protected override void Context()
{
sut = new OutputMappingToOutputMappingDTOMapper();
_simulation = A.Fake <ISimulation>();
_availableOutputs = new List <SimulationQuantitySelectionDTO>();
_outputMapping = new OutputMapping();
}
protected override void Context()
{
_view = A.Fake <IParameterIdentificationChartFeedbackView>();
_chartDisplayPresenter = A.Fake <IChartDisplayPresenter>();
_dimensionFactory = A.Fake <IDimensionFactory>();
_predictedVsObservedChartService = A.Fake <IPredictedVsObservedChartService>();
_displayUnitRetriever = A.Fake <IDisplayUnitRetriever>();
_parameterIdentification = A.Fake <ParameterIdentification>();
_observationColumns = new List <DataColumn>();
_curveList = new List <Curve>();
_baseGrid = DomainHelperForSpecs.ObservedData().BaseGrid;
_outputMapping = new OutputMapping();
sut = new ParameterIdentificationPredictedVsObservedFeedbackPresenter(_view, _chartDisplayPresenter, _dimensionFactory, _displayUnitRetriever, _predictedVsObservedChartService);
A.CallTo(() => _parameterIdentification.AllOutputMappings).Returns(new[] { _outputMapping });
A.CallTo(() => _parameterIdentification.AllObservationColumnsFor(A <string> ._)).Returns(_observationColumns);
_observationColumns.Add(new DataColumn());
_observationColumns.Add(new DataColumn());
A.CallTo(() => _predictedVsObservedChartService.AddCurvesFor(_observationColumns, A <DataColumn> ._, A <ParameterIdentificationPredictedVsObservedChart> ._, A <Action <DataColumn, Curve> > ._)).Invokes(x =>
{
var action = x.Arguments.Get <Action <DataColumn, Curve> >(3);
_observationColumns.Each(observation =>
{
var curve = new Curve {
Name = "Best"
};
action(new DataColumn(ShortGuid.NewGuid(), A.Fake <IDimension>(), _baseGrid), curve);
_curveList.Add(curve);
});
_chart = x.GetArgument <ParameterIdentificationPredictedVsObservedChart>(2);
});
}
private double[] confidanceIntervalFor(OutputMapping outputMapping, Func <Scalings, double, double, double, double> intervalCalculation, bool requiresActiveOutput)
{
var fullOutputPath = outputMapping.FullOutputPath;
var simulationResult = _runResult.BestResult.SimulationResultFor(fullOutputPath);
var residualResults = _runResult.BestResult.ResidualsResult.AllOutputResidualsFor(fullOutputPath);
var jacobian = _runResult.JacobianMatrix;
var outputPartialDerivatives = jacobian.PartialDerivativesFor(fullOutputPath);
var w = meanWeightStrictPositiveFor(residualResults);
if (requiresActiveOutput && w == 0)
{
return(null);
}
var sigmaE = _sigma / w;
var confidenceIntervalValues = new double[simulationResult.Values.Count];
simulationResult.Values.Each((outputValue, index0) =>
{
var partialDerivatives = outputPartialDerivatives.PartialDerivativeAt(index0);
var grad = Matrix <double> .Build.DenseOfColumnArrays(partialDerivatives);
var sigmaPMatrix = grad.Transpose().Multiply(_covP).Multiply(grad);
sigmaPMatrix = sigmaPMatrix.PointwisePower(0.5);
var sigmaP = sigmaPMatrix[0, 0];
confidenceIntervalValues[index0] = intervalCalculation(outputMapping.Scaling, sigmaE, sigmaP, outputValue);
});
return(confidenceIntervalValues);
}
protected override void Context()
{
_view = A.Fake <IParameterIdentificationSimulationSelectionView>();
_treeNodeFactory = A.Fake <ITreeNodeFactory>();
_applicationController = A.Fake <IApplicationController>();
_lazyLoadTask = A.Fake <ILazyLoadTask>();
_treeNodeContextMenuFactory = A.Fake <ITreeNodeContextMenuFactory>();
_multipleTreeNodeContextMenuFactory = A.Fake <IMultipleTreeNodeContextMenuFactory>();
