protected override void Context()
{
base.Context();
sut.AxisBy(AxisTypes.Y).Dimension = DomainHelperForSpecs.ConcentrationDimensionForSpecs();
sut.AxisBy(AxisTypes.Y2).Dimension = DomainHelperForSpecs.FractionDimensionForSpecs();
sut.AxisBy(AxisTypes.Y3).Dimension = DomainHelperForSpecs.LengthDimensionForSpecs();
sut.AxisBy(AxisTypes.X).Dimension = sut.AxisBy(AxisTypes.Y3).Dimension;
}
protected override void Context()
{
base.Context();
_mergedDimension = DomainHelperForSpecs.ConcentrationDimensionForSpecs();
_field = A.Fake <PopulationAnalysisNumericField>();
_field.Dimension = DomainHelperForSpecs.FractionDimensionForSpecs();
A.CallTo((_dimensionRepository)).WithReturnType <IDimension>().Returns(_mergedDimension);
}
protected override void Because()
{
sut.SetOptions(new Column
{
Unit = new UnitDescription("min"), Dimension = DomainHelperForSpecs.TimeDimensionForSpecs()
}, new List <IDimension>()
{
DomainHelperForSpecs.ConcentrationDimensionForSpecs(), DomainHelperForSpecs.FractionDimensionForSpecs(),
}, A.Fake <IEnumerable <string> >());
}
protected override void Context()
{
base.Context();
_parameterIdentification = new ParameterIdentification();
var outputMapping = A.Fake <OutputMapping>();
ConfigureOutputMapping(outputMapping);
_parameterIdentification.AddOutputMapping(outputMapping);
_parameterIdentification.AddIdentificationParameter(DomainHelperForSpecs.IdentificationParameter());
_parameterIdentification.Configuration.AlgorithmProperties = new OptimizationAlgorithmProperties("XX");
outputMapping.Output.Dimension = DomainHelperForSpecs.FractionDimensionForSpecs();
}
protected override void Context()
{
_view = A.Fake <IShowOntogenyDataView>();
_ontogenyRepository = A.Fake <IOntogenyRepository>();
_simpleChartPresenter = A.Fake <ISimpleChartPresenter>();
_dimensionRepository = A.Fake <IDimensionRepository>();
_groupRepository = A.Fake <IGroupRepository>();
_displayUnitRetriever = A.Fake <IDisplayUnitRetriever>();
_groupLiver = new Group {
Name = "Liver"
};
_groupDuodenum = new Group {
Name = "Duodenum"
};
_tableFormula = new TableFormula();
_ontogeny = new DatabaseOntogeny {
SpeciesName = "toto"
};
_anotherOntogeny = new DatabaseOntogeny {
SpeciesName = "toto"
};
_allOntongies = new List <Ontogeny> {
_ontogeny, _anotherOntogeny
};
_ontoData = new List <OntogenyMetaData>();
_ontoData.Add(new OntogenyMetaData {
GroupName = "Liver"
});
_ontoData.Add(new OntogenyMetaData {
GroupName = "Duodenum"
});
_allMetaData = new List <OntogenyMetaData>();
A.CallTo(() => _dimensionRepository.AgeInYears).Returns(A.Fake <IDimension>());
A.CallTo(() => _dimensionRepository.Fraction).Returns(DomainHelperForSpecs.FractionDimensionForSpecs());
A.CallTo(() => _simpleChartPresenter.Plot(A <TableFormula> ._)).Returns(new CurveChart().WithAxes());
A.CallTo(() => _simpleChartPresenter.Plot(A <DataRepository> ._, Scalings.Linear)).Returns(new CurveChart().WithAxes());
A.CallTo(() => _groupRepository.GroupByName("Liver")).Returns(_groupLiver);
A.CallTo(() => _groupRepository.GroupByName("Duodenum")).Returns(_groupDuodenum);
A.CallTo(() => _ontogenyRepository.AllValuesFor(_ontogeny)).Returns(_ontoData);
A.CallTo(() => _ontogenyRepository.AllFor(_ontogeny.SpeciesName)).Returns(_allOntongies);
