protected override void Context()
{
base.Context();
var otherParameterRate = new PKSimParameter().WithFormula(new ExplicitFormula("another formula")).WithName(_paramRate1.Name);
_organ.Add(otherParameterRate);
}
protected override void Context()
{
base.Context();
_newName = "TOTO";
_f1 = new ExplicitFormula("A+B");
_f2 = new ExplicitFormula("A+B");
_f3 = new ExplicitFormula("A+B");
_f1.AddObjectPath(new FormulaUsablePath(_initialSimulationName, "Liver", "Cell"));
_f1.AddObjectPath(new FormulaUsablePath("Drug", "LogP"));
_f2.AddObjectPath(new FormulaUsablePath("SU", "Liver", "Cell"));
_f2.AddObjectPath(new FormulaUsablePath("Drug", "LogP"));
_f3.AddObjectPath(new FormulaUsablePath(_initialSimulationName, "Liver", "Cell"));
_f3.AddObjectPath(new FormulaUsablePath(_initialSimulationName, "LogP"));
var p1 = new PKSimParameter().WithName("P1").WithFormula(_f1);
var p2 = new PKSimParameter().WithName("P2").WithFormula(_f2);
var p3 = new PKSimParameter().WithName("P3").WithFormula(_f3);
var c1 = new Container().WithName("C1");
c1.Add(p3);
_root.Add(p1);
_root.Add(p2);
_root.Add(c1);
var results = new SimulationResults {
Time = new QuantityValues {
ColumnId = "0", QuantityPath = "baseGrid"
}
};
_individualResults = new IndividualResults {
IndividualId = 1
};
results.Add(_individualResults);
var quantityCache = new PathCacheForSpecs <IQuantity>
{
{ "Liver|Cell|Drug", new MoleculeAmount {
QuantityType = QuantityType.Drug
} },
{ "Liver|Cell|Meta", new MoleculeAmount {
QuantityType = QuantityType.Metabolite
} },
};
_individualResults.Add(new QuantityValues {
PathList = new[] { "Liver", "Cell", "Drug" }.ToList()
});
_individualResults.Add(new QuantityValues {
PathList = new[] { "Liver", "Cell", "Meta" }.ToList()
});
_individualSimulation.Results = results;
_individualSimulation.DataRepository = new DataRepository();
_individualSimulation.Reactions = new ReactionBuildingBlock();
_individualSimulation.SimulationSettings = new SimulationSettings();
A.CallTo(_containerTask).WithReturnType <PathCache <IQuantity> >().Returns(quantityCache);
A.CallTo(() => _curveNamer.RenameCurvesWithOriginalNames(_individualSimulation, A <Action> ._, true)).Invokes(x => x.Arguments[1].DowncastTo <Action>()());
}
protected override void Context()
{
_view = A.Fake <IFavoriteParametersView>();
_parameterTask = A.Fake <IParameterTask>();
_favoriteRepository = A.Fake <IFavoriteRepository>();
_multiParameterEditPresenter = A.Fake <IMultiParameterEditPresenter>();
_favoriteTask = A.Fake <IFavoriteTask>();
sut = new FavoriteParametersPresenter(_view, _multiParameterEditPresenter, _parameterTask, _favoriteRepository, _favoriteTask);
_par1 = new PKSimParameter().WithName("par1");
_par2 = new PKSimParameter().WithName("par2");
_par3 = new PKSimParameter().WithName("par3");
_parameters = new List <IParameter> {
_par1, _par2, _par3
};
var pathCache = new PathCache <IParameter>(A.Fake <IEntityPathResolver>())
{
{ "par1", _par1 }, { "par2", _par2 }, { "par3", _par3 }
};
A.CallTo(() => _parameterTask.PathCacheFor(_parameters)).Returns(pathCache);
_favorites = new List <string>();
A.CallTo(() => _favoriteRepository.All()).Returns(_favorites);
A.CallTo(() => _multiParameterEditPresenter.Edit(A <IEnumerable <IParameter> > ._))
.Invokes(x => _allEditedParameters = x.GetArgument <IEnumerable <IParameter> >(0));
}
public static IDistributedParameter NormalDistributedParameter(double defaultMean = 0, double defaultDeviation = 1, double defaultPercentile = 0.5)
{
