public void AddModelToSimulation(Model.Simulation simulation)
{
_simulationModelCreator.CreateModelFor(simulation);
simulation.Solver.Parameter(Constants.Parameters.ABS_TOL).Value = CoreConstants.DEFAULT_ABS_TOL;
simulation.Solver.Parameter(Constants.Parameters.REL_TOL).Value = CoreConstants.DEFAULT_REL_TOL;
_registrationTask.Register(simulation);
}
private IndividualSimulation createAndRun(Func <ISimulationFactory, IndividualSimulation> individualSimulationCreator)
{
var individualSimulation = individualSimulationCreator(_simulationFactory);
try
{
_registrationTask.Register(individualSimulation);
_simulationEngine.Run(individualSimulation);
}
finally
{
_registrationTask.Unregister(individualSimulation);
}
return(individualSimulation);
}
private void loadObjectBase <T>(T objectToLoad) where T : IObjectBase
{
using (var progressUpdater = _progressManager.Create())
{
progressUpdater.ReportStatusMessage(PKSimConstants.UI.LoadingObject(objectToLoad.Name));
//first unregistered the object to load that might contain dummy objects that should be deleted
_registrationTask.Unregister(objectToLoad);
//load object content
_contentLoader.LoadContentFor(objectToLoad);
_registrationTask.Register(objectToLoad);
//special loading steps for simulation
loadSimulations(objectToLoad as Simulation);
}
}
private void addExpressionProfilesUsedBySimulationSubjectToProject(ISimulationSubject simulationSubject)
{
var project = _projectRetriever.Current;
foreach (var molecule in simulationSubject.AllMolecules())
{
var defaultExpressionProfileName = CoreConstants.ContainerName.ExpressionProfileName(molecule.Name, simulationSubject.Species, simulationSubject.Name);
var expressionProfileName = _containerTask.CreateUniqueName(project.All <ExpressionProfile>(), defaultExpressionProfileName, canUseBaseName: true);
var expressionProfile = _expressionProfileFactory.Create(molecule.GetType(), simulationSubject.Species, molecule.Name);
//Use a unique name in project
expressionProfile.Name = expressionProfileName;
_expressionProfileUpdater.SynchronizeExpressionProfileWithSimulationSubject(expressionProfile, simulationSubject);
//Some parameters are probably marked as FixedValue event thought they have not changed (Formula=>constant) due to change in
//definition of Fraction expressed basolateral going from a constant to a formula. We reset is fixed value and default state
expressionProfile.Individual.AllMoleculeParametersFor(expressionProfile.Molecule)
.Where(x => !x.Visible)
.Where(x => x.IsFixedValue)
.Each(x => x.IsFixedValue = false);
expressionProfile.Individual.AllMoleculeParametersFor(expressionProfile.Molecule)
.Where(x => !x.Editable)
.Where(x => !x.IsDefault)
.Each(x => x.IsDefault = true);
//only add at the end once the expression profile has been updated
simulationSubject.AddExpressionProfile(expressionProfile);
project.AddBuildingBlock(expressionProfile);
_registrationTask.Register(expressionProfile);
_eventPublisher.PublishEvent(new BuildingBlockAddedEvent(expressionProfile, _projectRetriever.Current));
}
_converted = true;
}
public void Register(IWithId objectToRegister)
{
_registrationTask.Register(objectToRegister);
}