public ICommand ExtractIndividualsFromPopulationCommand(Population population, IndividualExtractionOptions individualExtractionOptions)
{
if (population.IsAnImplementationOf <MoBiPopulation>())
{
throw new PKSimException(PKSimConstants.Error.CannotExtractIndividualFrom(_executionContext.TypeFor(population)));
}
var allPopulationParameters = population.AllVectorialParameters(_entityPathResolver).ToList();
var allDistributedParameters = allPopulationParameters.Where(x => x.Formula.IsDistributed()).ToList();
var allConstantParameters = allPopulationParameters.Where(x => x.Formula.IsConstant()).ToList();
var allRemainingParameters = allPopulationParameters.Except(allConstantParameters).Except(allDistributedParameters);
//Update constant parameters first, then distributed and last all others. This ensures that formula parameters in the extracted individuals are not updated with a constant value
var allParametersOrderedByFormulaType = allConstantParameters.Union(allDistributedParameters).Union(allRemainingParameters).ToList();
var addCommands = individualExtractionOptions.IndividualIds.Distinct()
.Select(individualId => extractIndividualFrom(population, individualId, allParametersOrderedByFormulaType, individualExtractionOptions))
.ToList();
var overallCommand = new PKSimMacroCommand
{
CommandType = PKSimConstants.Command.CommandTypeAdd,
ObjectType = PKSimConstants.ObjectTypes.Population,
Description = PKSimConstants.Command.ExtractingIndividualsDescription(population.Name),
BuildingBlockName = population.Name,
BuildingBlockType = PKSimConstants.ObjectTypes.Population
};
overallCommand.AddRange(addCommands);
return(overallCommand);
}
private string createIndividualName(Population population, int individualId, IndividualExtractionOptions options)
{
var proposedName = options.GenerateIndividualName(population.Name, individualId);
return(_containerTask.CreateUniqueName(_buildingBlockRepository.All <Individual>(), proposedName, canUseBaseName: true));
}
public void ExtractIndividualsFrom(Population population, IndividualExtractionOptions individualExtractionOptions)
{
_executionContext.AddToHistory(ExtractIndividualsFromPopulationCommand(population, individualExtractionOptions));
}
private IPKSimCommand extractIndividualFrom(Population population, int individualId, IEnumerable <IParameter> allParametersOrderedByFormulaType, IndividualExtractionOptions individualExtractionOptions)
{
if (population.NumberOfItems <= individualId)
{
return(new PKSimEmptyCommand());
}
var individual = _executionContext.Clone(population.FirstIndividual)
.WithName(createIndividualName(population, individualId, individualExtractionOptions));
var extractedIndividualParameterCache = new PathCache <IParameter>(_entityPathResolver).For(individual.GetAllChildren <IParameter>());
foreach (var parameter in allParametersOrderedByFormulaType)
{
updateParameterValue(population, individualId, parameter, extractedIndividualParameterCache);
}
var originData = individual.OriginData;
updateOriginDataFromIndividual(individual, originData);
// TODO
// originData.Gender = population.AllGenders[individualId];
// originData.SpeciesPopulation = population.AllRaces[individualId];
return(_individualTask.AddToProject(individual, editBuildingBlock: false, addToHistory: false));
}