_dialogCreator = A.Fake <IDialogCreator>();
_parameterIdentificationTask = A.Fake <IParameterIdentificationTask>();
sut = new ParameterIdentificationSimulationSelectionPresenter(_view, _treeNodeFactory, _applicationController, _lazyLoadTask, _treeNodeContextMenuFactory,
_multipleTreeNodeContextMenuFactory, _dialogCreator, _parameterIdentificationTask);
_parameterIdentification = new ParameterIdentification();
_simulation = A.Fake <ISimulation>().WithId("Id").WithName("S");
_parameterIdentification.AddSimulation(_simulation);
_outputMapping = new OutputMapping
{
OutputSelection = new SimulationQuantitySelection(_simulation, new QuantitySelection("PATH", QuantityType.Drug))
};
_parameterIdentification.AddOutputMapping(_outputMapping);
_simulationNode = A.Fake <ITreeNode>();
A.CallTo(() => _treeNodeFactory.CreateFor(_simulation)).Returns(_simulationNode);
_simulationSelectionPresenter = A.Fake <ISelectionSimulationPresenter>();
A.CallTo(() => _applicationController.Start <ISelectionSimulationPresenter>()).Returns(_simulationSelectionPresenter);
sut.EditParameterIdentification(_parameterIdentification);
}
public OutputMappingDTO MapFrom(OutputMapping outputMapping, IEnumerable <SimulationQuantitySelectionDTO> allOutputs)
{
return(new OutputMappingDTO(outputMapping)
{
Output = allOutputs.FirstOrDefault(x => matches(outputMapping, x))
});
}
protected override void Context()
{
base.Context();
_outputMapping1 = A.Fake <OutputMapping>();
_outputMapping2 = A.Fake <OutputMapping>();
_outputMapping3 = A.Fake <OutputMapping>();
var observation1 = DomainHelperForSpecs.ObservedData("OBS1");
A.CallTo(() => _outputMapping1.WeightedObservedData.ObservedData).Returns(observation1);
var observation2 = DomainHelperForSpecs.ObservedData("OBS2");
A.CallTo(() => _outputMapping2.WeightedObservedData.ObservedData).Returns(observation2);
var observation3 = DomainHelperForSpecs.ObservedData("OBS3");
A.CallTo(() => _outputMapping3.WeightedObservedData.ObservedData).Returns(observation3);
_outputResiduals1 = new OutputResiduals("OutputPath1", _outputMapping1.WeightedObservedData, new[] { new Residual(11f, 12f, 1), new Residual(21f, 22f, 1) });
_outputResiduals2 = new OutputResiduals("OutputPath2", _outputMapping2.WeightedObservedData, new[] { new Residual(31f, 32f, 1), new Residual(41f, 42f, 1) });
_outputResiduals3 = new OutputResiduals("OutputPath1", _outputMapping3.WeightedObservedData, new[] { new Residual(51f, 52f, 1), new Residual(61f, 62f, 1) });
_residualResults.AddOutputResiduals(_outputResiduals1);
_residualResults.AddOutputResiduals(_outputResiduals2);
_residualResults.AddOutputResiduals(_outputResiduals3);
A.CallTo(() => _outputMapping1.FullOutputPath).Returns("OutputPath1");
A.CallTo(() => _outputMapping2.FullOutputPath).Returns("OutputPath2");
A.CallTo(() => _outputMapping3.FullOutputPath).Returns("OutputPath1");
A.CallTo(() => _parameterIdentification.AllOutputMappings).Returns(new[] { _outputMapping1, _outputMapping2, _outputMapping3 });
A.CallTo(() => _parameterIdentification.AllObservedData).Returns(new[] { observation3, observation1, observation2 });
}
public void AddOutputMapping()
{
var newOutputMapping = new OutputMapping();
_parameterIdentification.AddOutputMapping(newOutputMapping);
_allOutputMappingDTOs.Add(mapFrom(newOutputMapping));
OnStatusChanged();
}
private Func <float, float, float, double> residualMethodFor(OutputMapping outputMapping)
{
if (outputMapping.Scaling == Scalings.Log)