var parameter = new PKSimDistributedParameter().WithId("P1");
var pathFactory = new ObjectPathFactoryForSpecs();
var meanParameter = new PKSimParameter {
Name = Constants.Distribution.MEAN
}.WithFormula(new ConstantFormula(defaultMean).WithId("MeanFormula")).WithId("Mean");
addDimensionTo(meanParameter);
var stdParameter = new PKSimParameter {
Name = Constants.Distribution.DEVIATION
}.WithFormula(new ConstantFormula(defaultDeviation).WithId("DeviationFormula")).WithId("Deviation");
addDimensionTo(stdParameter);
var percentileParameter = new PKSimParameter {
Name = Constants.Distribution.PERCENTILE
}.WithFormula(new ConstantFormula(defaultPercentile).WithId("PercentileFormula")).WithId("Percentile");
addDimensionTo(percentileParameter);
parameter.Add(meanParameter);
parameter.Add(stdParameter);
parameter.Add(percentileParameter);
parameter.Formula = new NormalDistributionFormula().WithId("NormalDistributionFormula");
parameter.Formula.AddObjectPath(pathFactory.CreateRelativeFormulaUsablePath(parameter, meanParameter));
parameter.Formula.AddObjectPath(pathFactory.CreateRelativeFormulaUsablePath(parameter, stdParameter));
addDimensionTo(parameter);
return(parameter);
}
protected override void Context()
{
_view = A.Fake <IMultiParameterEditView>();
_scaleParameterPresenter = A.Fake <IScaleParametersPresenter>();
_parameterTask = A.Fake <IParameterTask>();
_contextMenuFactory = A.Fake <IParameterContextMenuFactory>();
_favoriteRepository = A.Fake <IFavoriteRepository>();
_parameterDTOMapper = A.Fake <IParameterToParameterDTOMapper>();
_editParameterPresenterTask = A.Fake <IEditParameterPresenterTask>();
sut = new FavoriteParametersPresenter(_view, _scaleParameterPresenter, _editParameterPresenterTask, _parameterTask, _parameterDTOMapper, _contextMenuFactory, _favoriteRepository);
_par1 = new PKSimParameter().WithName("par1");
_par2 = new PKSimParameter().WithName("par2");
_par3 = new PKSimParameter().WithName("par3");
_parameters = new List <IParameter> {
_par1, _par2, _par3
};
var pathCache = new PathCache <IParameter>(A.Fake <IEntityPathResolver>())
{
{ "par1", _par1 }, { "par2", _par2 }, { "par3", _par3 }
};
A.CallTo(() => _parameterTask.PathCacheFor(_parameters)).Returns(pathCache);
_par1DTO = new ParameterDTO(_par1);
_par2DTO = new ParameterDTO(_par2);
A.CallTo(() => _parameterDTOMapper.MapFrom(_par1)).Returns(_par1DTO);
A.CallTo(() => _parameterDTOMapper.MapFrom(_par2)).Returns(_par2DTO);
_favorites = new List <string>();
A.CallTo(() => _favoriteRepository.All()).Returns(_favorites);
}
protected override void Context()
{
base.Context();
var otherParameterRate = new PKSimParameter().WithFormula(_paramRate1.Formula).WithName(_paramRate1.Name);
_organ.Add(otherParameterRate);
}
protected override void Context()
{
_formulaCache = A.Fake <IFormulaCache>();
_repository = A.Fake <IRepository <IInteractionKineticUpdaterSpecification> >();
_objectBaseFactory = A.Fake <IObjectBaseFactory>();
A.CallTo(() => _objectBaseFactory.Create <ExplicitFormula>()).ReturnsLazily(x => new ExplicitFormula());
A.CallTo(() => _repository.All()).Returns(_allKineticUpdaterSpecifications);
sut = new InteractionKineticUpdater(_repository, _objectBaseFactory);
_reaction = new ReactionBuilder();
_transporterMoleculeContainer = new TransporterMoleculeContainer();
_simulation = A.Fake <Simulation>();
_interactionProperties = new InteractionProperties();
_interactionProperties.AddInteraction(new InteractionSelection {
MoleculeName = _enzymeName, ProcessName = _processName
