinExpressionsPresenter>();
A.CallTo(() => _applicationController.Start <IProteinExpressionsPresenter>()).Returns(_proteinExpressionPresenter);
}
public Converter9To10(
IIndividualMoleculeFactoryResolver individualMoleculeFactoryResolver,
IDefaultIndividualRetriever defaultIndividualRetriever,
IMoleculeExpressionTask <Individual> moleculeExpressionTask,
ICloner cloner,
Converter90To100 coreConverter90To100
)
{
_individualMoleculeFactoryResolver = individualMoleculeFactoryResolver;
_defaultIndividualRetriever = defaultIndividualRetriever;
_moleculeExpressionTask = moleculeExpressionTask;
_cloner = cloner;
_coreConverter90To100 = coreConverter90To100;
}
protected override Task Context()
{
_parameterMapper = A.Fake <ParameterMapper>();
_expressionProfileMapper = A.Fake <ExpressionProfileMapper>();
_dimensionRepository = A.Fake <IDimensionRepository>();
_individualFactory = A.Fake <IIndividualFactory>();
_originDataMapper = A.Fake <OriginDataMapper>();
_moleculeExpressionTask = A.Fake <IMoleculeExpressionTask <ModelIndividual> >();
sut = new IndividualMapper(_parameterMapper, _expressionProfileMapper, _originDataMapper, _individualFactory, _moleculeExpressionTask);
_individual = DomainHelperForSpecs.CreateIndividual();
_individual.Name = "Ind";
_individual.Description = "Model Description";
var kidney = _individual.EntityAt <IContainer>(Constants.ORGANISM, CoreConstants.Organ.KIDNEY);
_parameterLiver = _individual.EntityAt <IParameter>(Constants.ORGANISM, CoreConstants.Organ.LIVER, "PLiver");
_parameterKidney = _individual.EntityAt <IParameter>(Constants.ORGANISM, CoreConstants.Organ.KIDNEY, "PKidney");
_parameterKidneyRelExp = DomainHelperForSpecs.ConstantParameterWithValue().WithName(CoreConstants.Parameters.REL_EXP);
_parameterKidneyRelExp.DefaultValue = 10;
kidney.Add(_parameterKidneyRelExp);
_parameterLiver.ValueDiffersFromDefault().ShouldBeFalse();
_parameterKidney.ValueDiffersFromDefault().ShouldBeFalse();
_parameterKidney.Value = 40;
_parameterKidney.ValueDiffersFromDefault().ShouldBeTrue();
_parameterKidneyRelExp.Value = 50;
_parameterKidneyRelExp.ValueDiffersFromDefault().ShouldBeTrue();
_expressionProfile1 = DomainHelperForSpecs.CreateExpressionProfile <IndividualEnzyme>(moleculeName: "Enz");
_expressionProfile2 = DomainHelperForSpecs.CreateExpressionProfile <IndividualTransporter>(moleculeName: "Trans");
_individual.AddExpressionProfile(_expressionProfile1);
_individual.AddExpressionProfile(_expressionProfile2);
_originDataSnapshot = new OriginData();
A.CallTo(() => _originDataMapper.MapToSnapshot(_individual.OriginData)).Returns(_originDataSnapshot);
_localizedParameterKidney = new LocalizedParameter {
Path = "Organism|Kidney|PKidney"
};
A.CallTo(() => _parameterMapper.LocalizedParametersFrom(A <IEnumerable <IParameter> > ._))
.Invokes(x => _mappedParameters = x.GetArgument <IEnumerable <IParameter> >(0).ToList())
.Returns(new[] { _localizedParameterKidney });
return(_completed);
}
protected override void Context()
{
_view = A.Fake <IExpressionLocalizationView>();
_moleculeExpressionTask = A.Fake <IMoleculeExpressionTask <Individual> >();
_dialogCreator = A.Fake <IDialogCreator>();
sut = new ExpressionLocalizationPresenter <Individual>(_view, _moleculeExpressionTask, _dialogCreator);
_commandCollector = new PKSimMacroCommand();
sut.InitializeWith(_commandCollector);
_molecule = new IndividualEnzyme();
_individual = new Individual();