A.CallTo(() => _ontogenyRepository.AllValuesFor(_ontogeny, _groupLiver.Name)).Returns(_allMetaData);
sut = new ShowOntogenyDataPresenter(_view, _ontogenyRepository, _simpleChartPresenter, _dimensionRepository, _groupRepository, _displayUnitRetriever);
A.CallTo(() => _view.BindTo(A <ShowOntogenyDataDTO> ._))
.Invokes(x => ShowOntogenyDataDTO = x.GetArgument <ShowOntogenyDataDTO>(0));
}
protected override void Context()
{
_entityPathResolver = new EntityPathResolverForSpecs();
_representationInfoRepository = new RepresentationInfoRepositoryForSpecs();
sut = new PKSimPathToPathElementsMapper(_representationInfoRepository, _entityPathResolver);
_organism = new Organism();
_venousBlood = new Organ().WithName(CoreConstants.Organ.VenousBlood).WithParentContainer(_organism);
_liver = new Organ().WithName(CoreConstants.Organ.Liver).WithParentContainer(_organism);
_kidney = new Organ().WithName(CoreConstants.Organ.Kidney).WithParentContainer(_organism);
_liverInt = new Compartment().WithName(CoreConstants.Compartment.Interstitial).WithParentContainer(_liver);
_liverCell = new Compartment().WithName(CoreConstants.Compartment.Intracellular).WithParentContainer(_liver);
_kidneyUrine = new Compartment().WithName(CoreConstants.Compartment.URINE).WithParentContainer(_kidney);
_gallBladder = new Organ().WithName(CoreConstants.Organ.Gallbladder).WithParentContainer(_organism);
_lumen = new Organ().WithName(CoreConstants.Organ.Lumen).WithParentContainer(_organism);
_peripheralVenousBlood = new Container().WithName(CoreConstants.Organ.PeripheralVenousBlood).WithParentContainer(_organism);
_smallIntestine = new Organ().WithName(CoreConstants.Organ.SmallIntestine).WithParentContainer(_organism);
_mucosa = new Compartment().WithName(CoreConstants.Compartment.Mucosa).WithParentContainer(_smallIntestine);
_mucosa_duo = new Compartment().WithName(CoreConstants.Compartment.Duodenum).WithParentContainer(_mucosa);
_mucosa_duo_interstitial = new Compartment().WithName(CoreConstants.Compartment.Interstitial).WithParentContainer(_mucosa_duo);
_events = new Container().WithName(Constants.EVENTS);
_eventGroup = new EventGroup().WithName("E1").WithParentContainer(_events);
_plasma = new Compartment().WithName(CoreConstants.Compartment.Plasma).WithParentContainer(_venousBlood);
_drugContainerVenousBlood = new Container().WithName(_drugName).WithContainerType(ContainerType.Molecule).WithParentContainer(_venousBlood);
_drugContainerPeripheralVenousBlood = new Container().WithName(_drugName).WithContainerType(ContainerType.Molecule).WithParentContainer(_peripheralVenousBlood);
_drugContainerGallBladder = new Container().WithName(_drugName).WithContainerType(ContainerType.Molecule).WithParentContainer(_gallBladder);
_drugContainerInLumen = new Container().WithName(_drugName).WithContainerType(ContainerType.Molecule).WithParentContainer(_lumen);
_drugContainerInLiverCell = new Container().WithName(_drugName).WithContainerType(ContainerType.Molecule).WithParentContainer(_liverCell);
_drug = new MoleculeAmount().WithName(_drugName).WithParentContainer(_plasma);
_drugUrineKidney = new MoleculeAmount().WithName(_drugName).WithParentContainer(_kidneyUrine);
_applications = new Container().WithName(Constants.APPLICATIONS);