{
return(LogResidual);
}
return(LinResidual);
}
protected void ConfigureOutputMapping(OutputMapping outputMapping)
{
outputMapping.WeightedObservedData = new WeightedObservedData(DomainHelperForSpecs.ObservedData());
var quantity = A.Fake <IQuantity>();
quantity.Dimension = outputMapping.WeightedObservedData.ObservedData.FirstDataColumn().Dimension;
A.CallTo(() => outputMapping.Output).Returns(quantity);
A.CallTo(() => outputMapping.IsValid).Returns(true);
}
protected override void Context()
{
sut = new ParameterIdentification();
_observedData = new WeightedObservedData(DomainHelperForSpecs.ObservedData());
_simulation = A.Fake <ISimulation>().WithName("Sim").WithId("Id");
_quantitySelection = new QuantitySelection("Organism|Liver|Cell|Asprin|Concentration", QuantityType.Drug);
_outputMapping = new OutputMapping {
WeightedObservedData = _observedData, OutputSelection = new SimulationQuantitySelection(_simulation, _quantitySelection)
};
}
public async Task <IActionResult> Put([FromBody] OutputMapping data)
{
return(await ValidateEditOutputMapping(data)
.MapT(async d =>
{
await _outputMappingRepository.UpdateAsync(d);
return d;
})
.ToActionResultAsync());
}
protected override void Context()
{
base.Context();
sut = new ResidualCalculatorForOnlyObservedData(_timeGridRestrictor, _dimensionFactory);
_outputMapping.Scaling = Scalings.Linear;
_outputMapping2 = A.Fake <OutputMapping>();
A.CallTo(() => _outputMapping2.FullOutputPath).Returns(_fullOutputPath);
_observedData2 = DomainHelperForSpecs.ObservedData().WithName("OBS2");
_outputMapping2.WeightedObservedData = new WeightedObservedData(_observedData2);
_outputMappings.Add(_outputMapping2);
}
protected override void Context()
{
_observedData = DomainHelperForSpecs.ObservedData("TOTO");
_outputMapping = new OutputMapping {
WeightedObservedData = new WeightedObservedData(_observedData)
{
Id = 5
}
};
_outputMappingDTO = new OutputMappingDTO(_outputMapping);
sut = new WeightedObservedDataFormatter(_outputMappingDTO);
}
public IMergeDataBuilderOutputFinal Output(OutputMapping <TTable> mapping)
{
var outputSetter = new OutputSetter();
mapping.AssertArgumentNotNull(nameof(mapping)).Invoke(this._table, this._sourceTableAlias, outputSetter);
var cols = outputSetter.Columns.AssertNotEmpty("Output column list cannot be empty");
this._output = new ExprOutput(cols);
return(this);
}
public virtual void EditParameterIdentification(ParameterIdentification parameterIdentification)
{
_parameterIdentification = parameterIdentification;
_selectedOutput = parameterIdentification.AllOutputMappings.First();
_bestRepository = CreateRepositoryFor(Captions.ParameterIdentification.Best);
_bestColumn = _bestRepository.FirstDataColumn();
_currentRepository = CreateRepositoryFor(Captions.ParameterIdentification.Current);
_currentColumn = _currentRepository.FirstDataColumn();
AddBestAndCurrent();
UpdateChartAxesScalings();
}
private void validateScalingForSharedOutputMappings(OutputMapping mapping, ParameterIdentification parameterIdentification, ValidationResult validationResult)
{
var allOutputScalings = scalingsMappedForOutput(mapping, parameterIdentification);
if (allOutputScalings.Count() == 1)
{
return;
}
var displayPathAsString = _fullPathDisplayResolver.FullPathFor(parameterIdentification, addSimulationName: true);
validationResult.AddMessage(NotificationType.Error, parameterIdentification, Error.OutputsDoNotAllHaveTheSameScaling(displayPathAsString));
