protected override void Context()
{
base.Context();
var moleculeStartValuesBuildingBlock1 = new MoleculeStartValuesBuildingBlock().WithName("Tada");
var moleculeStartValueA = new MoleculeStartValue().WithName("MSVa");
moleculeStartValueA.ContainerPath = new ObjectPath("Root", "Liver", "Plasma");
var moleculeStartValueB = new MoleculeStartValue().WithName("MSVb");
moleculeStartValueB.ContainerPath = new ObjectPath("Root", "Liver", "Plasma");
moleculeStartValuesBuildingBlock1.Add(moleculeStartValueA);
moleculeStartValuesBuildingBlock1.Add(moleculeStartValueB);
var moleculeStartValuesBuildingBlock2 = new MoleculeStartValuesBuildingBlock().WithName("Tada");
moleculeStartValueA = new MoleculeStartValue().WithName("MSVa");
moleculeStartValueA.ContainerPath = new ObjectPath("Root", "Liver", "Plasma");
moleculeStartValueB = new MoleculeStartValue().WithName("MSVb");
moleculeStartValueB.ContainerPath = new ObjectPath("Root", "Liver", "Cell");
moleculeStartValuesBuildingBlock2.Add(moleculeStartValueA);
moleculeStartValuesBuildingBlock2.Add(moleculeStartValueB);
_object1 = moleculeStartValuesBuildingBlock1;
_object2 = moleculeStartValuesBuildingBlock2;
}
protected override void Context()
{
base.Context();
_buildConfiguration = A.Fake <IMoBiBuildConfiguration>();
_templateStartValuesBuildingBlock = new MoleculeStartValuesBuildingBlock();
_newMoleculeStartValues = new MoleculeStartValuesBuildingBlock();
_buildConfiguration.MoleculeStartValuesInfo = new MoleculeStartValuesBuildingBlockInfo {
BuildingBlock = _templateStartValuesBuildingBlock, TemplateBuildingBlock = _templateStartValuesBuildingBlock
};
A.CallTo(_moleculeStartValuesCreator).WithReturnType <IMoleculeStartValuesBuildingBlock>().Returns(_newMoleculeStartValues);
_newEndogenousValue = new MoleculeStartValue {
ContainerPath = new ObjectPath("Organism", AppConstants.Organs.ENDOGENOUS_IGG, "Plasma"), Name = "M", IsPresent = true
};
_existingEndogenousValue = new MoleculeStartValue {
ContainerPath = new ObjectPath("Organism", AppConstants.Organs.ENDOGENOUS_IGG, "Cell"), Name = "M", IsPresent = true
};
_otherStartValues = new MoleculeStartValue {
ContainerPath = new ObjectPath("Organism", "Liver", "Cell"), Name = "M", IsPresent = true
};
_existingTemplateEndogenousValue = new MoleculeStartValue {
ContainerPath = new ObjectPath("Organism", AppConstants.Organs.ENDOGENOUS_IGG, "Cell"), Name = "M", IsPresent = true
};
_templateStartValuesBuildingBlock.Add(_existingTemplateEndogenousValue);
_newMoleculeStartValues.Add(_newEndogenousValue);
_newMoleculeStartValues.Add(_existingEndogenousValue);
_newMoleculeStartValues.Add(_otherStartValues);
}
protected override void Context()
{
base.Context();
var moleculeStartValuesBuildingBlock1 = new MoleculeStartValuesBuildingBlock().WithName("Tada");
var moleculeStartValueA = new MoleculeStartValue().WithName("MSVa");
moleculeStartValueA.ContainerPath = new ObjectPath("Root", "Liver", "Plasma");
var moleculeStartValueB = new MoleculeStartValue().WithName("MSVb");
moleculeStartValueB.ContainerPath = new ObjectPath("Root", "Liver", "Plasma");
moleculeStartValuesBuildingBlock1.Add(moleculeStartValueA);
moleculeStartValuesBuildingBlock1.Add(moleculeStartValueB);
var moleculeStartValuesBuildingBlock2 = new MoleculeStartValuesBuildingBlock().WithName("Toto");
moleculeStartValueA = new MoleculeStartValue().WithName("MSVa");
moleculeStartValueA.ContainerPath = new ObjectPath("Root", "Liver", "Plasma");