});
A.CallTo(() => _simulation.InteractionProperties).Returns(_interactionProperties);
_kmFactor = new PKSimParameter().WithName(CoreConstants.Parameter.KM_INTERACTION_FACTOR).WithFormula(new ExplicitFormula("1"));
_vmaxFactor = new PKSimParameter().WithName(CoreConstants.Parameter.KCAT_INTERACTION_FACTOR).WithFormula(new ExplicitFormula("1"));
_reaction.Add(_kmFactor);
_reaction.Add(_vmaxFactor);
_transporterMoleculeContainer.Add(_kmFactor);
_transporterMoleculeContainer.Add(_vmaxFactor);
}
protected override void Context()
{
_randomGenerator = new RandomGenerator();
sut = new PKSimDistributedParameter().WithName("P");
_minValue = 5;
_maxValue = 10;
sut.Info.MinValue = _minValue;
sut.Info.MaxValue = _maxValue;
_pathFactory = new ObjectPathFactoryForSpecs();
_minimumParameter = new PKSimParameter {
Name = Constants.Distribution.MINIMUM
}.WithFormula(new ExplicitFormula("0"));
_maximumParameter = new PKSimParameter {
Name = Constants.Distribution.MAXIMUM
}.WithFormula(new ExplicitFormula("1"));
_percentileParameter = new PKSimParameter {
Name = Constants.Distribution.PERCENTILE
}.WithFormula(new ExplicitFormula("0.5"));
sut.Add(_minimumParameter);
sut.Add(_maximumParameter);
sut.Add(_percentileParameter);
_distributedFormula = new UniformDistributionFormula();
_distributedFormula.AddObjectPath(_pathFactory.CreateRelativeFormulaUsablePath(sut, _minimumParameter).WithAlias(Constants.Distribution.MINIMUM));
_distributedFormula.AddObjectPath(_pathFactory.CreateRelativeFormulaUsablePath(sut, _maximumParameter).WithAlias(Constants.Distribution.MAXIMUM));
sut.Formula = _distributedFormula;
}
protected override void Context()
{
base.Context();
_parameterNode = A.Fake <ITreeNode <IParameter> >();
sut.ParameterNodeDoubleClicked += (o, e) => { _parameterNodeDoubleClicked = true; };
_parameter = new PKSimParameter();
A.CallTo(() => _parameterNode.Tag).Returns(_parameter);
}
protected override void Context()
{
base.Context();
_formulation.FormulationType = CoreConstants.Formulation.TABLE;
var tableParameter = new PKSimParameter().WithName(CoreConstants.Parameters.FRACTION_DOSE).WithFormula(new TableFormula());
_formulation.Add(tableParameter);
}
public static IParameter ConstantParameterWithValue(double value)
{
var parameter = new PKSimParameter().WithFormula(new ConstantFormula(value).WithId("constantFormulaId"));
parameter.Visible = true;
addDimensionTo(parameter);
parameter.IsFixedValue = true;
return(parameter);
}
protected override void Context()
{
base.Context();
_relativeVMaxValue = 25;
_containerName = "C1";
var relExp = new PKSimParameter();
relExp.Formula = new ConstantFormula();
A.CallTo(() => _executionContext.BuildingBlockContaining(relExp)).Returns(_individual);
}
protected override void Context()
{
base.Context();
_newName = "TOTO";
_f1 = new ExplicitFormula("A+B");
_f2 = new ExplicitFormula("A+B");
_f3 = new ExplicitFormula("A+B");
_f1.AddObjectPath(new FormulaUsablePath(_initialSimulationName, "Liver", "Cell"));
_f1.AddObjectPath(new FormulaUsablePath("Drug", "LogP"));
_f2.AddObjectPath(new FormulaUsablePath("SU", "Liver", "Cell"));
_f2.AddObjectPath(new FormulaUsablePath("Drug", "LogP"));
_f3.AddObjectPath(new FormulaUsablePath(_initialSimulationName, "Liver", "Cell"));
_f3.AddObjectPath(new FormulaUsablePath(_initialSimulationName, "LogP"));
var p1 = new PKSimParameter().WithName("P1").WithFormula(_f1);
var p2 = new PKSimParameter().WithName("P2").WithFormula(_f2);
var p3 = new PKSimParameter().WithName("P3").WithFormula(_f3);
