protected override void Context()
{
base.Context();
_amountDimension = A.Fake <IDimension>();
_targetContainer = new Container().WithName("TOTO");
A.CallTo(() => _amountDimension.Name).Returns(Constants.Dimension.MOLAR_AMOUNT);
_moleculeBuilder = new MoleculeBuilder().WithName("tralala").WithDimension(_amountDimension);
_parameterBuilder1 = DomainHelperForSpecs.ConstantParameterWithValue(1).WithName("P1").WithMode(ParameterBuildMode.Local);
_parameterBuilder2 = DomainHelperForSpecs.ConstantParameterWithValue(1).WithName("P2").WithMode(ParameterBuildMode.Local);
_parameterBuilder3 = DomainHelperForSpecs.ConstantParameterWithValue(1).WithName("P3").WithMode(ParameterBuildMode.Local);
_parameterBuilder2.ContainerCriteria = Create.Criteria(x => x.With("TOTO"));
_parameterBuilder3.ContainerCriteria = Create.Criteria(x => x.With("TATA"));
_moleculeBuilder.AddParameter(_parameterBuilder1);
_moleculeBuilder.AddParameter(_parameterBuilder2);
_moleculeBuilder.AddParameter(_parameterBuilder3);
_mappedFormula = A.Fake <IFormula>();
_buildConfiguration = A.Fake <IBuildConfiguration>();
_para1 = new Parameter().WithName("P1");
_para2 = new Parameter().WithName("P2");
_para3 = new Parameter().WithName("P3");
A.CallTo(() => _objectBaseFactory.Create <IMoleculeAmount>()).Returns(new MoleculeAmount());
A.CallTo(() => _dimensionFactory.Dimension(Constants.Dimension.MOLAR_AMOUNT)).Returns(_amountDimension);
A.CallTo(() => _formulaMapper.MapFrom(_moleculeBuilder.DefaultStartFormula, _buildConfiguration)).Returns(_mappedFormula);
A.CallTo(() => _parameterMapper.MapFrom(_parameterBuilder1, _buildConfiguration)).Returns(_para1);
A.CallTo(() => _parameterMapper.MapFrom(_parameterBuilder2, _buildConfiguration)).Returns(_para2);
A.CallTo(() => _parameterMapper.MapFrom(_parameterBuilder3, _buildConfiguration)).Returns(_para3);
}
protected override void Context()
{
base.Context();
_moleculeBuildingBlock = new MoleculeBuildingBlock();
sut.Edit(_moleculeBuildingBlock);
_moleculeBuilder = new MoleculeBuilder();
_moleculeBuildingBlock.Add(_moleculeBuilder);
_parameter = new Parameter();
_moleculeBuilder.AddParameter(_parameter);
}
protected override void Context()
{
base.Context();
_returnedBuildingBlocks = new List <IBuildingBlock>();
_childReactionBuilder = new ReactionBuilder().WithName("Test").WithId("FindME");
_reactionParameter = new Parameter().WithName("Para").WithId("ReactionPara");
_childReactionBuilder.AddParameter(_reactionParameter);
_reactionBuildingBlock = new MoBiReactionBuildingBlock()
{
_childReactionBuilder
};
_allBuildingBlocks.Add(_reactionBuildingBlock);
_moleculeBuilder = new MoleculeBuilder();
_moleculeParameter = new Parameter().WithName("para");
_moleculeBuilder.AddParameter(_moleculeParameter);
_moleculeBuildingBlock = new MoleculeBuildingBlock()
{
_moleculeBuilder
};
_allBuildingBlocks.Add(_moleculeBuildingBlock);
_passiveTranportBuilder = new TransportBuilder();
_passiveTransportParameter = new Parameter().WithName("PTParameter");
_passiveTranportBuilder.AddParameter(_passiveTransportParameter);
_passiveTranportBuildingBlock = new PassiveTransportBuildingBlock()
{
_passiveTranportBuilder
};
_allBuildingBlocks.Add(_passiveTranportBuildingBlock);
_applicationBuilder = new ApplicationBuilder();
_eventGroupBuildingBlock = new EventGroupBuildingBlock()
{
_applicationBuilder
};
_applicationBuilderParameter = new ApplicationBuilder().WithName("AppParameter");
_applicationBuilder.Add(_applicationBuilderParameter);