sut.Edit(_molecule, _individual);
sut.LocalizationChanged += (o, e) => _notified = true;
_command = A.Fake <IPKSimCommand>();
A.CallTo(_moleculeExpressionTask).WithReturnType <ICommand>().Returns(_command);
}
public override void GlobalContext()
{
base.GlobalContext();
_individual = DomainFactoryForSpecs.CreateStandardIndividual();
_moleculeExpressionTask = IoC.Resolve <IMoleculeExpressionTask <Individual> >();
_ontogenyRepository = IoC.Resolve <IOntogenyRepository>();
_expressionProfileForEnzyme = DomainFactoryForSpecs.CreateExpressionProfile <IndividualEnzyme>();
_moleculeExpressionTask.AddExpressionProfile(_individual, _expressionProfileForEnzyme);
_individualEnzyme = _individual.MoleculeByName <IndividualEnzyme>(_expressionProfileForEnzyme.MoleculeName);
_expressionProfileEnzyme = _expressionProfileForEnzyme.Molecule.DowncastTo <IndividualEnzyme>();
_expressionProfileForTransporter = DomainFactoryForSpecs.CreateExpressionProfile <IndividualTransporter>(moleculeName: "TRANS");
_moleculeExpressionTask.AddExpressionProfile(_individual, _expressionProfileForTransporter);
_individualTransporter = _individual.MoleculeByName <IndividualTransporter>(_expressionProfileForTransporter.MoleculeName);
_expressionProfileTransporter = _expressionProfileForTransporter.Molecule.DowncastTo <IndividualTransporter>();
}
public IndividualTransporterExpressionsPresenter(
IIndividualTransporterExpressionsView view,
IEditParameterPresenterTask parameterTask,
IMoleculeExpressionTask <TSimulationSubject> moleculeExpressionTask,
IIndividualTransporterToTransporterExpressionDTOMapper transporterExpressionDTOMapper,
IIndividualMoleculePropertiesPresenter <TSimulationSubject> moleculePropertiesPresenter,
ITransporterExpressionParametersPresenter transporterExpressionParametersPresenter)
: base(view, parameterTask)
{
_moleculeExpressionTask = moleculeExpressionTask;
_transporterExpressionDTOMapper = transporterExpressionDTOMapper;
_moleculePropertiesPresenter = moleculePropertiesPresenter;
_transporterExpressionParametersPresenter = transporterExpressionParametersPresenter;
_transporterExpressionParametersPresenter.SetTransportDirection = SetTransportDirection;
AddSubPresenters(_moleculePropertiesPresenter, _transporterExpressionParametersPresenter);
view.AddMoleculePropertiesView(_moleculePropertiesPresenter.View);
view.AddExpressionParametersView(_transporterExpressionParametersPresenter.View);
}
public ExpressionProfileMapper(
ParameterMapper parameterMapper,
ExpressionContainerMapper expressionContainerMapper,
OntogenyMapper ontogenyMapper,
IOntogenyTask ontogenyTask,
IMoleculeExpressionTask <ModelIndividual> moleculeExpressionTask,
IExpressionProfileFactory expressionProfileFactory,
IMoleculeParameterTask moleculeParameterTask
)
{
_parameterMapper = parameterMapper;
_expressionContainerMapper = expressionContainerMapper;
_ontogenyTask = ontogenyTask;
_moleculeExpressionTask = moleculeExpressionTask;
_expressionProfileFactory = expressionProfileFactory;
_moleculeParameterTask = moleculeParameterTask;
_ontogenyMapper = ontogenyMapper;
}
protected MoleculesPresenter(IMoleculesView view,
IMoleculeExpressionTask <TSimulationSubject> moleculeExpressionTask,
ITreeNodeFactory treeNodeFactory,
ITreeNodeContextMenuFactory contextMenuFactory,
IDialogCreator dialogCreator,
IEntityTask entityTask,
IRootNodeToIndividualExpressionsPresenterMapper <TSimulationSubject> expressionsPresenterMapper,