moleculeStartValueB = new MoleculeStartValue().WithName("MSVb");
moleculeStartValueB.ContainerPath = new ObjectPath("Root", "Liver", "Plasma");
moleculeStartValuesBuildingBlock2.Add(moleculeStartValueA);
moleculeStartValuesBuildingBlock2.Add(moleculeStartValueB);
_object1 = moleculeStartValuesBuildingBlock1;
_object2 = moleculeStartValuesBuildingBlock2;
_comparerSettings.OnlyComputingRelevant = false;
}
protected override void Context()
{
base.Context();
_templateMoleculeStartValues = new MoleculeStartValuesBuildingBlock();
A.CallTo(_context.Context.ObjectRepository).WithReturnType <bool>().Returns(true);
var moleculeBuildingBlock = new MoleculeBuildingBlock();
A.CallTo(_context.Context).WithReturnType <IMoleculeBuildingBlock>().Returns(moleculeBuildingBlock);
var spatialStructure = new SpatialStructure();
A.CallTo(_context.Context).WithReturnType <ISpatialStructure>().Returns(spatialStructure);
A.CallTo(() => _moleculeStartValuesCreator.CreateFrom(spatialStructure, moleculeBuildingBlock)).Returns(_templateMoleculeStartValues);
_newEndogenousValue = new MoleculeStartValue {
ContainerPath = new ObjectPath("Organism", AppConstants.Organs.ENDOGENOUS_IGG, "Plasma"), Name = "M", IsPresent = true
};
_existingEndogenousValue = new MoleculeStartValue {
ContainerPath = new ObjectPath("Organism", AppConstants.Organs.ENDOGENOUS_IGG, "Cell"), Name = "M", IsPresent = true
};
_existingTemplateEndogenousValue = new MoleculeStartValue {
ContainerPath = new ObjectPath("Organism", AppConstants.Organs.ENDOGENOUS_IGG, "Cell"), Name = "M", IsPresent = true
};
_templateMoleculeStartValues.Add(_newEndogenousValue);
_templateMoleculeStartValues.Add(_existingTemplateEndogenousValue);
_moleculeStartValueBuildingBlock.Add(_existingEndogenousValue);
}
protected override void Context()
{
base.Context();
A.CallTo(() => _reactionDimensionRetriever.SelectedDimensionMode).Returns(ReactionDimensionMode.ConcentrationBased);
_moleculeStartValue = new MoleculeStartValue {
Formula = new ExplicitFormula("10"), Dimension = DomainHelperForSpecs.ConcentrationDimension
};
}
protected override void Because()
{
_startValue = new MoleculeStartValue {
ContainerPath = new ObjectPath("A", "B")
};
_moleculeStartValueBuildingBlock.Add(_startValue);
sut.EditStartValueContainerPath(_moleculeStartValueBuildingBlock, _startValue, 5, "C");
}
protected override void Context()
{
base.Context();
_dim = DimensionFactoryForSpecs.Factory.Dimension(DimensionFactoryForSpecs.DimensionNames.Mass);
_startValue = new MoleculeStartValue {
Dimension = _dim, StartValue = _targetDisplayValue, DisplayUnit = _dim.Unit("g")
};
}
protected override void Context()
{
base.Context();
_valueOrigin = new ValueOrigin();
_startValue = new MoleculeStartValue {
Name = "startValue"
};
_moleculeStartValueBuildingBlock.Add(_startValue);
sut.Edit(_moleculeStartValueBuildingBlock);
}
protected override void Context()
{
base.Context();
_unit = A.Fake <Unit>();
A.CallTo(() => _reactionDimensionRetriever.SelectedDimensionMode).Returns(ReactionDimensionMode.ConcentrationBased);
_moleculeStartValue = new MoleculeStartValue {
StartValue = 5, Dimension = DomainHelperForSpecs.AmountDimension
};
A.CallTo(() => _displayUnitRetriever.PreferredUnitFor(_moleculeStartValue)).Returns(_unit);
}
protected override void Context()
{
_fakeDimension = A.Fake <IDimension>();
_context = A.Fake <IMoBiContext>();
_buildingBlock = new MoleculeStartValuesBuildingBlock();
_moleculeStartValue = new MoleculeStartValue {