}
protected override void Context()
{
_newSimulation = A.Fake <ISimulation>();
_oldSimulation = A.Fake <ISimulation>();
_parameterIdentification = A.Fake <ParameterIdentification>();
_outputMapping = A.Fake <OutputMapping>();
_outputMappings = new[] { _outputMapping };
_identificationParameter = new IdentificationParameter();
_linkedParameter = new ParameterSelection(_oldSimulation, "parameter|path");
A.CallTo(() => _outputMapping.UsesSimulation(_oldSimulation)).Returns(true);
sut = new ParameterIdentificationSimulationSwapValidator(new SimulationQuantitySelectionFinder());
}
protected override void Context()
{
_presentationSettingsTask = A.Fake <IPresentationSettingsTask>();
_view = A.Fake <IParameterIdentificationMultipleRunsAnalysisView>();
_chartEditorAndDisplayPresenter = A.Fake <IChartEditorAndDisplayPresenter>();
_curveNamer = A.Fake <ICurveNamer>();
_pathElementsMapper = A.Fake <IDataColumnToPathElementsMapper>();
_chartTemplatingTask = A.Fake <IChartTemplatingTask>();
_dimensionFactory = A.Fake <IDimensionFactory>();
_displayUnitRetriever = A.Fake <IDisplayUnitRetriever>();
_chartEditorLayoutTask = A.Fake <IChartEditorLayoutTask>();
_projectRetreiver = A.Fake <IProjectRetriever>();
_chartPresenterContext = A.Fake <ChartPresenterContext>();
A.CallTo(() => _chartPresenterContext.EditorAndDisplayPresenter).Returns(_chartEditorAndDisplayPresenter);
A.CallTo(() => _chartPresenterContext.CurveNamer).Returns(_curveNamer);
A.CallTo(() => _chartPresenterContext.DataColumnToPathElementsMapper).Returns(_pathElementsMapper);
A.CallTo(() => _chartPresenterContext.TemplatingTask).Returns(_chartTemplatingTask);
A.CallTo(() => _chartPresenterContext.PresenterSettingsTask).Returns(_presentationSettingsTask);
A.CallTo(() => _chartPresenterContext.DimensionFactory).Returns(_dimensionFactory);
A.CallTo(() => _chartPresenterContext.EditorLayoutTask).Returns(_chartEditorLayoutTask);
A.CallTo(() => _chartPresenterContext.ProjectRetriever).Returns(_projectRetreiver);
sut = new ParameterIdentificationTimeProfileChartPresenter(_view, _chartPresenterContext, _displayUnitRetriever);
_timeProfileAnalysis = new ParameterIdentificationTimeProfileChart();
_outputMapping1 = A.Fake <OutputMapping>();
_outputMapping2 = A.Fake <OutputMapping>();
_observedData1 = DomainHelperForSpecs.ObservedData();
_observedData2 = DomainHelperForSpecs.ObservedData();
A.CallTo(() => _outputMapping1.WeightedObservedData).Returns(new WeightedObservedData(_observedData1));
A.CallTo(() => _outputMapping2.WeightedObservedData).Returns(new WeightedObservedData(_observedData2));
_parameterIdentification = new ParameterIdentification();
_parameterIdentification.AddOutputMapping(_outputMapping1);
_parameterIdentification.AddOutputMapping(_outputMapping2);
_parameterIdentificationRunResult = A.Fake <ParameterIdentificationRunResult>();
_parameterIdentification.AddResult(_parameterIdentificationRunResult);
_optimizationRunResult = new OptimizationRunResult();
_parameterIdentificationRunResult.BestResult = _optimizationRunResult;
_parameterIdentificationRunResult = A.Fake <ParameterIdentificationRunResult>();
_parameterIdentification.AddResult(_parameterIdentificationRunResult);
_optimizationRunResult2 = new OptimizationRunResult();
_parameterIdentificationRunResult.BestResult = _optimizationRunResult2;
}
protected override void Context()
{
base.Context();
_outputMapping2 = A.Fake <OutputMapping>();
A.CallTo(() => _outputMapping2.UsesSimulation(_simulation2)).Returns(true);