INoItemInSelectionPresenter noItemInSelectionPresenter)
: base(view)
{
_moleculeExpressionTask = moleculeExpressionTask;
_treeNodeFactory = treeNodeFactory;
_contextMenuFactory = contextMenuFactory;
_dialogCreator = dialogCreator;
_entityTask = entityTask;
_expressionsPresenterMapper = expressionsPresenterMapper;
_noItemInSelectionPresenter = noItemInSelectionPresenter;
_noItemInSelectionPresenter.Description = PKSimConstants.Information.IndividualExpressionInfo;
_expressionsPresenterCache = new Cache <RootNode, IIndividualMoleculeExpressionsPresenter>();
}
public SimulationExpressionsPresenter(
ISimulationExpressionsView view,
IExpressionParametersToSimulationExpressionsDTOMapper simulationExpressionsDTOMapper,
IEditParameterPresenterTask editParameterPresenterTask,
IMoleculeExpressionTask <Individual> moleculeExpressionTask,
IEntityPathResolver entityPathResolver,
IParameterTask parameterTask,
IMultiParameterEditPresenter moleculeParametersPresenter)
: base(view, editParameterPresenterTask)
{
_simulationExpressionsDTOMapper = simulationExpressionsDTOMapper;
_moleculeExpressionTask = moleculeExpressionTask;
_parameterTask = parameterTask;
_pathCache = new PathCache <IParameter>(entityPathResolver);
_moleculeParametersPresenter = moleculeParametersPresenter;
_moleculeParametersPresenter.IsSimpleEditor = true;
AddSubPresenters(moleculeParametersPresenter);
view.AddMoleculeParametersView(_moleculeParametersPresenter.View);
}
protected override void Context()
{
_view = A.Fake <IIndividualTransporterExpressionsView>();
_parameterTask = A.Fake <IEditParameterPresenterTask>();
_moleculeExpressionTask = A.Fake <IMoleculeExpressionTask <Individual> >();
_transporterMapper = A.Fake <IIndividualTransporterToTransporterExpressionDTOMapper>();
_moleculePropertiesPresenter = A.Fake <IIndividualMoleculePropertiesPresenter <Individual> >();
_transporterExpressionParametersPresenter = A.Fake <ITransporterExpressionParametersPresenter>();
sut = new IndividualTransporterExpressionsPresenter <Individual>(
_view, _parameterTask, _moleculeExpressionTask, _transporterMapper, _moleculePropertiesPresenter,
_transporterExpressionParametersPresenter);
_commandCollector = new PKSimMacroCommand();
sut.InitializeWith(_commandCollector);
_transporter = new IndividualTransporter();
_simulationSubject = new Individual();
_transporterDTO = new IndividualTransporterDTO(_transporter);
sut.SimulationSubject = _simulationSubject;
A.CallTo(() => _transporterMapper.MapFrom(_transporter, _simulationSubject)).Returns(_transporterDTO);
}
public IndividualExpressionsUpdater(IMoleculeExpressionTask <Individual> moleculeExpressionTask, IDialogCreator dialogCreator)
{
_moleculeExpressionTask = moleculeExpressionTask;
_dialogCreator = dialogCreator;
}
public IndividualMoleculesPresenter(IMoleculesView view, IMoleculeExpressionTask <Individual> moleculeExpressionTask, ITreeNodeFactory treeNodeFactory,
ITreeNodeContextMenuFactory contextMenuFactory, IDialogCreator dialogCreator, IEntityTask entityTask,
IRootNodeToIndividualExpressionsPresenterMapper <Individual> expressionsPresenterMapper, INoItemInSelectionPresenter noItemInSelectionPresenter)
: base(view, moleculeExpressionTask, treeNodeFactory, contextMenuFactory, dialogCreator, entityTask, expressionsPresenterMapper, noItemInSelectionPresenter)
{
}
