public static QmrrModelAllPeptides GetInstance(ModelLikelihoodFactories modelLikelihoodFactories, string datasetName, OptimizationParameterList qmrrParamsStart, double depth, string hlaFactoryName)
{
QmrrModelAllPeptides aQmrrModelAllPeptides = new QmrrModelAllPeptides();
aQmrrModelAllPeptides.QmrrPartialModelCollection = QmrrPartialModelCollection.GetInstance(modelLikelihoodFactories, datasetName, qmrrParamsStart, hlaFactoryName);
aQmrrModelAllPeptides.BestParamsAndHlaAssignments = BestParamsAndHlaAssignments.GetInstance(modelLikelihoodFactories, qmrrParamsStart, aQmrrModelAllPeptides.QmrrPartialModelCollection, depth);
aQmrrModelAllPeptides.ModelLikelihoodFactories = modelLikelihoodFactories;
return(aQmrrModelAllPeptides);
}
//private BestParamsAndHlaAssignments(OptimizationParameterList qmrrParamsStart)
//{
// QmrrParamsStart = qmrrParamsStart;
// CreateBestParamsSoFar();
// PeptideToBestHlaAssignmentSoFar = null;
//}
public static BestParamsAndHlaAssignments GetInstance(ModelLikelihoodFactories modelLikelihoodFactories, OptimizationParameterList qmrrParamsStart, QmrrPartialModelCollection qmrrPartialModelCollection, double depth)
{
BestParamsAndHlaAssignments aBestParamsAndHlaAssignments = new BestParamsAndHlaAssignments();
aBestParamsAndHlaAssignments.QmrrParamsStart = qmrrParamsStart;
aBestParamsAndHlaAssignments.CreateBestParamsSoFar();
aBestParamsAndHlaAssignments.ModelLikelihoodFactories = modelLikelihoodFactories;
aBestParamsAndHlaAssignments.SearchForBestParamsAndHlaAssignments(qmrrPartialModelCollection, depth);
return(aBestParamsAndHlaAssignments);
}