_simulation2 = A.Fake <ISimulation>();
_parameterIdentification.AddSimulation(_simulation2);
_parameterIdentification.AddOutputMapping(_outputMapping2);
_modelCoreSimulation2 = A.Fake <IModelCoreSimulation>();
A.CallTo(() => _modelCoreSimulationMapper.MapFrom(_simulation2, true)).Returns(_modelCoreSimulation2);
}
protected void CompareValues(OutputMapping outputMapping, double[] expectedConfidenceIntervals)
{
var calculatedConfidenceIntervals = _confidenceIntervals[outputMapping.FullOutputPath];
double[] expectedValues = expectedConfidenceIntervals;
if (outputMapping.Scaling == Scalings.Log)
{
expectedValues = expectedValues.Select(x => Math.Pow(10, x)).ToArray();
}
calculatedConfidenceIntervals.Length.ShouldBeEqualTo(expectedValues.Length);
for (int i = 0; i < calculatedConfidenceIntervals.Length; i++)
{
calculatedConfidenceIntervals[i].ShouldBeEqualTo(expectedValues[i], 1e-3);
}
}
protected override void Context()
{
_eventPublisher = A.Fake <IEventPublisher>();
_view = A.Fake <IParameterIdentificationWeightedObservedDataCollectorView>();
_applicationController = A.Fake <IApplicationController>();
sut = new ParameterIdentificationWeightedObservedDataCollectorPresenter(_view, _applicationController, _eventPublisher);
_parameterIdentification = new ParameterIdentification();
_weightedObservedData = new WeightedObservedData(DomainHelperForSpecs.ObservedData());
_outputMapping = new OutputMapping {
WeightedObservedData = _weightedObservedData
};
_parameterIdentification.AddOutputMapping(_outputMapping);
_presenter = A.Fake <IParameterIdentificationWeightedObservedDataPresenter>();
A.CallTo(() => _applicationController.Start <IParameterIdentificationWeightedObservedDataPresenter>()).Returns(_presenter);
}
protected override void Context()
{
_newSimulation = A.Fake <ISimulation>();
_oldSimulation = A.Fake <ISimulation>();
_anotherSimulation = A.Fake <ISimulation>();
_parameterIdentification = A.Fake <ParameterIdentification>();
_outputMapping = A.Fake <OutputMapping>();
_outputMappings = new[] { _outputMapping };
_identificationParameter = new IdentificationParameter();
_linkedParameter = new ParameterSelection(_oldSimulation, "parameter|path");
_anotherParameter = new ParameterSelection(_anotherSimulation, "parameter|path");
A.CallTo(() => _parameterIdentification.AllOutputMappingsFor(_oldSimulation)).Returns(_outputMappings);
var simulationQuantitySelectionFinder = new SimulationQuantitySelectionFinder();
sut = new ParameterIdentificationSimulationSwapCorrector(simulationQuantitySelectionFinder);
}
protected override void Context()
{
//Only testing the common behavior of Residual Calculator. Specific tests needs to be written for each calculator implementation
//sut = new ResidualCalculatorForOnlyObservedData(_timeGridRestrictor, _dimensionFactory);
_simulationResults = DomainHelperForSpecs.SimulationDataRepositoryFor("Sim");
_simulationDataColumn = _simulationResults.AllButBaseGrid().First();
_simulationRunResultsList = new List <SimulationRunResults> {
new SimulationRunResults(true, Enumerable.Empty <SolverWarning>(), _simulationResults)
};
_observedData = DomainHelperForSpecs.ObservedDataRepository2WithLLOQ().WithName("Obs");
_observedDataColumn = _observedData.AllButBaseGrid().First();
UpdateObservedDataValues();
_timeGridRestrictor = A.Fake <ITimeGridRestrictor>();
//Returns all values of the observed data array. We do not test the time grid restrictor here!