Path = new ObjectPath("path1"), Dimension = _fakeDimension, StartValue = -1, DisplayUnit = new Unit("Dimensionless", 1.0, 1)
};
sut = new AddMoleculeStartValueToBuildingBlockCommand(_buildingBlock, _moleculeStartValue);
A.CallTo(() => _context.Get <IStartValuesBuildingBlock <IMoleculeStartValue> >(A <string> ._)).Returns(_buildingBlock);
}
protected override void Context()
{
base.Context();
var molecule = new MoleculeBuilder {
Name = "Mol", Dimension = Constants.Dimension.NO_DIMENSION
};
var nanStartValue = new MoleculeStartValue {
Name = molecule.Name, StartValue = null, Dimension = Constants.Dimension.NO_DIMENSION
};
_moleculeStartValueBuildingBlock.Add(nanStartValue);
A.CallTo(_moleculeResolver).WithReturnType <IMoleculeBuilder>().Returns(molecule);
}
public void TestSerialization()
{
var x1 = new MoleculeStartValue {
ContainerPath = new ObjectPath("aa", "bb"), Name = "H2", Dimension = new Dimension(new BaseDimensionRepresentation(), Constants.Dimension.AMOUNT, "mol")
};
x1.IsPresent = true;
x1.StartValue = 2.5;
x1.ScaleDivisor = 1e-2;
IMoleculeStartValue x2 = SerializeAndDeserialize(x1);
AssertForSpecs.AreEqualMoleculeStartValue(x1, x2);
}
protected override void Context()
{
base.Context();
var builder = new MoleculeBuilder {
Name = "molecule", Dimension = Constants.Dimension.NO_DIMENSION, DefaultStartFormula = new ExplicitFormula("50")
};
var startValue = new MoleculeStartValue {
Name = builder.Name, StartValue = 45, Dimension = Constants.Dimension.NO_DIMENSION, Formula = null
};
_moleculeStartValueBuildingBlock.Add(startValue);
A.CallTo(() => _cloneManagerForBuildingBlock.Clone(builder.DefaultStartFormula, _moleculeStartValueBuildingBlock.FormulaCache)).Returns(new ExplicitFormula("M/V"));
A.CallTo(_moleculeResolver).WithReturnType <IMoleculeBuilder>().Returns(builder);
}
protected override void Context()
{
sut = new MoleculeStartValue();
_comparable = new MoleculeStartValue();
sut.IsPresent = true;
_comparable.IsPresent = true;
sut.Path = new ObjectPath("A", "B", "MoleculeName");
_comparable.Path = new ObjectPath("A", "B", "MoleculeName");
sut.ScaleDivisor = 1.0;
_comparable.ScaleDivisor = 1.0;
}
protected override void Context()
{
_fakeDimension = A.Fake <IDimension>();
_context = A.Fake <IMoBiContext>();
_buildingBlock = new MoleculeStartValuesBuildingBlock();
_msv = new MoleculeStartValue {
Path = new ObjectPath("path1"), Dimension = _fakeDimension, StartValue = -1, DisplayUnit = new Unit("Dimensionless", 1.0, 1)
};
_buildingBlock.Add(_msv);
sut = new RemoveMoleculeStartValueFromBuildingBlockCommand(_buildingBlock, _msv.Path);
A.CallTo(() => _context.Get <IStartValuesBuildingBlock <IMoleculeStartValue> >(_buildingBlock.Id)).Returns(_buildingBlock);
}
protected override void Context()
{
base.Context();
var moleculeBuindingBlock = new MoleculeBuildingBlock();
var molecule = new MoleculeBuilder {
Name = "Mol", Dimension = Constants.Dimension.NO_DIMENSION
};
moleculeBuindingBlock.Add(molecule);
_nullStartValue = new MoleculeStartValue {
Name = molecule.Name, StartValue = 1, Dimension = Constants.Dimension.NO_DIMENSION
};
_moleculeStartValueBuildingBlock.Add(_nullStartValue);
A.CallTo(_context.Context).WithReturnType <IMoleculeBuildingBlock>().Returns(moleculeBuindingBlock);
}
public IMoleculeStartValue CreateMoleculeStartValue(IObjectPath containerPath, string moleculeName, IDimension dimension, Unit displayUnit = null, ValueOrigin valueOrigin = null)
{
var msv = new MoleculeStartValue
{
Id = _idGenerator.NewId(),
IsPresent = true,