var c1 = new Container().WithName("C1");
c1.Add(p3);
_root.Add(p1);
_root.Add(p2);
_root.Add(c1);
var results = new SimulationResults {
Time = new QuantityValues {
ColumnId = "0", QuantityPath = "baseGrid"
}
};
_individualResults = new IndividualResults {
IndividualId = 1
};
results.Add(_individualResults);
var quantityCache = new PathCacheForSpecs <IQuantity>
{
{ "Liver|Cell|Drug", new MoleculeAmount {
QuantityType = QuantityType.Drug
} },
{ "Liver|Cell|Meta", new MoleculeAmount {
QuantityType = QuantityType.Metabolite
} },
};
_individualResults.Add(new QuantityValues {
PathList = new[] { "Liver", "Cell", "Drug" }.ToList()
});
_individualResults.Add(new QuantityValues {
PathList = new[] { "Liver", "Cell", "Meta" }.ToList()
});
_individualSimulation.Results = results;
A.CallTo(_containerTask).WithReturnType <PathCache <IQuantity> >().Returns(quantityCache);
}
protected override void Context()
{
base.Context();
_entityPathResolver = A.Fake <IEntityPathResolver>();
_parameter = new PKSimParameter();
_parameterPath = "TOTO";
sut = new ParameterTask(_entityPathResolver, _executionContext, _favoriteTask);
A.CallTo(() => _entityPathResolver.PathFor(_parameter)).Returns(_parameterPath);
A.CallTo(() => _executionContext.PublishEvent(A <AddParameterToFavoritesEvent> ._))
.Invokes(x => _event = x.GetArgument <AddParameterToFavoritesEvent>(0));
}
protected override void Context()
{
base.Context();
_fat = new Container().WithName(CoreConstants.Organ.Fat);
_muscle = new Container().WithName(CoreConstants.Organ.Muscle);
_liver = new Container().WithName(CoreConstants.Organ.Liver);
_duodenum = new Container().WithName(CoreConstants.Compartment.Duodenum);
_parameter = new PKSimParameter {
BuildingBlockType = PKSimBuildingBlockType.Individual
};
}
protected override void Context()
{
base.Context();
_targetIndividual = A.Fake <PKSim.Core.Model.Individual>();
_sourceIndividual = A.Fake <PKSim.Core.Model.Individual>();
_parameterScaling1 = A.Fake <ParameterScaling>();
_parameterScaling2 = A.Fake <ParameterScaling>();
var volume = new PKSimParameter().WithName(CoreConstants.Parameter.VOLUME).WithParentContainer(new Organ());
var p2 = new PKSimParameter().WithName("P2").WithParentContainer(new Container());
A.CallTo(() => _individualScalingTask.AllParameterScalingsFrom(_sourceIndividual, _targetIndividual)).Returns(new[] { _parameterScaling1, _parameterScaling2 });
A.CallTo(() => _parameterScaling1.SourceParameter).Returns(volume);
A.CallTo(() => _parameterScaling2.SourceParameter).Returns(p2);
}
protected override void Context()
{
base.Context();
_fullPathForParameter = "BLA BLA BLA";
var parameter = new PKSimParameter();
_validationResult.AddMessage(NotificationType.Warning, parameter, "warning");
A.CallTo(_fullPathDisplayResolver).WithReturnType <string>().Returns(_fullPathForParameter);
A.CallTo(() => _dialogCreator.MessageBoxInfo(A <string> ._))
.Invokes(x => _message = x.GetArgument <string>(0));
sut.ConfigureSimulation(_originalSimulation);
}
protected override void Context()
{
base.Context();
var parameter = new PKSimParameter {
IsDefault = true
}.WithName("toto").WithFormula(new ExplicitFormula("2*3"));
parameter.ValueOrigin.Id = 5;
parameter.ValueOrigin.Method = ValueOriginDeterminationMethods.InVitro;
var alternative = new ParameterAlternative {
parameter
};
_nanConstantFormula = new ConstantFormula();
A.CallTo(() => _objectBaseFactory.Create <ParameterAlternative>()).Returns(alternative);
