protected override Task Context()
{
_parameterMapper = A.Fake <ParameterMapper>();
_eventMappingFactory = A.Fake <IEventMappingFactory>();
sut = new EventMappingMapper(_parameterMapper, _eventMappingFactory);
_event = new PKSimEvent()
.WithName("E1")
.WithId("EventId");
_eventMapping = new EventMapping
{
TemplateEventId = _event.Id,
StartTime = DomainHelperForSpecs.ConstantParameterWithValue(1)
};
_snapshotEventStartTime1 = new Parameter {
Name = "P1"
};
_project = new PKSimProject();
_project.AddBuildingBlock(_event);
A.CallTo(() => _parameterMapper.MapToSnapshot(_eventMapping.StartTime)).Returns(_snapshotEventStartTime1);
return(_completed);
}
protected override async Task Context()
{
await base.Context();
_parameter.IsDefault = true;
_snapshotParameter = await sut.MapToSnapshot(_parameter);
_snapshotParameter.Value = 50; //50 mm
}
protected override async Task Context()
{
await base.Context();
_parameter.Value = 1;
_parameter.Dimension = Constants.Dimension.NO_DIMENSION;
_parameter.DisplayUnit = Constants.Dimension.NO_DIMENSION.DefaultUnit;
_snapshotParameter = await sut.MapToSnapshot(_parameter);
_parameter.Value = 10;
}
protected override async Task Context()
{
await base.Context();
_container = new Container().WithName("ORG");
_container.Add(_parameter);
_snapshot = new SnapshotParameter
{
Name = "NOT FOUND",
};
}
protected override async Task Context()
{
await base.Context();
_container = new Container().WithName("ORG");
_container.Add(_parameter);
_snapshot = new SnapshotParameter
{
Name = _parameter.Name,
Value = 5,
Unit = _parameter.DisplayUnit.Name
};
}
protected override async Task Context()
{
await base.Context();
_snapshot = await sut.MapToSnapshot(_alternativeWithSpecies);
var newAlternativeWithSpecies = new ParameterAlternativeWithSpecies();
A.CallTo(() => _parameterAlternativeFactory.CreateAlternativeFor(_parameterGroup)).Returns(newAlternativeWithSpecies);
_snapshotParameter = new Parameter {
Name = "P1"
};
_alternativeParameter = DomainHelperForSpecs.ConstantParameterWithValue(1).WithName(_snapshotParameter.Name);
newAlternativeWithSpecies.Add(_alternativeParameter);
_snapshot.Parameters = new[] { _snapshotParameter };
}
protected override async Task Context()
{
await base.Context();
_snapshot = await sut.MapToSnapshot(_alternativeWithSpecies);
var newAlternative = new ParameterAlternative();
A.CallTo(() => _parameterAlternativeFactory.CreateAlternativeFor(_parameterGroup)).Returns(newAlternative);
_parameterGroup.Name = CoreConstants.Groups.COMPOUND_SOLUBILITY;
_snapshotParameter = new Parameter {
Name = CoreConstants.Parameters.SOLUBILITY_TABLE
};
_alternativeParameter = DomainHelperForSpecs.ConstantParameterWithValue(1).WithName(_snapshotParameter.Name);
_alternativeParameter.Formula = new OSPSuite.Core.Domain.Formulas.TableFormula();
newAlternative.Add(_alternativeParameter);
_snapshot.Parameters = new[] { _snapshotParameter };
}
protected override async Task Context()
{
await base.Context();
_parameterValue = 1500;
_parameter.Value = _parameterValue;
_snapshotParameter = await sut.MapToSnapshot(_parameter);
_snapshotParameter.Value = _parameter.ValueInDisplayUnit;
_snapshotParameter.TableFormula = new TableFormula();
var modelTableFormula = new OSPSuite.Core.Domain.Formulas.TableFormula();
A.CallTo(() => _tableFormulaMapper.MapToModel(_snapshotParameter.TableFormula, A <SnapshotContext> ._)).Returns(modelTableFormula);
//Set a first value that is not the parameter value
modelTableFormula.AddPoint(0, 1122);
//set some dummy value to ensure reset
_parameter.Value = 12345;
}
protected override async Task Because()
{
_snapshotParameter = await sut.MapToSnapshot(_parameter);
}
protected override Task Context()
{
_parameterMapper = A.Fake <ParameterMapper>();
_expressionContainerMapper = A.Fake <ExpressionContainerMapper>();
_executionContext = A.Fake <IExecutionContext>();
_individualMoleculeFactoryResolver = A.Fake <IIndividualMoleculeFactoryResolver>();
_ontogenyMapper = A.Fake <OntogenyMapper>();
_ontogenyTask = A.Fake <IOntogenyTask <Individual> >();
_individualMoleculeParametersTask = A.Fake <IMoleculeParameterTask>();
sut = new MoleculeMapper(_parameterMapper, _expressionContainerMapper,
_ontogenyMapper, _individualMoleculeFactoryResolver, _executionContext, _ontogenyTask, _individualMoleculeParametersTask);
_ontogeny = new DatabaseOntogeny
{
Name = "Ontogeny"
};
_enzyme = new IndividualEnzyme
{
Name = "Enzyme",
Description = "Help",
Ontogeny = _ontogeny,
};
_transporter = new IndividualTransporter
{
Name = "Transporter",
Description = "Help"
};
_otherProtein = new IndividualOtherProtein
{
Name = "OtherProtein",
Description = "Help"
};
_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"
};
_enzyme.AddChildren(_expressionContainer1, _expressionContainer2, _enzymeGlobalParameter);
_relativeExpressionParameter1 = DomainHelperForSpecs.ConstantParameterWithValue(0.5).WithName(CoreConstants.Parameters.REL_EXP);
_relativeExpressionParameterNorm1 = DomainHelperForSpecs.ConstantParameterWithValue(1).WithName(CoreConstants.Parameters.REL_EXP_NORM);
_expressionContainer1.Add(_relativeExpressionParameter1);
_expressionContainer1.Add(_relativeExpressionParameterNorm1);
_relativeExpressionParameterNotSet = DomainHelperForSpecs.ConstantParameterWithValue(0).WithName(CoreConstants.Parameters.REL_EXP);
_relativeExpressionParameterNotSetNorm = DomainHelperForSpecs.ConstantParameterWithValue(0).WithName(CoreConstants.Parameters.REL_EXP_NORM);
_expressionContainer2.Add(_relativeExpressionParameterNotSet);
_expressionContainer2.Add(_relativeExpressionParameterNotSetNorm);
_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);
}
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);
}
