private void doTraining(CreatePredictorVM vm, IEnumerable <PDBFile> trainingFiles, IDictionary <string, IDictionary <Residue, bool> > referenceInterface, IDictionary <string, IDictionary <string, ProteinGraph> > graphs)
{
var Feature = new AverageHydrophobicityFeature();
var values = new LinkedList <AgO <double, ResidueNode> >();
foreach (var trainingFile in trainingFiles)
{
var req = new RequestRasa(trainingFile);
req.RequestInDefaultContext();
var rasa = req.Rasavalues;
foreach (var entry in graphs[trainingFile.Name])
{
Feature.Compute(entry.Value);
//values.AddRange(entry.Value.Nodes.Select(node => new AgO<double, ResidueNode>(Feature.ValueOf(node.Data.Residue) * rasa[node.Data.Residue], node.D
//)));
}
}
Max = values.Max(v => v.Data1);
//var intervals = values.DivideByScoreAequidistant(val => val.Data1, vm.DivisionIntervals);
//var pts = new LinkedList<AgO<double, double>>();
//for (int i = 0; i < intervals.Length; i++)
//{
// var interval = intervals[i];
// var pt = new AgO<double, double>();
// pt.Data1 = ((double)i + 1) / intervals.Length;
// var iface = (interval.Sum(val => referenceInterface[val.Data2.Residue.PDB.Name][val.Data2.Residue] ? 1.0 : 0.0));
// pt.Data2 = iface / interval.Count();
// pts.Add(pt);
//}
//ValueFunction = new StepFunction(pts);
}
private void doTraining(CreatePredictorVM vm, IEnumerable <PDBFile> trainingFiles, IDictionary <string, IDictionary <Residue, bool> > referenceInterface, IDictionary <string, IDictionary <string, ProteinGraph> > graphs)
{
var Feature = new AverageHydrophobicityFeature();
var values = new LinkedList <AgO <double, ResidueNode> >();
foreach (var trainingFile in trainingFiles)
{
var req = new RequestRasa(trainingFile);
req.RequestInDefaultContext();
var rasa = req.Rasavalues;
foreach (var entry in graphs[trainingFile.Name])
{
Feature.Compute(entry.Value);
//values.AddRange(entry.Value.Nodes.Select(node => new AgO<double, ResidueNode>(Feature.ValueOf(node.Data.Residue) * rasa[node.Data.Residue], node)));
}
}
Max = values.Max(v => v.Data1);
}
public RasaAverageHydrophobicityPredictor(CreatePredictorVM vm)
{
Threshold = vm.Threshold;
logic = new PredictionLogic(doPrediction, doTraining);
this.Name(vm.Name);
}
public static void Train(this IHas <IPredictionLogic> logicHolder, CreatePredictorVM vm, IEnumerable <PDBFile> trainingFiles, IDictionary <string, IDictionary <Residue, bool> > referenceInterface, IDictionary <string, IDictionary <string, ProteinGraph> > graphs)
{
logicHolder.Logic.Train(vm, trainingFiles, referenceInterface, graphs);
}
public void Train(CreatePredictorVM vm, IEnumerable <PDBFile> trainingFiles, IDictionary <string, IDictionary <Residue, bool> > referenceInterface, IDictionary <string, IDictionary <string, ProteinGraph> > graphs)
{
TrainingAction(vm, trainingFiles, referenceInterface, graphs);
TrainingPDBs.AddRange(trainingFiles.Select(file => file.Name));
}
public CreatePredictor(CreatePredictorVM vm)
{
ViewModel = vm;
}