protected override void Context()
{
base.Context();
sut.Add(new MatchAllCondition());
_descriptorCondition = new MatchTagCondition("tata");
sut.Add(_descriptorCondition);
}
protected override void Context()
{
base.Context();
_context = A.Fake <IMoBiContext>();
_tagCondition = new MatchTagCondition(_oldTag);
_sumFormula.Criteria.Add(_tagCondition);
}
protected override void Context()
{
base.Context();
_entity = new Parameter().WithName("para");
var cond1 = new MatchTagCondition(_entity.Name);
sut.Add(cond1);
}
public void TestSerialization()
{
MatchTagCondition x1 = new MatchTagCondition("Franz");
MatchTagCondition x2 = SerializeAndDeserialize(x1);
AssertForSpecs.AreEqualMatchTagCondition(x2, x1);
}
protected override void Context()
{
base.Context();
_descriptorCondition = new MatchTagCondition("toto");
sut.Add(_descriptorCondition);
_inContainerCondition = new InContainerCondition(_descriptorCondition.Tag);
sut.Add(_inContainerCondition);
sut.Add(new MatchTagCondition("titi"));
}
protected override Task Context()
{
_logger = A.Fake <IOSPSuiteLogger>();
sut = new DescriptorConditionMapper(_logger);
_inContainer = new InContainerCondition("CONT");
_notInContainer = new NotInContainerCondition("NOT_CONT");
_matchAllCondition = new MatchAllCondition();
_notMatchAllCondition = new NotMatchTagCondition("NOT_MATCH");
_notMatchCondition = new MatchTagCondition("MATCH");
return(_completed);
}
/// <summary>
/// Creates a EventGroupBuildingBlock and a EventGroupBuilder.
/// </summary>
internal void CreateEGBandEGBB()
{
EventGroupBuilder = new EventGroupBuilder()
.WithName(SBMLConstants.SBML_EVENTS)
.WithId(SBMLConstants.SBML_EVENTS);
var eventsContainer = GetEventsTopContainer();
if (eventsContainer != null)
{
var matchTag = new MatchTagCondition(eventsContainer.Name);
EventGroupBuilder.SourceCriteria.Add(matchTag);
}
EventGroupBuildingBlock = new EventGroupBuildingBlock()
.WithName(SBMLConstants.SBML_EVENT_BB)
.WithId(SBMLConstants.SBML_EVENT_BB);
EventGroupBuildingBlock.Add(EventGroupBuilder);
}
/// <summary>
/// Imports a SBML Reaction by creating a passive Transport.
/// </summary>
private void CreatePassiveTransport(Reaction sbmlReaction, Model model)
{
var reactant = sbmlReaction.getReactant(0).getSpecies();
var product = sbmlReaction.getProduct(0).getSpecies();
var reactantSpecies = GetSpeciesById(reactant, model);
var productSpecies = GetSpeciesById(product, model);
if (_sbmlInformation.MoleculeInformation.All(info => info.SpeciesIds.TrueForAll(s => s != reactant)))
{
return;
}
if (_sbmlInformation.MoleculeInformation.All(info => info.SpeciesIds.TrueForAll(s => s != product)))
{
return;
}
var molInfoReactant = _sbmlInformation.MoleculeInformation.FirstOrDefault(info => info.SpeciesIds.Contains(reactant));
var molInfoProduct = _sbmlInformation.MoleculeInformation.FirstOrDefault(info => info.SpeciesIds.Contains(product));
if (molInfoProduct == null)
{
return;
}
if (molInfoReactant == null)
{
return;
}
//must be the same Molecule
if (molInfoReactant.GetMoleculeBuilder() != molInfoProduct.GetMoleculeBuilder())
{
CreateErrorMessage();
}
var passiveTransport = ObjectBaseFactory.Create <ITransportBuilder>().WithName(sbmlReaction.getId());
passiveTransport.ForAll = false;
if (molInfoReactant.GetMoleculeBuilderName() == null)
{
return;
}
passiveTransport.MoleculeList.AddMoleculeName(molInfoReactant.GetMoleculeBuilderName());
var reactantCompartment = GetContainerFromCompartment_(molInfoReactant.GetCompartment(reactantSpecies));
var productCompartment = GetContainerFromCompartment_(molInfoProduct.GetCompartment(productSpecies));
if (reactantCompartment != null && productCompartment != null)
{
var reactantMatchTag = new MatchTagCondition(reactantCompartment.Name);
var productMatchTag = new MatchTagCondition(productCompartment.Name);
passiveTransport.SourceCriteria.Add(reactantMatchTag);
passiveTransport.TargetCriteria.Add(productMatchTag);
}
var parameters = CreateLocalParameters(sbmlReaction);
if (parameters != null)
{
parameters.ForEach(passiveTransport.AddParameter);
}
CreateKinetic(sbmlReaction, passiveTransport);
AddNeighbourhood(reactantCompartment, productCompartment, model);
_passiveTransportBuildingBlock.Add(passiveTransport);
}