ContainerPath = containerPath,
Name = moleculeName,
Dimension = dimension,
DisplayUnit = displayUnit ?? dimension.DefaultUnit,
NegativeValuesAllowed = false,
};
msv.ValueOrigin.UpdateAllFrom(valueOrigin);
return(msv);
}
protected override void Context()
{
_fakeDimension = A.Fake <IDimension>();
_context = A.Fake <IMoBiContext>();
_buildingBlock = new MoleculeStartValuesBuildingBlock();
var msv = new MoleculeStartValue {
Path = new ObjectPath("path1"), Dimension = _fakeDimension, StartValue = -1, DisplayUnit = new Unit("Dimensionless", 1.0, 1), IsPresent = false
};
_buildingBlock.Add(msv);
_path = msv.Path;
sut = new UpdateMoleculeStartValueInBuildingBlockCommand(_buildingBlock, _path, 1.0, true, 22.0, true);
A.CallTo(() => _context.Get <IMoleculeStartValuesBuildingBlock>(_buildingBlock.Id)).Returns(_buildingBlock);
}
protected override void Context()
{
base.Context();
var msv1 = new MoleculeStartValue().WithName("Tada").WithFormula(new ConstantFormula(2));
msv1.Path = new ObjectPath("Root", "Liver", "Plasma");
msv1.IsPresent = true;
var msv2 = new MoleculeStartValue().WithName("Tada").WithFormula(new ConstantFormula(2));
msv2.Path = new ObjectPath("Root", "Liver", "Plasma");
msv2.IsPresent = false;
_object1 = msv1;
_object2 = msv2;
}
protected override void Context()
{
_context = A.Fake <IMoBiContext>();
_moleculeStartValue = new MoleculeStartValue {
Path = new ObjectPath("Path1", "Path2", "Name")
};
_buildingBlock = new MoleculeStartValuesBuildingBlock {
_moleculeStartValue
};
sut = new ChangeMoleculeStartValueNameCommand(
_buildingBlock,
_moleculeStartValue.Path,
"Name2");
A.CallTo(() => _context.Get <IMoleculeStartValuesBuildingBlock>(_buildingBlock.Id)).Returns(_buildingBlock);
}
protected override void Context()
{
base.Context();
_project = new MoBiProject();
var molecule = new MoleculeBuilder().WithName(_moleculeName);
var moleculeParameter = new Parameter().WithName(_moleculeParameterName);
molecule.Add(moleculeParameter);
var molecules = new MoleculeBuildingBlock()
{
molecule
};
_project.AddBuildingBlock(molecules);
var parameter = new Parameter().WithName(_parameterName);
var root = new Container().WithName("Root");
root.Add(parameter);
var spatialStructure = new MoBiSpatialStructure().WithTopContainer(root);
_project.AddBuildingBlock(spatialStructure);
var reactionBuilder = new ReactionBuilder().WithName(_reactionName);
var reactions = new MoBiReactionBuildingBlock()
{
reactionBuilder
};
_project.AddBuildingBlock(reactions);
var msv = new MoleculeStartValue {
Path = new ObjectPath("A", _msvName)
};
var msv2 = new MoleculeStartValue {
Path = new ObjectPath("A", _moleculeName)
};
var moleculeStartValues = new MoleculeStartValuesBuildingBlock()
{
msv, msv2
};
_project.AddBuildingBlock(moleculeStartValues);
A.CallTo(() => _context.CurrentProject).Returns(_project);
}
protected override void Context()
{
base.Context();
_startValue1 = new MoleculeStartValue {
Name = "startValue1"
};
_startValue2 = new MoleculeStartValue {
Name = "startValue2"
};
_startValue3 = new MoleculeStartValue {
Name = "startValue3"
};
_moleculeStartValueBuildingBlock.Add(_startValue1);
_moleculeStartValueBuildingBlock.Add(_startValue2);
_moleculeStartValueBuildingBlock.Add(_startValue3);
A.CallTo(() => _mapper.MapFrom(_startValue1, _moleculeStartValueBuildingBlock)).Returns(new MoleculeStartValueDTO(_startValue1, _moleculeStartValueBuildingBlock));
