protected override void Context()
{
sut = new Converter531To541();
_eventGroubBuildingBlock = new EventGroupBuildingBlock();
_eventGroup = new EventGroupBuilder().WithName("EG");
_rootApplication = new ApplicationBuilder().WithName("App").WithContainerType(ContainerType.Other);
_eventGroubBuildingBlock.Add(_eventGroup);
_eventGroubBuildingBlock.Add(_rootApplication);
_container = new Container().WithName("PSI").WithParentContainer(_eventGroup);
_application = new ApplicationBuilder().WithName("App").WithContainerType(ContainerType.Other).WithParentContainer(_eventGroup);
}
private void createNonApplicationEvents()
{
// group events by the event-building block they are using
var eventBuildingBlockInfos = (from eventMapping in _simulation.EventProperties.EventMappings
let usedBuildingBlock = _simulation.UsedBuildingBlockByTemplateId(eventMapping.TemplateEventId)
let eventBuildingBlock = usedBuildingBlock.BuildingBlock.DowncastTo <PKSimEvent>()
select new { eventBuildingBlock.Id, eventBuildingBlock.TemplateName, eventBuildingBlock.Name })
.Distinct();
// create event groups for each used event-building block
foreach (var eventBuildingBlockInfo in eventBuildingBlockInfos)
{
// get event group template
var templateEventGroup = _eventGroupRepository.FindByName(eventBuildingBlockInfo.TemplateName);
// create new event group
var eventGroup = _cloneManagerForBuildingBlock.Clone(templateEventGroup);
eventGroup.Name = eventBuildingBlockInfo.Name;
eventGroup.RemoveChild(eventGroup.MainSubContainer());
// get building block and eventgroup-template to be used
var eventBuildingBlock = _simulation.UsedBuildingBlockById(eventBuildingBlockInfo.Id);
var eventTemplate = eventBuildingBlock.BuildingBlock.DowncastTo <PKSimEvent>();
// set event group parameter
_parameterSetUpdater.UpdateValuesByName(eventTemplate, eventGroup);
// create subcontainers (event groups) for all events of the same type
int eventIndex = 0; //used for naming of event subcontainers only
foreach (var eventMapping in _simulation.EventProperties.EventMappings.OrderBy(em => em.StartTime.Value))
{
if (!eventMapping.TemplateEventId.Equals(eventBuildingBlock.TemplateId))
{
continue; //event from different template
}
// clone main event subcontainer and set its start time
var mainSubContainer = _cloneManagerForBuildingBlock.Clone(templateEventGroup.MainSubContainer());
eventIndex += 1;
mainSubContainer.Name = $"{eventBuildingBlockInfo.Name}_{eventIndex}";
_parameterSetUpdater.UpdateValue(eventMapping.StartTime, mainSubContainer.StartTime());
eventGroup.Add(mainSubContainer);
}
// update building block ids
_parameterIdUpdater.UpdateBuildingBlockId(eventGroup, eventTemplate);
_eventGroupBuildingBlock.Add(eventGroup);
}
}
protected override void Context()
{
base.Context();
_eventGroupBuildingBlock = new EventGroupBuildingBlock();
_eventGroup = new EventGroupBuilder().WithName("EG");
_eventGroupBuildingBlock.Add(_eventGroup);
var parameter = new Parameter().WithName("P1").WithParentContainer(_eventGroup);
}
protected override void Context()
{
base.Context();
_eventBuildingBlock = new EventGroupBuildingBlock();
var applicationBuilder = new ApplicationBuilder().WithName("App1");
_moleculeBuilder = new ApplicationMoleculeBuilder();
applicationBuilder.AddMolecule(_moleculeBuilder);
_eventBuildingBlock.Add(applicationBuilder);
}
protected override void Context()
{
base.Context();
_eventGroupBuildingBlock = new EventGroupBuildingBlock();
var eventGroup = new EventGroupBuilder().WithName("EG");
_eventGroupBuildingBlock.Add(eventGroup);
var ehcStartEvent = new EventBuilder().WithName(Converter321To331.EHCStartEvent);
eventGroup.Add(ehcStartEvent);
var eabOldStart = new EventAssignmentBuilder().WithName("EAB1").WithFormula(new ExplicitFormula("ln(2) / EHC_Halftime * M * EHC_EjectionFraction"));
eabOldStart.UseAsValue = false;
eabOldStart.ObjectPath = new ObjectPath(new[] { "Organism", "Gallbladder", "Gallbladder emptying rate" });
ehcStartEvent.AddAssignment(eabOldStart);
var assignmentBuilder = new EventAssignmentBuilder().WithName("EAB2").WithFormula(new ExplicitFormula("DontChange"));
assignmentBuilder.ObjectPath = new ObjectPath(new[] { "PATH" });
ehcStartEvent.AddAssignment(assignmentBuilder);
var ehcStopEvent = new EventBuilder().WithName(Converter321To331.EHCStopEvent);
var eabOldStop = new EventAssignmentBuilder().WithName("EAB1").WithFormula(new ConstantFormula(0));
eabOldStop.UseAsValue = false;
eabOldStop.ObjectPath = new ObjectPath(new[] { "Organism", "Gallbladder", "Gallbladder emptying rate" });
ehcStopEvent.AddAssignment(eabOldStop);
assignmentBuilder = new EventAssignmentBuilder().WithName("EAB2").WithFormula(new ExplicitFormula("DontChange"));
assignmentBuilder.ObjectPath = new ObjectPath(new[] { "PATH" });
ehcStopEvent.AddAssignment(assignmentBuilder);
eventGroup.Add(ehcStopEvent);
var protocolSchemaItem = new Container().WithName("ProtocolSchemaItem").WithParentContainer(eventGroup);
_drugMassParameter = new Parameter().WithName("DrugMass").WithParentContainer(protocolSchemaItem).WithValue(1);
applications = new EventGroupBuilder().WithName("Applications");
applications.Add(new Parameter().WithName("TotalDrugMass"));
_eventGroupBuildingBlock.Add(applications);
}
protected override void Context()
{
base.Context();
_eventBuildingBlock = new EventGroupBuildingBlock().WithName("Events");
_applicationBuilder = new ApplicationBuilder().WithName("Tada");
_applicationBuilder.MoleculeName = "B";
_eventBuildingBlock.Add(_applicationBuilder);
_molceuleBuidingBlock = new MoleculeBuildingBlock().WithName("Molecules");
_molceuleBuidingBlock.Add(new MoleculeBuilder().WithName("A"));
_buildConfiguration = new BuildConfiguration();
_buildConfiguration.Molecules = _molceuleBuidingBlock;
_buildConfiguration.MoleculeStartValues = new MoleculeStartValuesBuildingBlock();
_buildConfiguration.Observers = new ObserverBuildingBlock();
_buildConfiguration.ParameterStartValues = new ParameterStartValuesBuildingBlock();
_buildConfiguration.PassiveTransports = new PassiveTransportBuildingBlock();
_buildConfiguration.Reactions = new ReactionBuildingBlock();
_buildConfiguration.SpatialStructure = new SpatialStructure();
_buildConfiguration.EventGroups = _eventBuildingBlock;
}
