public void Get_solution_domain_service_from_factory()
{
var postData = "{\"forwardSolverType\":\"DistributedPointSourceSDA\",\"solutionDomain\":\"ROfRho\",\"independentAxes\":{\"show\":false,\"first\":\"ρ\",\"second\":\"t\",\"label\":\"t\",\"value\":0.05,\"units\":\"ns\",\"firstUnits\":\"mm\",\"secondUnits\":\"ns\"},\"xAxis\":{\"title\":\"Detector Positions\",\"startLabel\":\"Begin\",\"startLabelUnits\":\"mm\",\"start\":0.5,\"endLabel\":\"End\",\"endLabelUnits\":\"mm\",\"stop\":9.5,\"numberLabel\":\"Number\",\"count\":19},\"opticalProperties\":{\"title\":\"Optical Properties\",\"mua\":0.01,\"musp\":1,\"g\":0.8,\"n\":1.4},\"modelAnalysis\":\"R\",\"noiseValue\":\"0\"}";
var solutionDomainPlotParameters = JsonConvert.DeserializeObject <SolutionDomainPlotParameters>(postData);
_plotFactory = new PlotFactory(_serviceProvider);
var data = _plotFactory.GetPlot(PlotType.SolutionDomain, solutionDomainPlotParameters);
var results = "{\"Id\":\"ROfRho\",\"PlotList\":[{\"Label\":\"DistributedPointSourceSDA μa=0.01 μs'=1\",\"Data\":[[0.5,0.046625597794768131],[1.0,0.020915537635778064],[1.5,0.012316866807976681],[2.0,0.0080842309517170675],[2.5,0.005623379122941038],[3.0,0.0040562789854642293],[3.5,0.0030006454971476613],[4.0,0.0022621931768063925],[4.5,0.0017313878247261138],[5.0,0.001341834630580925],[5.5,0.00105114060787151],[6.0,0.00083118079655800016],[6.5,0.00066274418610378413],[7.0,0.00053240356107749358],[7.5,0.00043059663530889934],[8.0,0.00035040528102366],[8.5,0.00028675569244185416],[9.0,0.000235881710029713],[9.5,0.00019495753939373391]]}]}";
Assert.AreEqual(results, data);
}
public string GetPlotData(SolutionDomainPlotParameters plotParameters)
{
try
{
var msg = _plotFactory.GetPlot(PlotType.SolutionDomain, plotParameters);
return(msg);
}
catch (Exception e)
{
_logger.LogError("An error occurred: {Message}", e.Message);
throw;
}
}
public string GetPlotData(SolutionDomainPlotParameters plotParameters)
{
try
{
var inverseSolver = plotParameters.InverseSolverType;
var initialGuessParams = _parameterTools.GetParametersInOrder(
_parameterTools.GetOpticalPropertiesObject(plotParameters.OpticalProperties),
plotParameters.XAxis.AsEnumerable().ToArray(),
plotParameters.SolutionDomain,
plotParameters.IndependentAxes.Label,
plotParameters.IndependentAxes.Value);
var initialGuessParamsConvert = initialGuessParams.Values.ToArray();
// get measured data from inverse solver analysis component
var measuredPoints = plotParameters.MeasuredData;
var dependentValues = measuredPoints.Select(p => p.Last()).ToArray(); // get y value
var lowerBounds = new double[] { 0, 0, 0, 0 };
var upperBounds = new []
{
double.PositiveInfinity, double.PositiveInfinity, double.PositiveInfinity, double.PositiveInfinity
};
var fit = ComputationFactory.SolveInverse(
plotParameters.InverseSolverType,
plotParameters.OptimizerType,
plotParameters.SolutionDomain,
dependentValues,
dependentValues, // set standard deviation to measured to match WPF
plotParameters.OptimizationParameters,
initialGuessParamsConvert,
lowerBounds,
upperBounds);
var fitops = ComputationFactory.UnFlattenOpticalProperties(fit);
//var fitparms =
// GetParametersInOrder(fitops, independentValues, sd, independentAxis, independentAxisValue);
plotParameters.ForwardSolverType = inverseSolver;
plotParameters.OpticalProperties = fitops[0]; // not sure [0] is always going to work here
plotParameters.NoiseValue = 0;
