protected override void Context()
{
base.Context();
_pkValues = new PKValues();
_pkValues.AddValue("P1", 10f);
_pkValues.AddValue("P2", 10f);
_mode = PKParameterMode.Single;
_drugName = "TOTO";
_pk1 = new PKParameter {
Mode = _mode, Name = "P1", Dimension = DomainHelperForSpecs.ConcentrationDimensionForSpecs()
};
_pk2 = new PKParameter {
Mode = _mode, Name = "P2", Dimension = DomainHelperForSpecs.ConcentrationDimensionForSpecs()
};
_pk3 = new PKParameter {
Mode = PKParameterMode.Multi, Name = "P3"
};
var baseGrid = new BaseGrid("Time", DomainHelperForSpecs.TimeDimensionForSpecs());
_col = new DataColumn("COL", DomainHelperForSpecs.ConcentrationDimensionForSpecs(), baseGrid)
{
DataInfo = { MolWeight = 150 }
};
A.CallTo(() => _pkParameterRepository.All()).Returns(new [] { _pk1, _pk2, _pk3 });
A.CallTo(() => _parameterFactory.CreateFor(A <string> ._, A <double> ._, A <string> ._, PKSimBuildingBlockType.Simulation))
.ReturnsLazily(x => DomainHelperForSpecs.ConstantParameterWithValue(x.GetArgument <double>(1)).WithName(x.GetArgument <string>(0)));
}
protected override void Context()
{
base.Context();
_simulation = A.Fake <ISimulation>();
_runResults = A.Fake <SimulationResults>();
var outputSelections = new OutputSelections();
outputSelections.AddOutput(new QuantitySelection("Liver|Cell|Drug|Concentration", QuantityType.Drug));
A.CallTo(() => _simulation.OutputSelections).Returns(outputSelections);
var pKCalculationOptions = new PKCalculationOptions();
A.CallTo(_pkCalculationOptionsFactory).WithReturnType <PKCalculationOptions>().Returns(pKCalculationOptions);
_p1 = new PKParameter().WithName("AUC");
_p1.Mode = PKParameterMode.Single;
_p2 = new PKParameter().WithName("AUC" + Constants.PKParameters.NormSuffix);
_p2.Mode = PKParameterMode.Single;
A.CallTo(() => _pkParameterRepository.All()).Returns(new[] { _p1, _p2 });
var individualResults = A.Fake <IndividualResults>();
A.CallTo(() => _runResults.AllIndividualResults).Returns(new HashSet <IndividualResults>(new [] { individualResults }));
var pKValues = new PKValues();
pKValues.AddValue(_p1.Name, 10f);
pKValues.AddValue(_p2.Name, 20f);
A.CallTo(_pkValuesCalculator).WithReturnType <PKValues>().Returns(pKValues);
}
protected override void Context()
{
base.Context();
_simulation = A.Fake <ISimulation>();
_runResults = A.Fake <SimulationResults>();
var outputSelections = new OutputSelections();
outputSelections.AddOutput(new QuantitySelection("Liver|Cell|Drug|Concentration", QuantityType.Drug));
A.CallTo(() => _simulation.OutputSelections).Returns(outputSelections);
var pKCalculationOptions = new PKCalculationOptions();
A.CallTo(_pkCalculationOptionsFactory).WithReturnType <PKCalculationOptions>().Returns(pKCalculationOptions);
_p1 = new PKParameter {
Name = "AUC", Mode = PKParameterMode.Single
};
_userDefinedParameter1 = new UserDefinedPKParameter {
Name = "Dynamic1", Mode = PKParameterMode.Single
};
A.CallTo(() => _pkParameterRepository.All()).Returns(new[] { _p1, _userDefinedParameter1 });
var individualResults = A.Fake <IndividualResults>();
A.CallTo(() => _runResults.AllIndividualResults).Returns(new HashSet <IndividualResults>(new[] { individualResults }));
var pKValues = new PKValues();
pKValues.AddValue(_p1.Name, 10f);
pKValues.AddValue(_userDefinedParameter1.Name, 30f);
A.CallTo(_pkValuesCalculator).WithReturnType <PKValues>().Returns(pKValues);
}
protected override void Context()
{
base.Context();
_pkAnalysis = new PopulationSimulationPKAnalyses();
_populationSimulation = A.Fake <IModelCoreSimulation>();
var quantityPKParameter = new QuantityPKParameter {
QuantityPath = "Liver", Name = "P"
};
var pkParameter = new PKParameter {
DisplayUnit = "UNIT", Name = "P"
};
A.CallTo(() => _pkParameterRepository.FindByName(quantityPKParameter.Name)).Returns(pkParameter);
var mergedDimension = A.Fake <IDimension>();
quantityPKParameter.SetValue(0, 10);
