private async Task <CompoundProcessesSelection> modelProcessSelectionFrom(CompoundProcessSelection[] snapshotProcesses, Model.Compound compound, ISimulationSubject simulationSubject, SnapshotContext snapshotContext)
{
var compoundProcessesSelection = new CompoundProcessesSelection();
if (snapshotProcesses == null)
{
return(compoundProcessesSelection);
}
foreach (var snapshotProcess in snapshotProcesses)
{
var process = compound.ProcessByName(snapshotProcess.Name) ?? notSelectedProcessFrom(snapshotProcess, simulationSubject);
if (process == null)
{
//No process found and a name was specified. This is a snapshot that is corrupted
if (!string.IsNullOrEmpty(snapshotProcess.Name))
{
_logger.AddWarning(PKSimConstants.Error.ProcessNotFoundInCompound(snapshotProcess.Name, compound.Name));
}
continue;
}
await addProcessToProcessSelection(compoundProcessesSelection, snapshotProcess, process, snapshotContext);
}
return(compoundProcessesSelection);
}
private async Task addProcessToProcessSelection(CompoundProcessesSelection compoundProcessesSelection, CompoundProcessSelection compoundProcessSelection, Model.CompoundProcess process)
{
var processSelectionGroup = selectionGroupFor(compoundProcessesSelection, process);
var processSelection = await _processMappingMapper.MapToModel(compoundProcessSelection, process);
processSelectionGroup.AddProcessSelection(processSelection);
}
private async Task addProcessToProcessSelection(CompoundProcessesSelection compoundProcessesSelection, CompoundProcessSelection snapshotCompoundProcessSelection, Model.CompoundProcess process, SnapshotContext snapshotContext)
{
var processSelectionGroup = selectionGroupFor(compoundProcessesSelection, process);
var processContext = new CompoundProcessSnapshotContext(process, snapshotContext);
var processSelection = await _processMappingMapper.MapToModel(snapshotCompoundProcessSelection, processContext);
processSelectionGroup.AddProcessSelection(processSelection);
}
private void addUndefinedProteinForSystemicProcessesToIndividual(CompoundProcessesSelection compoundProcessesSelection)
{
var hepaticPlasmaClearance = compoundProcessesSelection.MetabolizationSelection.ProcessSelectionFor(SystemicProcessTypes.Hepatic);
if (hepaticPlasmaClearance != null)
{
addUndefinedLiver();
}
var biliaryClearance = compoundProcessesSelection.TransportAndExcretionSelection.ProcessSelectionFor(SystemicProcessTypes.Biliary);
if (biliaryClearance != null)
{
addUndefinedLiverTransporter();
}
}
private async Task <CompoundProcessesSelection> modelProcessSelectionFrom(CompoundProcessSelection[] snapshotProcesses, Model.Compound compound)
{
var compoundProcessesSelection = new CompoundProcessesSelection();
if (snapshotProcesses == null)
{
return(compoundProcessesSelection);
}
foreach (var snapshotProcess in snapshotProcesses)
{
var process = compound.ProcessByName(snapshotProcess.Name);
if (process == null)
{
_logger.AddWarning(PKSimConstants.Error.ProcessNotFoundInCompound(snapshotProcess.Name, compound.Name));
}
else
{
await addProcessToProcessSelection(compoundProcessesSelection, snapshotProcess, process);
}
}
return(compoundProcessesSelection);
}
private Task <CompoundProcessSelection[]> snapshotProcessSelectionFrom(CompoundProcessesSelection compoundProcessesSelection)
{
return(_processMappingMapper.MapToSnapshots(compoundProcessesSelection.AllProcesses()));
}
private ProcessSelectionGroup selectionGroupFor(CompoundProcessesSelection compoundProcessesSelection, Model.CompoundProcess process)
{
return(selectionGroup <EnzymaticProcess>(compoundProcessesSelection.MetabolizationSelection, process, SystemicProcessTypes.Hepatic) ??
selectionGroup <TransportPartialProcess>(compoundProcessesSelection.TransportAndExcretionSelection, process, SystemicProcessTypes.GFR, SystemicProcessTypes.Biliary, SystemicProcessTypes.Renal) ??
selectionGroup <SpecificBindingPartialProcess>(compoundProcessesSelection.SpecificBindingSelection, process));
}