A.CallTo(() => _mapper.MapFrom(_startValue2, _moleculeStartValueBuildingBlock)).Returns(new MoleculeStartValueDTO(_startValue2, _moleculeStartValueBuildingBlock));
A.CallTo(() => _mapper.MapFrom(_startValue3, _moleculeStartValueBuildingBlock)).Returns(new MoleculeStartValueDTO(_startValue3, _moleculeStartValueBuildingBlock));
sut.Edit(_moleculeStartValueBuildingBlock);
}
protected override void Context()
{
base.Context();
var msv1 = new MoleculeStartValue().WithName("Tada").WithFormula(new ConstantFormula(2));
msv1.Path = new ObjectPath("Root", "Liver", "Plasma");
msv1.IsPresent = true;
msv1.ScaleDivisor = 1;
msv1.ValueOrigin.Description = "DESC1";
var msv2 = new MoleculeStartValue().WithName("Tada").WithFormula(new ConstantFormula(2));
msv2.Path = new ObjectPath("Root", "Liver", "Plasma");
msv2.IsPresent = true;
msv2.ScaleDivisor = 10;
msv2.ValueOrigin.Description = "DESC2";
_object1 = msv1;
_object2 = msv2;
_comparerSettings.ShowValueOrigin = true;
}
protected override void Context()
{
_builder = new MoleculeStartValue();
sut = new MoleculeStartValueToObjectBaseSummaryDTOMapper();
}
protected override void Context()
{
base.Context();
_returnedBuildingBlocks = new List <IBuildingBlock>();
_childReactionBuilder = new ReactionBuilder().WithName("Test").WithId("FindME");
_reactionBuildingBlock = new MoBiReactionBuildingBlock()
{
_childReactionBuilder
};
_allBuildingBlocks.Add(_reactionBuildingBlock);
_moleculeBuilder = new MoleculeBuilder();
_moleculeBuildingBlock = new MoleculeBuildingBlock()
{
_moleculeBuilder
};
_allBuildingBlocks.Add(_moleculeBuildingBlock);
_obseverBuilder = new ObserverBuilder();
_observerBuildingBlock = new ObserverBuildingBlock()
{
_obseverBuilder
};
_allBuildingBlocks.Add(_observerBuildingBlock);
_passiveTranportBuilder = new TransportBuilder();
_passiveTranportBuildingBlock = new PassiveTransportBuildingBlock()
{
_passiveTranportBuilder
};
_allBuildingBlocks.Add(_passiveTranportBuildingBlock);
_applicationBuilder = new ApplicationBuilder();
_eventGroupBuildingBlock = new EventGroupBuildingBlock()
{
_applicationBuilder
};
_allBuildingBlocks.Add(_eventGroupBuildingBlock);
_parameter = new Parameter().WithName("Para");
var container = new Container().WithName("Cont");
container.Add(_parameter);
_objectBaseFactory = A.Fake <IObjectBaseFactory>();
_parmaeterFactory = A.Fake <IParameterFactory>();
A.CallTo(() => _objectBaseFactory.Create <IContainer>()).Returns(A.Fake <IContainer>());
A.CallTo(() => _objectBaseFactory.Create <IMoBiSpatialStructure>()).Returns(new MoBiSpatialStructure());
var diagramManagerFactory = A.Fake <IDiagramManagerFactory>();
_spatialStructure = new MoBiSpatialStructureFactory(_objectBaseFactory, _parmaeterFactory, A.Fake <IconRepository>(), diagramManagerFactory).Create().DowncastTo <IMoBiSpatialStructure>();
_spatialStructure.AddTopContainer(container);
_allBuildingBlocks.Add(_spatialStructure);
_formula = new ExplicitFormula();
_moleculeBuildingBlock.AddFormula(_formula);
_parameterStartValue = new ParameterStartValue {
Path = new ObjectPath {
"test"
}, StartValue = 1, Dimension = A.Fake <IDimension>()
};
_parameterStartValueBuildingBlock = new ParameterStartValuesBuildingBlock()
{
_parameterStartValue
};
_allBuildingBlocks.Add(_parameterStartValueBuildingBlock);
_moleculeStartValue = new MoleculeStartValue {
ContainerPath = new ObjectPath {
"test"
}, Name = "drug"
};
_moleculeStartValuesBuildingBlock = new MoleculeStartValuesBuildingBlock()
{
_moleculeStartValue
};
_allBuildingBlocks.Add(_moleculeStartValuesBuildingBlock);
}