A.CallTo(() => _formulaFactory.ValueFor(double.NaN, parameter.Dimension)).Returns(_nanConstantFormula);
_compoundParameterGroup.Name = CoreConstants.Groups.COMPOUND_PERMEABILITY;
}
protected override void Context()
{
base.Context();
var dimension = new Dimension(new BaseDimensionRepresentation(), "none", "l/f");
_newUnit = new Unit("kl/f", 1000, 0);
dimension.AddUnit(_newUnit);
_pkSimParameter = new PKSimParameter {
Dimension = dimension
};
_allPKanalysis.First().PKAnalysis.Add(_pkSimParameter);
_settings = new DefaultPresentationSettings();
A.CallTo(() => _presenterSettingsTask.PresentationSettingsFor <DefaultPresentationSettings>(A <IPresenterWithSettings> ._, A <IWithId> ._)).Returns(_settings);
_settings.SetSetting(_pkSimParameter.Name, "kl/f");
A.CallTo(() => _populationDataCollector.Name).Returns("TOTO");
sut.LoadSettingsForSubject(A.Fake <IWithId>());
}
protected override void Context()
{
sut = new PKSimDistributedParameter();
_pathFactory = new ObjectPathFactoryForSpecs();
_meanParameter = new PKSimParameter {
Name = Constants.Distribution.MEAN
}.WithFormula(new ExplicitFormula("10"));
_stdParameter = new PKSimParameter {
Name = Constants.Distribution.DEVIATION
}.WithFormula(new ExplicitFormula("10"));
_percentileParameter = new PKSimParameter {
Name = Constants.Distribution.PERCENTILE
}.WithFormula(new ExplicitFormula("0.5"));
sut.Add(_meanParameter);
sut.Add(_stdParameter);
sut.Add(_percentileParameter);
sut.Formula = new NormalDistributionFormula();
sut.Formula.AddObjectPath(_pathFactory.CreateRelativeFormulaUsablePath(sut, _meanParameter));
sut.Formula.AddObjectPath(_pathFactory.CreateRelativeFormulaUsablePath(sut, _stdParameter));
}
protected override void Context()
{
base.Context();
_parameter1 = new PKSimParameter().WithName("P1");
_parameter2 = new PKSimParameter().WithName("P2");
_parameter3 = new PKSimParameter().WithName("P3");
_parameter4 = new PKSimParameter().WithName("P4");
_parameterNotDisplayed = new PKSimParameter().WithName("P4");
_parameterList.Add(_parameter1);
_parameterList.Add(_parameter2);
_parameterList.Add(_parameter3);
_parameterList.Add(_parameter4);
A.CallTo(() => _mapper.MapFrom(A <IParameter> ._)).ReturnsLazily(x => new ParameterDTO(x.GetArgument <IParameter>(0)));
A.CallTo(() => _view.BindTo(A <IEnumerable <ParameterDTO> > ._))
.Invokes(x => _allParameterDTO = x.GetArgument <IEnumerable <ParameterDTO> >(0).ToList());
sut.Edit(_parameterList);
}
protected override void Context()
{
_originValue = 15;
var container = new Container();
var otherParameter = DomainHelperForSpecs.ConstantParameterWithValue(10).WithName("P");
var objectPathFactory = new ObjectPathFactoryForSpecs();
sut = new PKSimParameter().WithName("toto");
container.Add(otherParameter);
container.Add(sut);
sut.Formula = new ExplicitFormula(_originValue.ToString(new NumberFormatInfo()));
sut.Formula.AddObjectPath(objectPathFactory.CreateRelativeFormulaUsablePath(sut, otherParameter));
sut.PropertyChanged += (o, e) =>
{
if (e.PropertyName.Equals("Value"))
{
_valueChangedEventRaised = true;
}
};
}
protected override void Context()
{
base.Context();
_process = new EnzymaticProcess().WithName("tralala");
_process.InternalName = "internalNAme";
_drug = new MoleculeBuilder().WithName("drug");
_metabolite = new MoleculeBuilder().WithName("metabolite");
_enzymeName = "enzyme";
_formulaCache = new FormulaCache();
_kinetic = new ExplicitFormula().WithId("trala").WithName("KINETIC");
_kinetic.AddObjectPath(new FormulaUsablePath(new[] { "Organism", CoreConstants.KeyWords.Molecule }));