A.CallTo(_timeGridRestrictor).WithReturnType <IReadOnlyList <int> >().Returns(Enumerable.Range(0, _observedDataColumn.Values.Count).ToList());
_mergedDimension = A.Fake <IDimension>();
_dimensionFactory = A.Fake <IDimensionFactory>();
A.CallTo(() => _dimensionFactory.MergedDimensionFor(_simulationDataColumn)).Returns(_mergedDimension);
_outputMappings = new List <OutputMapping>();
_outputMapping = A.Fake <OutputMapping>();
_fullOutputPath = _simulationDataColumn.QuantityInfo.PathAsString;
A.CallTo(() => _outputMapping.FullOutputPath).Returns(_fullOutputPath);
_outputMapping.Weight = 1f;
_outputMapping.WeightedObservedData = new WeightedObservedData(_observedData);
_weights = _outputMapping.WeightedObservedData.Weights;
_outputMappings.Add(_outputMapping);
for (int i = 0; i < _observedDataColumn.Values.Count; i++)
{
_outputMapping.WeightedObservedData.Weights[i] = 1f;
A.CallTo(() => _mergedDimension.UnitValueToBaseUnitValue(_observedDataColumn.Dimension.BaseUnit, _observedDataColumn.Values[i])).Returns(_observedDataColumn.Values[i]);
}
A.CallTo(() => _mergedDimension.UnitValueToBaseUnitValue(_observedDataColumn.Dimension.BaseUnit, float.NaN)).Returns(float.NaN);
A.CallTo(() => _mergedDimension.UnitValueToBaseUnitValue(_observedDataColumn.Dimension.BaseUnit, _observedDataColumn.DataInfo.LLOQ.Value)).Returns(_observedDataColumn.DataInfo.LLOQ.Value);
}
protected override void Context()
{
base.Context();
_project = A.Fake <IProject>();
_parameterIdentification = new ParameterIdentification();
A.CallTo(() => _executionContext.Project).Returns(_project);
A.CallTo(() => _project.AllParameterIdentifications).Returns(new List <ParameterIdentification> {
_parameterIdentification
});
_simulation = A.Fake <ISimulation>();
_sensitivityAnalysis = new SensitivityAnalysis {
Simulation = _simulation, IsLoaded = true
};
_sensitivityAnalysis.AddSensitivityParameter(new SensitivityParameter());
A.CallTo(() => _project.AllSensitivityAnalyses).Returns(new List <SensitivityAnalysis> {
_sensitivityAnalysis
});
_secondSimulation = A.Fake <ISimulation>();
_parameterIdentification.AddSimulation(_simulation);
_parameterIdentification.AddSimulation(_secondSimulation);
_outputMapping = new OutputMapping {
OutputSelection = new ParameterSelection(_simulation, "a|path")
};
_secondOutputMapping = new OutputMapping {
OutputSelection = new ParameterSelection(_secondSimulation, "a|path")
};
_identificationParameter = new IdentificationParameter();
_linkedParameter = new ParameterSelection(_simulation, "a|path");
_secondLinkedParameter = new ParameterSelection(_secondSimulation, "a|path");
_identificationParameter.AddLinkedParameter(_linkedParameter);
_identificationParameter.AddLinkedParameter(_secondLinkedParameter);
_parameterIdentification.AddIdentificationParameter(_identificationParameter);
_parameterIdentification.AddOutputMapping(_outputMapping);
_parameterIdentification.AddOutputMapping(_secondOutputMapping);
_parameterIdentification.IsLoaded = true;
}
protected override void Context()
{
base.Context();
var otherSimulationDataColumn = new DataColumn("Col", DomainHelperForSpecs.ConcentrationDimensionForSpecs(), _simulationDataColumn.BaseGrid)
{
Values = new[] { 0f, 2.5f, 0.9f, 0.9f, 0.5f },
DataInfo = { Origin = ColumnOrigins.Calculation },
QuantityInfo = new QuantityInfo("Concentration", new[] { "Sim", "Organism", "Liver", "Plasma", "Concentration" }, QuantityType.Drug)
};
_simulationResults.Add(otherSimulationDataColumn);
_outputMapping2 = A.Fake <OutputMapping>();
A.CallTo(() => _outputMapping2.FullOutputPath).Returns(otherSimulationDataColumn.PathAsString);