var msg = _plotFactory.GetPlot(PlotType.SolutionDomain, plotParameters);
return(msg);
}
catch (Exception e)
{
_logger.LogError("An error occurred: {Message}", e.Message);
throw;
}
}
public string GetPlotData(SpectralPlotParameters plotParameters)
{
_logger.LogInformation("Get the plot data for the Spectral Panel");
plotParameters.YAxis = plotParameters.PlotName;
// set up the absorber concentrations
var chromophoreAbsorbers = new List <IChromophoreAbsorber>();
foreach (var absorber in plotParameters.AbsorberConcentration)
{
chromophoreAbsorbers.Add(new ChromophoreAbsorber(Enum.Parse <ChromophoreType>(absorber.Label, true), absorber.Value));
}
// set up the scatterer
IScatterer scatterer;
switch (plotParameters.ScatteringType)
{
case ScatteringType.PowerLaw:
scatterer = plotParameters.PowerLawScatterer;
break;
case ScatteringType.Intralipid:
scatterer = plotParameters.IntralipidScatterer;
break;
case ScatteringType.Mie:
scatterer = plotParameters.MieScatterer;
break;
default:
scatterer = new PowerLawScatterer();
break;
}
// get the wavelength
plotParameters.Wavelengths = plotParameters.XAxis.AsEnumerable().ToArray();
// set up the tissue
plotParameters.Tissue = new Tissue(chromophoreAbsorbers, scatterer, plotParameters.TissueType);
return(_plotFactory.GetPlot(PlotType.Spectral, plotParameters));
}
public void Get_spectral_service_from_factory()
{
var postData = "{\"spectralPlotType\":\"mua\",\"plotName\":\"μa\",\"tissueType\":\"Skin\",\"absorberConcentration\":[{\"label\":\"Hb\",\"value\":28.4,\"units\":\"μM\"},{\"label\":\"HbO2\",\"value\":22.4,\"units\":\"μM\"},{\"label\":\"H2O\",\"value\":0.7,\"units\":\"vol. frac.\"},{\"label\":\"Fat\",\"value\":0,\"units\":\"vol. frac.\"},{\"label\":\"Melanin\",\"value\":0.0051,\"units\":\"vol. frac.\"}],\"bloodConcentration\":{\"totalHb\":50.8,\"bloodVolume\":0.021844,\"stO2\":0.4409448818897638,\"visible\":true},\"scatteringType\":\"PowerLaw\",\"powerLawScatterer\":{\"a\":1.2,\"b\":1.42,\"show\":true},\"intralipidScatterer\":{\"volumeFraction\":0.01,\"show\":false},\"mieScatterer\":{\"particleRadius\":0.5,\"ParticleRefractiveIndexMismatch\":1.4,\"MediumRefractiveIndexMismatch\":1,\"volumeFraction\":0.01,\"show\":false},\"xAxis\":{\"title\":\"Wavelength Range\",\"startLabel\":\"Begin\",\"startLabelUnits\":\"nm\",\"start\":650,\"endLabel\":\"End\",\"endLabelUnits\":\"nm\",\"stop\":1000,\"numberLabel\":\"Number\",\"count\":36}}";
var spectralPlotParameters = JsonConvert.DeserializeObject <SpectralPlotParameters>(postData);
var xAxis = new DoubleRange(650, 1000, 36);
spectralPlotParameters.YAxis = spectralPlotParameters.PlotName;
spectralPlotParameters.Wavelengths = xAxis.AsEnumerable().ToArray();
var chromophoreAbsorbers = new List <IChromophoreAbsorber>();
foreach (var absorber in spectralPlotParameters.AbsorberConcentration)
{
chromophoreAbsorbers.Add(new ChromophoreAbsorber(Enum.Parse <ChromophoreType>(absorber.Label, true), absorber.Value));
}
var scatterer = new PowerLawScatterer(1.2, 1.42);
spectralPlotParameters.Tissue = new Tissue(chromophoreAbsorbers, scatterer, spectralPlotParameters.TissueType);
_plotFactory = new PlotFactory(_serviceProvider);
var data = _plotFactory.GetPlot(PlotType.Spectral, spectralPlotParameters);