_kinetic.AddObjectPath(new FormulaUsablePath(new[] { "Organism", CoreConstants.KeyWords.Protein }));
_parameterFormula = new ExplicitFormula();
_parameterFormula.AddObjectPath(new FormulaUsablePath(new[] { "Liver", CoreConstants.KeyWords.Molecule }));
_parameterInReaction = new PKSimParameter().WithName("p").WithFormula(_parameterFormula);
var pkSimReaction = new PKSimReaction().WithName("template");
pkSimReaction.AddParameter(_parameterInReaction);
A.CallTo(() => _simulationActiveProcessRepository.ProcessFor <PKSimReaction>(_process.InternalName)).Returns(pkSimReaction);
pkSimReaction.Formula = _kinetic;
A.CallTo(() => _cloneManager.Clone <IReactionBuilder>(pkSimReaction)).Returns(pkSimReaction);
}
protected override void Context()
{
base.Context();
_parameter = new PKSimParameter();
_parameterDTO = new ParameterDTO(_parameter);
}
public static Individual CreateIndividual(string speciesName = "Species")
{
var originData = new OriginData
{
SubPopulation = new SubPopulation(),
Species = new Species {
DisplayName = speciesName, Id = speciesName
}.WithName(speciesName),
Gender = new Gender().WithName("Gender"),
Population = new SpeciesPopulation().WithName("Population"),
};
var pvv = new ParameterValueVersion().WithName("PVVName");
var category = new ParameterValueVersionCategory().WithName("CategoryName");
category.Add(pvv);
originData.SubPopulation.AddParameterValueVersion(pvv);
var organism = new Organism().WithName(Constants.ORGANISM).WithId("OrganismId");
var organLiver = new Organ().WithName(CoreConstants.Organ.LIVER).WithId("LiverId");
organLiver.OrganType = OrganType.TissueOrgansNotInGiTract;
var periportal = new Compartment().WithName(CoreConstants.Compartment.PERIPORTAL).WithId("PeriportalId");
periportal.Add(new Container().WithName(CoreConstants.Compartment.INTRACELLULAR).WithId("PeriportalIntracellular"));
var pericentral = new Compartment().WithName(CoreConstants.Compartment.PERICENTRAL).WithId("PericentralId");
pericentral.Add(new Container().WithName(CoreConstants.Compartment.INTRACELLULAR).WithId("PericentralIntracellular"));
organLiver.Add(periportal);
organLiver.Add(pericentral);
var organKidney = new Organ().WithName(CoreConstants.Organ.KIDNEY).WithId("KidneyId");
organKidney.OrganType = OrganType.TissueOrgansNotInGiTract;
organKidney.Add(new Compartment {
Visible = true
}.WithName(CoreConstants.Compartment.PLASMA).WithId("KidneyPlasma"));
var lumen = new Organ().WithName("GiTract").WithId("GiTract");
lumen.OrganType = OrganType.Lumen;
var duodenum = new Compartment().WithName("Duodenum").WithId("Duodenum");
var caecum = new Compartment().WithName("Caecum").WithId("Caecum");
var dimension = Constants.Dimension.NO_DIMENSION;
var parameterLiver = new PKSimParameter().WithName("PLiver").WithId("PLiverId").WithFormula(new ExplicitFormula("1").WithId("1")).WithDimension(dimension);
parameterLiver.Info = new ParameterValueMetaData {
DefaultValue = 1
};
var parameterKidney = new PKSimParameter().WithName("PKidney").WithId("PKidneyId").WithFormula(new ExplicitFormula("2").WithId("2")).WithDimension(dimension);
parameterKidney.Info = new ParameterValueMetaData {
DefaultValue = 2
};
var parameterOrganism = new PKSimParameter().WithName(ParameterInOrganism).WithId("POrganismId").WithFormula(new ExplicitFormula("3").WithId("3")).WithDimension(dimension);
parameterOrganism.Info = new ParameterValueMetaData {
DefaultValue = 3
};
organLiver.Add(parameterLiver);
