protected override void Context()
{
base.Context();
var displayUnitRetriever = IoC.Resolve <IDisplayUnitRetriever>();
var f1 = new ExplicitFormula("CL*conc").WithName("formula");
var r1 = new ReactionBuilder().WithName("Reaction").WithFormula(f1);
r1.AddEduct(new ReactionPartnerBuilder("Drug", 1));
r1.AddEduct(new ReactionPartnerBuilder("Metab", 1));
r1.AddModifier("Cyp");
var concentrationDimension = DomainHelperForSpecs.ConcentrationDimensionForSpecs();
var p1Formula = new ConstantFormula(2).WithDimension(concentrationDimension);
var p11 = new Parameter().WithName("P1").WithFormula(p1Formula).WithParentContainer(r1);
var f2 = new ExplicitFormula("CL*conc").WithName("formula");
var r2 = new ReactionBuilder().WithName("Reaction").WithFormula(f2);
r2.AddEduct(new ReactionPartnerBuilder("Drug", 1));
r2.AddEduct(new ReactionPartnerBuilder("Metab", 1));
r2.AddModifier("Cyp");
var p12Forumla = new ConstantFormula(3).WithDimension(concentrationDimension);
var p12 = new Parameter().WithName("P1").WithFormula(p12Forumla).WithParentContainer(r2);
_object1 = r1;
_object2 = r2;
_preferredUnit = concentrationDimension.Units.ElementAt(0);
A.CallTo(() => displayUnitRetriever.PreferredUnitFor(p1Formula, null)).Returns(_preferredUnit);
A.CallTo(() => displayUnitRetriever.PreferredUnitFor(p12Forumla, null)).Returns(_preferredUnit);
}
protected override void Context()
{
_simulation = new ModelCoreSimulation();
var root = new Container();
root.Add(new EventGroup());
_simulation.Model = new Model();
_simulation.Model.Root = root;
_simulation.BuildConfiguration = new BuildConfiguration();
var reactionBuildingBlock = new ReactionBuildingBlock();
var reactionAtoB = new ReactionBuilder();
var reactionBtoA = new ReactionBuilder();
var partnerA = new ReactionPartnerBuilder("A", 0);
var partnerB = new ReactionPartnerBuilder("B", 0);
//Making both reactions dependent on each other
reactionAtoB.AddProduct(partnerA);
reactionBtoA.AddProduct(partnerB);
reactionAtoB.AddEduct(partnerB);
reactionBtoA.AddEduct(partnerA);
reactionBuildingBlock.Add(reactionAtoB);
reactionBuildingBlock.Add(reactionBtoA);
_simulation.BuildConfiguration.Reactions = reactionBuildingBlock;
}
protected IReactionBuilder CreateReactionForCompoundAndMetabolite(string[] products, params string[] educts)
{
var reaction = new ReactionBuilder();
educts.Each(educt => reaction.AddEduct(new ReactionPartnerBuilder(educt, 1)));
products.Each(product => reaction.AddProduct(new ReactionPartnerBuilder(product, 1)));
return(reaction);
}
protected ReactionBuilder createReaction()
{
var reaction = new ReactionBuilder();
reaction.AddEduct(new ReactionPartnerBuilder("educt", 1.0));
reaction.AddProduct(new ReactionPartnerBuilder("product", 1.0));
reaction.AddModifier("modifier");
return(reaction);
}
protected override void Context()
{
base.Context();
var f1 = new ExplicitFormula("CL*conc").WithName("formula");
var r1 = new ReactionBuilder().WithName("Reaction").WithFormula(f1);
r1.AddEduct(new ReactionPartnerBuilder("Drug", 1));
r1.AddEduct(new ReactionPartnerBuilder("Metab", 1));
r1.AddModifier("Cyp");
var p11 = new Parameter().WithName("P1").WithFormula(new ConstantFormula(2)).WithParentContainer(r1);
var f2 = new ExplicitFormula("CL*conc").WithName("formula");
var r2 = new ReactionBuilder().WithName("Reaction").WithFormula(f2);
r2.AddEduct(new ReactionPartnerBuilder("Drug", 1));
r2.AddEduct(new ReactionPartnerBuilder("Metab2", 1));
r2.AddModifier("Cyp");
var p12 = new Parameter().WithName("P1").WithFormula(new ConstantFormula(2)).WithParentContainer(r2);
_object1 = r1;
_object2 = r2;
}
private IEnumerable <IReactionBuilder> getReactions()
{
var r1 = new ReactionBuilder();
r1.AddEduct(new ReactionPartnerBuilder("C", 2.0));
r1.AddProduct(new ReactionPartnerBuilder("D1", 1.0));
r1.Name = "name";
r1.WithKinetic(new ExplicitFormula("k1*C"));
r1.Description = "description";
yield return(r1);
yield return(A.Fake <IReactionBuilder>());
}
protected override void Context()
{
base.Context();
_reactionBuildingBlock = new MoBiReactionBuildingBlock
{
DiagramModel = new DiagramModel(),
DiagramManager = new MoBiReactionDiagramManager()
};
_moBiReactionDiagramManager = _reactionBuildingBlock.DiagramManager.DowncastTo <IReactionDiagramManager <IMoBiReactionBuildingBlock> >();
_moBiReactionDiagramManager.InitializeWith(_reactionBuildingBlock, A.Fake <IDiagramOptions>());
_molecule = new MoleculeBuilder().WithId("moleculeId").WithName("moleculeName");
_reaction = new ReactionBuilder().WithId("reactionId");
_reaction.AddEduct(new ReactionPartnerBuilder(_molecule.Name, 1.0));
_reactionBuildingBlock.Add(_reaction);
_moBiReactionDiagramManager.AddObjectBase(_reaction);
_moBiReactionDiagramManager.AddMolecule(_reaction, "moleculeName");
_moleculeNode = _moBiReactionDiagramManager.GetMoleculeNodes("moleculeName").FirstOrDefault();
_reactionNode = _moBiReactionDiagramManager.PkModel.DiagramModel.GetAllChildren <ReactionNode>().FirstOrDefault();
_interactionTask = A.Fake <IInteractionTasksForChildren <IMoBiReactionBuildingBlock, IReactionBuilder> >();
_activeSubjectRetriever = A.Fake <IActiveSubjectRetriever>();
var reactionLink = new ReactionLink();
reactionLink.Initialize(ReactionLinkType.Educt, _reactionNode, _moleculeNode);
sut.Edit(_reactionBuildingBlock);
var removeReactionCommand = new RemoveCommandFor <IMoBiReactionBuildingBlock, IReactionBuilder>(_interactionTask, _moBiContext, _activeSubjectRetriever);
A.CallTo(() => _moBiContext.Get <IReactionBuilder>(_reaction.Id)).Returns(_reaction);
A.CallTo(() => _moBiContext.Resolve <RemoveCommandFor <IMoBiReactionBuildingBlock, IReactionBuilder> >()).Returns(removeReactionCommand);
A.CallTo(() => _activeSubjectRetriever.Active <IBuildingBlock>()).Returns(_reactionBuildingBlock);
A.CallTo(() => _interactionTask.Remove(_reaction, _reactionBuildingBlock, _reactionBuildingBlock, A <bool> ._)).Invokes(x => _reactionBuildingBlock.Remove(_reaction));
}