quantityPKParameter.SetValue(1, 11);
A.CallTo(() => _dimensionFactory.MergedDimensionFor(A <QuantityPKParameterContext> ._))
.WhenArgumentsMatch(x => x.Get <QuantityPKParameterContext>(0).QuantityPKParameter == quantityPKParameter)
.Returns(mergedDimension);
var unit = A.Fake <Unit>();
A.CallTo(() => unit.Name).Returns(pkParameter.DisplayUnit);
A.CallTo(() => mergedDimension.UnitOrDefault(pkParameter.DisplayUnit)).Returns(unit);
A.CallTo(() => mergedDimension.BaseUnitValueToUnitValue(unit, 10)).Returns(100.10f);
A.CallTo(() => mergedDimension.BaseUnitValueToUnitValue(unit, 11)).Returns(110.20f);
_pkAnalysis.AddPKAnalysis(quantityPKParameter);
}
protected override void Context()
{
_lazyLoadTask = A.Fake <ILazyLoadTask>();
_pkValuesCalculator = A.Fake <IPKValuesCalculator>();
_pkParameterRepository = A.Fake <IPKParameterRepository>();
_pkCalculationOptionsFactory = A.Fake <IPKCalculationOptionsFactory>();
_entityPathResolver = A.Fake <IEntityPathResolver>();
_pkMapper = A.Fake <IPKValuesToPKAnalysisMapper>();
_dimensionRepository = A.Fake <IDimensionRepository>();
sut = new PKAnalysesTask(_lazyLoadTask, _pkValuesCalculator, _pkParameterRepository, _pkCalculationOptionsFactory, _entityPathResolver, _pkMapper, _dimensionRepository);
_populationSimulation = A.Fake <PopulationSimulation>();
_outputSelections = new OutputSelections();
A.CallTo(() => _populationSimulation.OutputSelections).Returns(_outputSelections);
_allBodyWeights = new List <double>();
_bodyWeight = A.Fake <IParameter>();
var bodyWeightPath = "PATH";
A.CallTo(() => _populationSimulation.BodyWeight).Returns(_bodyWeight);
A.CallTo(() => _entityPathResolver.PathFor(_bodyWeight)).Returns(bodyWeightPath);
A.CallTo(() => _populationSimulation.AllValuesFor(bodyWeightPath)).Returns(_allBodyWeights);
A.CallTo(() => _populationSimulation.NumberOfItems).Returns(2);
_individualResult0 = new IndividualResults {
IndividualId = 0, Time = new QuantityValues {
Values = new[] { 1f, 2f }
}
};
_individualResult0.Add(new QuantityValues {
QuantityPath = _quantityPath1, Values = new[] { 10f, 20f }
});
_individualResult0.Add(new QuantityValues {
QuantityPath = _quantityPath2, Values = new[] { 11f, 21f }
});
_individualResult1 = new IndividualResults {
IndividualId = 1, Time = new QuantityValues {
Values = new[] { 3f, 4f }
}
};
_individualResult1.Add(new QuantityValues {
QuantityPath = _quantityPath1, Values = new[] { 30f, 40f }
});
_individualResult1.Add(new QuantityValues {
QuantityPath = _quantityPath2, Values = new[] { 31f, 41f }
});
_simulationResults = new SimulationResults {
_individualResult0, _individualResult1
};
_populationSimulation.Results = _simulationResults;
_pkParameter1 = new PKParameter {
Mode = PKParameterMode.Always, Name = "Cmax"
};
_pkParameter2 = new PKParameter {
Mode = PKParameterMode.Always, Name = "tMax"
};
A.CallTo(() => _pkParameterRepository.All()).Returns(new[] { _pkParameter1, _pkParameter2 });
}
public void TestSerialization()
{
var x1 = new PKParameter {
Description = "one pk parameter", Name = "Cmax", DisplayName = "The CMax", Dimension = DimensionLength
};
var x2 = SerializeAndDeserialize(x1);
AssertForSpecs.AreEqualPKParameter(x1, x2);
}
public virtual bool PKParameterCanBeUsed(PKParameter p, PKCalculationOptions pkCalculationOptions)
{
return(p.Mode.Is(pkCalculationOptions.PKParameterMode));
}
private IParameter createPKParameter(PKParameter pkParameter, PKValues pkValues)
{
return(createPKParameter(pkParameter.Name, pkValues.ValueOrDefaultFor(pkParameter.Name), pkParameter.Dimension.Name));
}
private bool isNormParameter(PKParameter pkParameter)
{
return(pkParameter.Name.EndsWith(Constants.PKParameters.NormSuffix));
}
public override bool PKParameterCanBeUsed(PKParameter pkParameter, PKCalculationOptions pkCalculationOptions)
{
return(base.PKParameterCanBeUsed(pkParameter, pkCalculationOptions) && !isNormParameter(pkParameter));
}