organKidney.Add(parameterKidney);
organism.Add(organLiver);
organism.Add(organKidney);
organism.Add(lumen);
organism.Add(parameterOrganism);
lumen.Add(duodenum);
lumen.Add(caecum);
var individual = new Individual {
OriginData = originData
}.WithName("Individual").WithId("IndividualId");
individual.Add(organism);
return(individual);
}
public static Individual CreateIndividual()
{
var originData = new OriginData();
originData.SubPopulation = new SubPopulation();
originData.Species = new Species().WithName("Species");
originData.Gender = new Gender().WithName("Gender");
originData.SpeciesPopulation = new SpeciesPopulation().WithName("Population");
var pvv = new ParameterValueVersion().WithName("PVVName");
var category = new ParameterValueVersionCategory().WithName("CategoryName");
category.Add(pvv);
originData.SubPopulation.AddParameterValueVersion(pvv);
var organism = new Organism().WithName("Organism").WithId("OrganismId");
var organLiver = new Organ().WithName(CoreConstants.Organ.Liver).WithId("LiverId");
organLiver.OrganType = OrganType.Liver;
var periportal = new Compartment().WithName(CoreConstants.Compartment.Periportal).WithId("PeriportalId");
periportal.Add(new Container().WithName(CoreConstants.Compartment.Intracellular).WithId("PeriportalIntracellular"));
var pericentral = new Compartment().WithName(CoreConstants.Compartment.Pericentral).WithId("PericentralId");
pericentral.Add(new Container().WithName(CoreConstants.Compartment.Intracellular).WithId("PericentralIntracellular"));
organLiver.Add(periportal);
organLiver.Add(pericentral);
var organKidney = new Organ().WithName(CoreConstants.Organ.Kidney).WithId("KidneyId");
organKidney.OrganType = OrganType.Kidney;
organKidney.Add(new Compartment {
Visible = true
}.WithName(CoreConstants.Compartment.Plasma).WithId("KidneyPlasma"));
var lumen = new Organ().WithName("GiTract").WithId("GiTract");
lumen.OrganType = OrganType.Lumen;
var duodenum = new Compartment().WithName("Duodenum").WithId("Duodenum");
var caecum = new Compartment().WithName("Caecum").WithId("Caecum");
var dimension = Constants.Dimension.NO_DIMENSION;
var parameterLiver = new PKSimParameter().WithName("PLiver").WithId("PLiverId").WithFormula(new ExplicitFormula("1").WithId("1")).WithDimension(dimension);
parameterLiver.Info = new ParameterValueMetaData {
DefaultValue = 1
};
var parameterKidney = new PKSimParameter().WithName("PKidney").WithId("PKidneyId").WithFormula(new ExplicitFormula("2").WithId("2")).WithDimension(dimension);
parameterKidney.Info = new ParameterValueMetaData {
DefaultValue = 2
};
var parameterOrganism = new PKSimParameter().WithName(ParameterInOrganism).WithId("POrganismId").WithFormula(new ExplicitFormula("3").WithId("3")).WithDimension(dimension);
parameterOrganism.Info = new ParameterValueMetaData {
DefaultValue = 3
};
organLiver.Add(parameterLiver);
organKidney.Add(parameterKidney);
organism.Add(organLiver);
organism.Add(organKidney);
organism.Add(lumen);
organism.Add(parameterOrganism);
lumen.Add(duodenum);
lumen.Add(caecum);
var individual = new Individual {
OriginData = originData
}.WithName("Individual").WithId("IndividualId");
individual.Add(organism);
return(individual);
}
protected override void Context()
{
base.Context();
_source = new PKSimParameter();
A.CallTo(() => _idGenerator.NewId()).Returns("tralala");
}
protected override void Context()
{
base.Context();
_parameter = new PKSimParameter().WithFormula(new ConstantFormula(1)).WithName(CoreConstants.Parameter.EHC_ENABLED);
}
