private void updateReferenceToIndividualParametersForSurrogateContainer(Individual individual, IndividualMolecule molecule, MoleculeExpressionContainer expressionContainer, IContainer globalMoleculeContainer)
{
string relExpName;
if (expressionContainer.IsBloodCell())
{
relExpName = CoreConstants.Parameters.REL_EXP_BLOOD_CELL;
}
else if (expressionContainer.IsPlasma())
{
relExpName = CoreConstants.Parameters.REL_EXP_PLASMA;
}
else if (expressionContainer.IsVascularEndothelium())
{
relExpName = CoreConstants.Parameters.REL_EXP_VASC_ENDO;
}
else
{
return;
}
var relExpNormName = CoreConstants.Parameters.NormParameterFor(relExpName);
updateFromIndividualParameter(globalMoleculeContainer.Parameter(relExpName), expressionContainer.RelativeExpressionParameter, individual, molecule);
updateFromIndividualParameter(globalMoleculeContainer.Parameter(relExpNormName), expressionContainer.RelativeExpressionNormParameter, individual, molecule);
}
private IEnumerable <IContainer> allContainersFor(Organism organism, IndividualMolecule molecule, IEnumerable <IContainer> allContainers, MoleculeExpressionContainer expressionContainer)
{
if (molecule.MoleculeType == QuantityType.Transporter)
{
return(allContainersForTransporter(organism, molecule.DowncastTo <IndividualTransporter>(), allContainers, expressionContainer.DowncastTo <TransporterExpressionContainer>()));
}
var protein = molecule.DowncastTo <IndividualProtein>();
//plasma always generated
if (expressionContainer.IsPlasma())
{
return(allPlasmaCompartmentsOf(allContainers));
}
switch (protein.TissueLocation)
{
case TissueLocation.ExtracellularMembrane:
if (expressionContainer.IsBloodCell())
{
return(allPlasmaCompartmentsOf(allContainers));
}
if (expressionContainer.IsVascularEndothelium())
{
if (protein.MembraneLocation == MembraneLocation.Apical)
{
return(allPlasmaCompartmentsOf(allContainers));
}
return(allInterstitialCompartmentsOf(allContainers));
}
return(compartmentFor(organism, expressionContainer, CoreConstants.Compartment.Interstitial));
case TissueLocation.Intracellular:
if (expressionContainer.IsBloodCell())
{
return(allBloodCellsCompartmentsOf(allContainers));
}
if (expressionContainer.IsVascularEndothelium())
{
if (protein.IntracellularVascularEndoLocation == IntracellularVascularEndoLocation.Endosomal)
{
return(allEndosomeCompartmentsOf(allContainers));
}
return(allInterstitialCompartmentsOf(allContainers));
}
return(compartmentFor(organism, expressionContainer, CoreConstants.Compartment.Intracellular));
case TissueLocation.Interstitial:
if (expressionContainer.IsBloodCell())
{
return(allBloodCellsCompartmentsOf(allContainers));
}
if (expressionContainer.IsVascularEndothelium())
{
return(allInterstitialCompartmentsOf(allContainers));
}
return(compartmentFor(organism, expressionContainer, CoreConstants.Compartment.Interstitial));
default:
throw new ArgumentOutOfRangeException();
}
}