private void exportSimulationToFile(Simulation simulation, string moBiFile)
{
_lazyLoadTask.Load(simulation);
if (simulation.IsImported)
{
throw new PKSimException(PKSimConstants.Error.CannotExportAnImportedSimulation);
}
var configuration = _buildConfigurationTask.CreateFor(simulation, shouldValidate: true, createAgingDataInSimulation: false);
var moBiSimulation = _simulationMapper.MapFrom(simulation, configuration, shouldCloneModel: false);
updateObserverForAllFlag(moBiSimulation);
updateRepresentationInfo(moBiSimulation);
updateFormulaIdIn(moBiSimulation);
var simulationTransfer = new SimulationTransfer
{
Simulation = moBiSimulation,
JournalPath = _journalRetriever.JournalFullPath
};
var currentProject = _projectRetriever.CurrentProject;
if (currentProject != null)
{
simulationTransfer.AllObservedData = simulation.UsedObservedData.Select(o => currentProject.ObservedDataBy(o.Id)).ToList();
simulationTransfer.Favorites = currentProject.Favorites;
}
_simulationPersistor.Save(simulationTransfer, moBiFile);
}
protected override void PerformExecute()
{
_lazyLoadTask.Load(Subject);
using (var presenter = _applicationController.Start <IParameterDebugPresenter>())
{
presenter.ShowParametersFor(Subject);
}
}
public DataTable CreatePopulationDataFor(Population population, bool includeUnitsInHeader = false)
{
_lazyLoadTask.Load(population);
var dataTable = new DataTable(population.Name);
dataTable.BeginLoadData();
//Create one column for the parameter path
addCovariates(population, dataTable);
//add advanced parameters
var allAdvancedParameters = population.AllAdvancedParameters(_entityPathResolver).ToList();
var parametersToExport = population.AllVectorialParameters(_entityPathResolver);
//do not take the one that should never be exported
parametersToExport = parametersToExport.Where(p => parameterShouldBeExported(p, allAdvancedParameters));
parametersToExport.Each(p => addParameterToTable(population, dataTable, p, includeUnitsInHeader));
dataTable.EndLoadData();
return(dataTable);
}
public void LoadPopulationAnalysisWorkflowInto(IPopulationDataCollector populationDataCollector)
{
var populationAnalysisWorkflow = _templateTask.LoadFromTemplate <SimulationAnalysisWorkflow>(TemplateType.PopulationSimulationAnalysisWorkflow);
if (populationAnalysisWorkflow == null)
{
return;
}
_lazyLoadTask.Load(populationDataCollector as ILazyLoadable);
populationAnalysisWorkflow.AllAnalyses.Each(x => { _simulationAnalysisCreator.AddSimulationAnalysisTo(populationDataCollector, x); });
var populationSimulation = populationDataCollector as PopulationSimulation;
if (populationSimulation == null)
{
return;
}
populationSimulation.OutputSelections.UpdatePropertiesFrom(populationAnalysisWorkflow.OutputSelections, _cloner);
}
private async Task <bool> exportSimulation(DirectoryInfo originalDirectory, DirectoryInfo afterConversionDirectory, DirectoryInfo newDirectory, DirectoryInfo pkmlOldDirectory, DirectoryInfo pkmlNewDirectory, IndividualSimulation simulation, IPKSimProject project)
{
_lazyLoadTask.Load(simulation);
if (!simulation.HasResults)
{
return(warn($"No results found for simulation '{simulation.Name}'"));
}
if (!simulation.HasUpToDateResults)
{
return(warn($"Results not up to date in simulation '{simulation.Name}'"));
}
if (simulation.IsImported)
{
return(warn($"Imported simulation '{simulation.Name}' cannot be exported"));
}
await exportSimulationToPkml(pkmlOldDirectory, project.Name, simulation);
await exportSimulationResultsToCSV(originalDirectory, project.Name, simulation, "old");
await runSimulation(simulation);
await exportSimulationResultsToCSV(afterConversionDirectory, project.Name, simulation, "new");
IndividualSimulation otherSimulation = null;
try
{
_logger.AddDebug($"Creating simulation based on old building blocks for '{simulation.Name}'");
otherSimulation = await createNewSimulationBasedOn(simulation, project);
await runSimulation(simulation);
await exportSimulationResultsToCSV(newDirectory, project.Name, otherSimulation, "new from old bb");
await exportSimulationToPkml(pkmlNewDirectory, project.Name, simulation);
}
finally
{
_executionContext.Unregister(otherSimulation);
}
return(true);
}
private void renameContainerBuildingBlockInSimulation(Simulation simulation, IPKSimBuildingBlock templateBuildingBlock)
{
_lazyLoadTask.Load(simulation);
var usedBuildingBlock = simulation.UsedBuildingBlockByTemplateId(templateBuildingBlock.Id);
foreach (var containerToRename in getContainersToRename(simulation, templateBuildingBlock, usedBuildingBlock.BuildingBlock.Name))
{
containerToRename.Name = _containerTask.CreateUniqueName(containerToRename.ParentContainer, templateBuildingBlock.Name, canUseBaseName: true);
//now some parameters in the simulation might reference parameters defined in the container that was renamed. We need to update
//the formula paths of these parameters
renameFormulaPathReferencingContainerInSimulation(simulation, containerToRename, usedBuildingBlock.BuildingBlock.Name);
//make sure we mark the simulation has changed so that it will be saved
simulation.HasChanged = true;
}
}
public async Task <SimulationMapping> ExportSimulation(Simulation simulation, ExportRunOptions exportRunOptions, PKSimProject project)
{
var projectName = project.Name;
var simulationName = simulation.Name;
var simulationFile = FileHelper.RemoveIllegalCharactersFrom(simulationName);
var simulationFolder = Path.Combine(exportRunOptions.OutputFolder, simulationFile);
DirectoryHelper.CreateDirectory(simulationFolder);
var simulationExport = new SimulationMapping
{
Project = projectName,
Path = simulationFolder,
Simulation = simulationName,
SimulationFile = simulationFile
};
var simulationRunOptions = new SimulationRunOptions();
_lazyLoadTask.Load(simulation);
_lazyLoadTask.LoadResults(simulation);
var simulationExportOptions = new SimulationExportOptions
{
OutputFolder = simulationFolder,
ExportMode = exportRunOptions.ExportMode,
ProjectName = projectName,
};
if (exportRunOptions.RunSimulation)
{
await _simulationExporter.RunAndExport(simulation, simulationRunOptions, simulationExportOptions);
}
else
{
await _simulationExporter.Export(simulation, simulationExportOptions);
}
_logger.AddDebug($"Simulation '{simulationName}' exported to '{simulationFolder}'", projectName);
return(simulationExport);
}
public void Load(ILazyLoadable lazyLoadable)
{
_lazyLoadTask.Load(lazyLoadable);
}
public Task ExportSimulationToCppAsync(Simulation simulation, string outputFolder)
{
_lazyLoadTask.Load(simulation);
return(Task.Run(() => _simModelExporter.ExportCppCode(_coreSimulationMapper.MapFrom(simulation, shouldCloneModel: false), outputFolder, FormulaExportMode.Formula)));
}