var muaResults = "{\"Id\":\"SpectralMua\",\"PlotList\":[{\"Label\":\"Skin μa\",\"Data\":[[650.0,0.16765660516524314],[660.0,0.15671650246614327],[670.0,0.14697135542801],[680.0,0.13799908824769305],[690.0,0.12973522277796562],[700.0,0.12260932419347584],[710.0,0.11583351729772583],[720.0,0.11010170400729173],[730.0,0.10472095509441402],[740.0,0.10129111493244414],[750.0,0.099521779546167088],[760.0,0.096959293661164639],[770.0,0.092068432646702891],[780.0,0.087311046148140767],[790.0,0.082850035254262877],[800.0,0.079106164468758858],[810.0,0.076218507603072],[820.0,0.07371667586209707],[830.0,0.0719944590933807],[840.0,0.070298642060247829],[850.0,0.0683344235938162],[860.0,0.066498798013490928],[870.0,0.06488501473536043],[880.0,0.063512933452956943],[890.0,0.062254209691212314],[900.0,0.061061385509031681],[910.0,0.060018918288031978],[920.0,0.059569360145074537],[930.0,0.060352136653759242],[940.0,0.062968288552839938],[950.0,0.06862831638709066],[960.0,0.07645596009583773],[970.0,0.077403147687485074],[980.0,0.075685057055814575],[990.0,0.071645012147578471],[1000.0,0.066587976157675921]]}]}";
Assert.AreEqual(muaResults, data);
}
public string GetPlotData(SolutionDomainPlotParameters plotParameters)
{
try
{
var inverseSolver = plotParameters.InverseSolverType;
var igparms = GetParametersInOrder(
GetInitialGuessOpticalProperties(plotParameters.OpticalProperties),
plotParameters.XAxis.AsEnumerable().ToArray(),
plotParameters.SolutionDomain.ToString(),
plotParameters.IndependentAxes.Label,
plotParameters.IndependentAxes.Value);
object[] igparmsConvert = igparms.Values.ToArray();
// get measured data from inverse solver analysis component
var measuredPoints = plotParameters.MeasuredData;
var meas = measuredPoints.Select(p => p.Last()).ToArray(); // get y value
var lbs = new double[] { 0, 0, 0, 0 };
var ubs = new double[]
{
double.PositiveInfinity, double.PositiveInfinity, double.PositiveInfinity, double.PositiveInfinity
};
double[] fit = ComputationFactory.SolveInverse(
plotParameters.InverseSolverType,
plotParameters.OptimizerType,
plotParameters.SolutionDomain,
meas,
meas, // set standard deviation to measured to match WPF
plotParameters.OptimizationParameters,
igparmsConvert,
lbs,
ubs);
var fitops = ComputationFactory.UnFlattenOpticalProperties(fit);
//var fitparms =
// GetParametersInOrder(fitops, independentValues, sd, independentAxis, independentAxisValue);
plotParameters.ForwardSolverType = inverseSolver;
plotParameters.OpticalProperties = fitops[0]; // not sure [0] is always going to work here
plotParameters.NoiseValue = 0;
var msg = _plotFactory.GetPlot(PlotType.SolutionDomain, plotParameters);
return(msg);
}
catch (Exception e)
{
_logger.LogError("An error occurred: {Message}", e.Message);
throw;
}
// this needs further development when add in wavelength refer to WPF code
object GetInitialGuessOpticalProperties(OpticalProperties igops)
{
return(new[] { igops });
}
// the following needs to change when Wavelength is added into independent variable list
IDictionary <IndependentVariableAxis, object> GetParametersInOrder(
object opticalProperties, double[] xs, string sd, string independentAxis, double independentValue)
{
// make list of independent vars with independent first then constant
var listIndepVars = new List <IndependentVariableAxis>();
string isConstant = "";
if (sd == "ROfRho")
{
listIndepVars.Add(IndependentVariableAxis.Rho);
}
else if (sd == "ROfRhoAndTime")
{
listIndepVars.Add(IndependentVariableAxis.Rho);
listIndepVars.Add(IndependentVariableAxis.Time);