_application1 = new EventGroup().WithName("App").WithParentContainer(_applications).WithContainerType(ContainerType.EventGroup);
_formulation = new Container().WithName("F1").WithParentContainer(_application1);
_neighborhoods = new Container().WithName(Constants.NEIGHBORHOODS);
_liverCellToLiverIntNeighborhood = new Neighborhood {
FirstNeighbor = _liverInt, SecondNeighbor = _liverCell
}.WithParentContainer(_neighborhoods);
_concentrationDimension = DomainHelperForSpecs.ConcentrationDimensionForSpecs();
_fractionDimension = DomainHelperForSpecs.FractionDimensionForSpecs();
}
protected override void Context()
{
_containerTask = A.Fake <IContainerTask>();
_identificationParameterTask = A.Fake <IIdentificationParameterTask>();
_objectBaseFactory = A.Fake <IObjectBaseFactory>();
sut = new IdentificationParameterFactory(_objectBaseFactory, _containerTask, _identificationParameterTask);
_simulationParameterSelection = new List <ParameterSelection>();
_parameterIdentification = new ParameterIdentification();
_simulation = A.Fake <ISimulation>();
_simulation.Model.Root = new Container();
A.CallTo(() => _objectBaseFactory.Create <IdentificationParameter>()).Returns(new IdentificationParameter());
_parameterIdentification.AddSimulation(_simulation);
_lengthLiver = A.Fake <IParameter>().WithName("Length").WithDimension(DomainHelperForSpecs.LengthDimensionForSpecs());
_fractionLiver = A.Fake <IParameter>().WithName("Fraction").WithDimension(DomainHelperForSpecs.FractionDimensionForSpecs());
_lengthKidney = A.Fake <IParameter>().WithName("Length").WithDimension(DomainHelperForSpecs.LengthDimensionForSpecs());
var logDimension = A.Fake <IDimension>();
A.CallTo(() => logDimension.Name).Returns(Constants.Dimension.LOG_UNITS);
_lipoKidney = A.Fake <IParameter>().WithName("Lipo").WithDimension(logDimension);
_fracKidney = A.Fake <IParameter>().WithName("Frac").WithDimension(DomainHelperForSpecs.FractionDimensionForSpecs());
var liver = new Container().WithName("Liver");
var kidney = new Container().WithName("Kidney");
liver.Add(_lengthLiver);
liver.Add(_fractionLiver);
kidney.Add(_lengthKidney);
kidney.Add(_lipoKidney);
kidney.Add(_fracKidney);
_simulation.Model.Root.Add(liver);
_simulation.Model.Root.Add(kidney);
_simulationParameterSelection.Add(new ParameterSelection(_simulation, new QuantitySelection("Liver|Length", QuantityType.Parameter)));
}
protected override void InitializeChart()
{
base.InitializeChart();
_chart.AxisBy(AxisTypes.X).Dimension = _xDataColumn.Dimension;
_chart.AxisBy(AxisTypes.Y).Dimension = DomainHelperForSpecs.FractionDimensionForSpecs();
}
protected override void Context()
{
base.Context();
_dataRepository = DomainHelperForSpecs.ObservedData();
_dataRepository.FirstDataColumn().Dimension = DomainHelperForSpecs.FractionDimensionForSpecs();
}
protected override void Context()
{
_normParameter = new ParameterDTO(DomainHelperForSpecs.ConstantParameterWithValue(0.10).WithDimension(DomainHelperForSpecs.FractionDimensionForSpecs()));
sut = new ExpressionContainerDTO {
RelativeExpressionNormParameter = _normParameter
};
}
public void should_return_lin_for_a_fraction_quantity()
{
_quantity.Dimension = DomainHelperForSpecs.FractionDimensionForSpecs();
sut.DefaultScalingFor(_quantity).ShouldBeEqualTo(Scalings.Linear);
}