public IndividualOtherProteinExpressionsPresenter(IIndividualProteinExpressionsView view, IEditParameterPresenterTask parameterTask, IMoleculeExpressionTask <TSimulationSubject> moleculeExpressionTask, IIndividualProteinToProteinExpressionDTOMapper proteinExpressionDTOMapper,
IRepresentationInfoRepository representationInfoRepository, IIndividualMoleculePropertiesPresenter <TSimulationSubject> moleculePropertiesPresenter)
: base(view, parameterTask, moleculeExpressionTask, proteinExpressionDTOMapper, representationInfoRepository, moleculePropertiesPresenter)
{
}
protected override Task Context()
{
_parameterMapper = A.Fake <ParameterMapper>();
_expressionContainerMapper = A.Fake <ExpressionContainerMapper>();
_expressionProfileFactory = A.Fake <IExpressionProfileFactory>();
_ontogenyMapper = A.Fake <OntogenyMapper>();
_ontogenyTask = A.Fake <IOntogenyTask>();
_moleculeExpressionTask = A.Fake <IMoleculeExpressionTask <Individual> >();
_moleculeParameterTask = A.Fake <IMoleculeParameterTask>();
sut = new ExpressionProfileMapper(
_parameterMapper,
_expressionContainerMapper,
_ontogenyMapper,
_ontogenyTask,
_moleculeExpressionTask,
_expressionProfileFactory,
_moleculeParameterTask);
_ontogeny = new DatabaseOntogeny
{
Name = "Ontogeny"
};
_expressionProfileEnzyme = DomainHelperForSpecs.CreateExpressionProfile <IndividualEnzyme>("Enzyme");
_expressionProfileEnzyme.Molecule.Ontogeny = _ontogeny;
_expressionProfileEnzyme.Description = "Help";
_expressionProfileTransporter = DomainHelperForSpecs.CreateExpressionProfile <IndividualTransporter>("Transporter");
_expressionProfileTransporter.Description = "Help";
_expressionProfileOtherProtein = DomainHelperForSpecs.CreateExpressionProfile <IndividualOtherProtein>("OtherProtein");
_enzymeGlobalParameter = DomainHelperForSpecs.ConstantParameterWithValue(5, isDefault: true)
.WithName(CoreConstants.Parameters.HALF_LIFE_LIVER);
_enzymeGlobalParameterSnapshot = new Parameter();
A.CallTo(() => _parameterMapper.MapToSnapshot(_enzymeGlobalParameter)).Returns(_enzymeGlobalParameterSnapshot);
_expressionContainer1 = new MoleculeExpressionContainer {
Name = "Exp Container1"
};
_expressionContainer2 = new MoleculeExpressionContainer {
Name = "Exp Container2"
};
_expressionProfileEnzyme.Individual.AddChildren(_expressionContainer1, _expressionContainer2, _enzymeGlobalParameter);
_expressionProfileEnzyme.Molecule.DowncastTo <IndividualEnzyme>().Localization = Localization.Intracellular | Localization.BloodCellsMembrane;
_relativeExpressionParameter1 = DomainHelperForSpecs.ConstantParameterWithValue(0.5).WithName(CoreConstants.Parameters.REL_EXP);
_expressionContainer1.Add(_relativeExpressionParameter1);
_relativeExpressionParameterNotSet = DomainHelperForSpecs.ConstantParameterWithValue(0).WithName(CoreConstants.Parameters.REL_EXP);
_expressionContainer2.Add(_relativeExpressionParameterNotSet);
_relativeExpressionContainerSnapshot1 = new ExpressionContainer();
_relativeExpressionContainerSnapshot2 = new ExpressionContainer();
A.CallTo(() => _expressionContainerMapper.MapToSnapshot(_expressionContainer1)).Returns(_relativeExpressionContainerSnapshot1);
A.CallTo(() => _expressionContainerMapper.MapToSnapshot(_expressionContainer2)).Returns(_relativeExpressionContainerSnapshot2);
_snapshotOntogeny = new Snapshots.Ontogeny();
A.CallTo(() => _ontogenyMapper.MapToSnapshot(_ontogeny)).Returns(_snapshotOntogeny);
_individual = new Individual();
return(_completed);
}