var observedData2 = DomainHelperForSpecs.ObservedData().WithName("OBS2");
_outputMapping2.WeightedObservedData = new WeightedObservedData(observedData2);
_outputMappings.Add(_outputMapping2);
sut = new ResidualCalculatorForOnlyObservedData(_timeGridRestrictor, _dimensionFactory);
}
protected override void Context()
{
base.Context();
_runResult = A.Fake <OptimizationRunResult>();
_outputMapping = A.Fake <OutputMapping>();
A.CallTo(() => _outputMapping.FullOutputPath).Returns("A|B|C");
_outputMapping.Scaling = Scalings.Linear;
var outputTime = new BaseGrid("Time", DomainHelperForSpecs.TimeDimensionForSpecs())
{
Values = new [] { 1f, 2f, 3f }
};
_outputValues = new DataColumn("Output", DomainHelperForSpecs.ConcentrationDimensionForSpecs(), outputTime)
{
Values = new[] { 15f, 16f, 17f },
DataInfo = { MolWeight = 150 }
};
A.CallTo(() => _runResult.SimulationResultFor(_outputMapping.FullOutputPath)).Returns(_outputValues);
_confidenceInterval = new[] { 10d, 20d, 30d };
}
protected override void Context()
{
base.Context();
_simulation = A.Fake <ISimulation>();
_project = A.Fake <IProject>();
_parameterIdentification = new ParameterIdentification();
A.CallTo(() => _executionContext.Project).Returns(_project);
A.CallTo(() => _project.AllParameterIdentifications).Returns(new[] { _parameterIdentification });
_parameterIdentification.AddSimulation(_simulation);
_initialObjectPath = new ObjectPath("oldName", "path");
var parameterIdentificationRunResult = new ParameterIdentificationRunResult {
BestResult = new OptimizationRunResult()
};
_simulationDataRepository = DomainHelperForSpecs.SimulationDataRepositoryFor("oldName");
_observationDataRepository = DomainHelperForSpecs.ObservedData();
_observationDataRepository.AllButBaseGrid().Each(x => x.QuantityInfo.Path = _initialObjectPath);
_simulationDataRepository.AllButBaseGrid().Each(x => x.QuantityInfo.Path = _initialObjectPath);
parameterIdentificationRunResult.BestResult.AddResult(_simulationDataRepository);
_residualsResult = new ResidualsResult();
_residualsResult.AddOutputResiduals(_initialObjectPath.PathAsString, _observationDataRepository, new List <Residual> {
new Residual(0, 1, 1)
});
parameterIdentificationRunResult.BestResult.ResidualsResult = _residualsResult;
_parameterIdentification.AddResult(parameterIdentificationRunResult);
var outputMapping = new OutputMapping
{
WeightedObservedData = new WeightedObservedData(_observationDataRepository),
OutputSelection = new ParameterSelection(_simulation, _initialObjectPath.PathAsString)
};
_parameterIdentification.AddOutputMapping(outputMapping);
}
protected override void Context()
{
_view = A.Fake <IParameterIdentificationChartFeedbackView>();
_chartDisplayPresenter = A.Fake <IChartDisplayPresenter>();
_dimensionFactory = A.Fake <IDimensionFactory>();
_displayUnitRetriever = A.Fake <IDisplayUnitRetriever>();
sut = new ParameterIdentificationTimeProfileFeedbackPresenter(_view, _chartDisplayPresenter, _dimensionFactory, _displayUnitRetriever);
_runState = A.Fake <ParameterIdentificationRunState>();
_bestResult = A.Fake <OptimizationRunResult>();
_currentResult = A.Fake <OptimizationRunResult>();
A.CallTo(() => _runState.BestResult).Returns(_bestResult);
A.CallTo(() => _runState.CurrentResult).Returns(_currentResult);
_parameterIdentification = A.Fake <ParameterIdentification>();
_outputMapping1 = A.Fake <OutputMapping>();
_outputMapping2 = A.Fake <OutputMapping>();
_outputMapping3 = A.Fake <OutputMapping>();
A.CallTo(() => _outputMapping1.FullOutputPath).Returns("A|B|C");
A.CallTo(() => _outputMapping2.FullOutputPath).Returns("A|B|C");