_allBuildingBlocks.Add(_eventGroupBuildingBlock);
_parameter = new Parameter().WithName("Para");
var container = new Container().WithName("Cont");
container.Add(_parameter);
_objectBaseFactory = A.Fake <IObjectBaseFactory>();
_parameterFactory = A.Fake <IParameterFactory>();
A.CallTo(() => _objectBaseFactory.Create <IContainer>()).Returns(new Container());
A.CallTo(() => _objectBaseFactory.Create <IMoBiSpatialStructure>()).Returns(new MoBiSpatialStructure());
var diagramManagerFactory = A.Fake <IDiagramManagerFactory>();
_spatialStructure = new MoBiSpatialStructureFactory(_objectBaseFactory, _parameterFactory, A.Fake <IIconRepository>(), diagramManagerFactory).Create() as IMoBiSpatialStructure;
_spatialStructure.AddTopContainer(container);
_allBuildingBlocks.Add(_spatialStructure);
_formula = new ExplicitFormula();
_moleculeBuildingBlock.AddFormula(_formula);
}
protected override void Context()
{
_moleculeBuildingBlock = new MoleculeBuildingBlock();
_molecule1 = new MoleculeBuilder {
Name = "M1", IsFloating = true
};
_molecule2 = new MoleculeBuilder {
Name = "M2", IsFloating = true
};
_molecule3 = new MoleculeBuilder {
Name = "M3", IsFloating = false
};
_moleculeBuildingBlock.Add(_molecule1);
_moleculeBuildingBlock.Add(_molecule2);
_moleculeBuildingBlock.Add(_molecule3);
_validParameter = new Parameter().WithFormula(new ConstantFormula(5)).WithName("_validParameter");
_invalidParameter = new Parameter().WithFormula(new ConstantFormula(double.NaN)).WithName("_invalidParameter");
_invalidParameterWithFormula = new Parameter().WithFormula(new ExplicitFormula("0/0")).WithName("_invalidParameterWithFormula");
_molecule3.AddParameter(_invalidParameter);
sut = new MoleculeBuildingBlockValidator();
}
protected override void Context()
{
base.Context();
_simulation = new MoBiSimulation();
_simModelManager = A.Fake <ISimModelManager>();
_outputSelections = new OutputSelections();
_drug = new MoleculeBuilder().WithName("DRUG");
_drug.AddParameter(new Parameter().WithName(AppConstants.Parameters.MOLECULAR_WEIGHT).WithFormula(new ConstantFormula(400)));
_outputSelections.AddOutput(new QuantitySelection("A", QuantityType.Drug));
_simulation.BuildConfiguration = new MoBiBuildConfiguration
{
SimulationSettings = new SimulationSettings
{
OutputSelections = _outputSelections
},
Molecules = new MoleculeBuildingBlock
{
_drug
}
};
A.CallTo(() => _simModelManagerFactory.Create()).Returns(_simModelManager);
_oldResults = new DataRepository("OLD");
_simulation.Results = _oldResults;
_newResults = new DataRepository("NEW");
_simulationResults = new SimulationRunResults(success: true, warnings: Enumerable.Empty <SolverWarning>(), results: _newResults);
A.CallTo(() => _simModelManager.RunSimulation(_simulation)).Returns(_simulationResults);
var baseGrid = new BaseGrid("Time", DomainHelperForSpecs.TimeDimension);
_concentrationColumn = new DataColumn("Drug", DomainHelperForSpecs.ConcentrationDimension, baseGrid);
_fractionColumn = new DataColumn("Fraction", DomainHelperForSpecs.FractionDimension, baseGrid);
_newResults.Add(_concentrationColumn);
_newResults.Add(_fractionColumn);
A.CallTo(() => _keyPathMapper.MoleculeNameFrom(_concentrationColumn)).Returns(_drug.Name);
}
private void addConcentrationParmeterTo(IMoleculeBuilder moleculeBuilder, IFormulaCache formulaCache)
{
var parameter = _parameterFactory.CreateConcentrationParameterIn(formulaCache);
moleculeBuilder.AddParameter(parameter);
}