if (independentAxis == "t")
{
isConstant = "t";
}
else
{
isConstant = "rho";
}
}
else if (sd == "ROfRhoAndFt")
{
listIndepVars.Add(IndependentVariableAxis.Ft);
listIndepVars.Add(IndependentVariableAxis.Rho);
if (independentAxis == "ft")
{
isConstant = "ft";
}
else
{
isConstant = "rho";
}
}
else if (sd == "ROfFx")
{
listIndepVars.Add(IndependentVariableAxis.Fx);
}
else if (sd == "ROfFxAndTime")
{
listIndepVars.Add(IndependentVariableAxis.Time);
listIndepVars.Add(IndependentVariableAxis.Fx);
if (independentAxis == "t")
{
isConstant = "t";
}
else
{
isConstant = "fx";
}
}
else if (sd == "ROfFxAndFt")
{
listIndepVars.Add(IndependentVariableAxis.Ft);
listIndepVars.Add(IndependentVariableAxis.Fx);
if (independentAxis == "ft")
{
isConstant = "ft";
}
else
{
isConstant = "fx";
}
}
// get all parameters in order
var allParameters =
from iva in listIndepVars
where iva != IndependentVariableAxis.Wavelength
orderby GetParameterOrder(iva)
select new KeyValuePair <IndependentVariableAxis, object>(iva,
GetParameterValues(iva, isConstant, independentValue, xs));
// OPs are always first in the list
return
(new KeyValuePair <IndependentVariableAxis, object>(IndependentVariableAxis.Wavelength,
opticalProperties)
.AsEnumerable()
.Concat(allParameters).ToDictionary());
}
int GetParameterOrder(IndependentVariableAxis axis)
{
switch (axis)
{
case IndependentVariableAxis.Wavelength:
return(0);
case IndependentVariableAxis.Rho:
return(1);
case IndependentVariableAxis.Fx:
return(1);
case IndependentVariableAxis.Time:
return(2);
case IndependentVariableAxis.Ft:
return(2);
case IndependentVariableAxis.Z:
return(3);
default:
throw new InvalidEnumArgumentException("There is no Enum of this type");
}
}
// this has commented out code that might come into play when we add wavelength as axis
double[] GetParameterValues(IndependentVariableAxis axis, string isConstant, double independentValue,
double[] xs)
{
if (((axis == IndependentVariableAxis.Rho) && (isConstant == "rho")) ||
((axis == IndependentVariableAxis.Time) && (isConstant == "t")) ||
((axis == IndependentVariableAxis.Fx) && (isConstant == "fx")) ||
((axis == IndependentVariableAxis.Ft) && (isConstant == "ft")))
{
return(new[] { independentValue });
}
else
{
if (axis != IndependentVariableAxis.Time)
{
return(xs.ToArray());
}
else
{
return(xs.ToArray());
}
}
//{
// var positionIndex = 0; //hard-coded for now
// switch (positionIndex)
// {
// case 0:
// default:
// return new[] {independentValue};
//case 1:
//return new[] { SolutionDomainTypeOptionVM.ConstantAxesVMs[1].AxisValue };
//case 2:
// return new[] { SolutionDomainTypeOptionVM.ConstantAxisThreeValue };
//}
//}
//else
//{
// //var numAxes = axis.Count();
// var numAxes = 1;
// var positionIndex = 0; //hard-coded for now
// //var positionIndex = SolutionDomainTypeOptionVM.IndependentVariableAxisOptionVM.SelectedValues.IndexOf(axis);
// switch (numAxes)
// {
// case 1:
// default:
// //return AllRangeVMs[0].Values.ToArray();
// return xs.ToArray();
//case 2:
// switch (positionIndex)
// {
// case 0:
// default:
// return AllRangeVMs[1].Values.ToArray();
// case 1:
// return AllRangeVMs[0].Values.ToArray();
// }
//case 3:
// switch (positionIndex)
// {
// case 0:
// default:
// return AllRangeVMs[2].Values.ToArray();
// case 1:
// return AllRangeVMs[1].Values.ToArray();
// case 2:
// return AllRangeVMs[0].Values.ToArray();
// }
//}
//}
}
}