A.CallTo(() => _outputMapping3.FullOutputPath).Returns("A|B|C|D");
A.CallTo(() => _parameterIdentification.AllOutputMappings).Returns(new[] { _outputMapping1, _outputMapping2, _outputMapping3 });
var baseGrid1 = new BaseGrid("TimeCol1", DomainHelperForSpecs.TimeDimensionForSpecs());
_obsCol1 = new DataColumn("ObsCol1", DomainHelperForSpecs.ConcentrationDimensionForSpecs(), baseGrid1);
var baseGrid2 = new BaseGrid("TimeCol2", DomainHelperForSpecs.TimeDimensionForSpecs());
_obsCol2 = new DataColumn("ObsCol2", DomainHelperForSpecs.ConcentrationDimensionForSpecs(), baseGrid2);
var baseGrid3 = new BaseGrid("TimeCol3", DomainHelperForSpecs.TimeDimensionForSpecs());
_obsCol3 = new DataColumn("ObsCol3", DomainHelperForSpecs.ConcentrationDimensionForSpecs(), baseGrid3);
A.CallTo(() => _parameterIdentification.AllObservationColumnsFor(_outputMapping1.FullOutputPath)).Returns(new[] { _obsCol1, _obsCol2 });
A.CallTo(() => _parameterIdentification.AllObservationColumnsFor(_outputMapping3.FullOutputPath)).Returns(new[] { _obsCol3 });
}
protected override void Context()
{
base.Context();
_noDimensionColumnForSimulation.Dimension = DomainHelperForSpecs.NoDimension();
_concentrationColumnForSimulation = DomainHelperForSpecs.ConcentrationColumnForSimulation("Simulation", _simulationData.BaseGrid);
_simulationData.Add(_concentrationColumnForSimulation);
_quantityWithNoDimension = A.Fake <IQuantity>();
_quantityWithConcentration = A.Fake <IQuantity>();
A.CallTo(() => _quantityWithNoDimension.Dimension).Returns(DomainHelperForSpecs.NoDimension());
A.CallTo(() => _quantityWithConcentration.Dimension).Returns(DomainHelperForSpecs.ConcentrationDimensionForSpecs());
var simulationQuantitySelection = A.Fake <SimulationQuantitySelection>();
var anotherQuantitySelection = A.Fake <SimulationQuantitySelection>();
var noDimensionOutputMapping = new OutputMapping {
OutputSelection = simulationQuantitySelection
};
var concentrationOutputMapping = new OutputMapping {
OutputSelection = anotherQuantitySelection
};
A.CallTo(() => simulationQuantitySelection.Quantity).Returns(_quantityWithNoDimension);
A.CallTo(() => anotherQuantitySelection.Quantity).Returns(_quantityWithConcentration);
_outputMappings = new[] { noDimensionOutputMapping, concentrationOutputMapping };
A.CallTo(() => _parameterIdentification.AllOutputMappings).Returns(_outputMappings);
_noDimensionDataColumn = _observationData.FirstDataColumn();
_noDimensionDataColumn.Dimension = DomainHelperForSpecs.NoDimension();
_concentrationDataColumn = new DataColumn("newColumn", DomainHelperForSpecs.ConcentrationDimensionForSpecs(), _observationData.BaseGrid);
_observationData.Add(_concentrationDataColumn);
A.CallTo(() => _parameterIdentification.AllObservationColumnsFor(_noDimensionColumnForSimulation.QuantityInfo.PathAsString)).Returns(new List <DataColumn> {
_noDimensionDataColumn, _concentrationDataColumn
});
A.CallTo(() => _parameterIdentification.AllObservedData).Returns(new[] { _observationData });
}
protected override Task Context()
{
sut = new OutputMappingMapper(_logger);
_simulation = A.Fake <Simulation>().WithName("S");
_output = new Observer().WithName("OBS");
_simulation.Model.Root = new Container {
_output
};
_logger = A.Fake <IOSPSuiteLogger>();
_dataRepository = DomainHelperForSpecs.ObservedData("OBS_DATA");
_outputMapping = new OutputMapping
{
Scaling = Scalings.Log,
Weight = 5,
OutputSelection = new SimulationQuantitySelection(_simulation, new QuantitySelection(_output.Name, QuantityType.Observer)),
WeightedObservedData = new WeightedObservedData(_dataRepository)
};
_outputMapping.WeightedObservedData.Weights[1] = 2f;
return(_completed);
}