private void LoadUpPredictor(string modelName, int eLength, int ncLength, Converter <Hla, Hla> hlaForNormalization)
{
//Load up the predictor
string featurerizerName;
switch (modelName.ToLower())
{
//!!!would be better not to have multiple of these switch statements around - looks like a job for a Class
case "lanliedb03062007":
featurerizerName = "[email protected]";
SampleNEC = NEC.GetInstance("", new string(' ', eLength), "");
HlaFactory = HlaFactory.GetFactory("MixedWithB15AndA68");
SourceDataFileName = "lanlIedb03062007.pos.source.txt";
NameList = new string[] { "LANL", "IEDB" };
break;
default:
SpecialFunctions.CheckCondition(false, "Don't know what featurerizer to use for the model");
featurerizerName = null;
SourceDataFileName = null;
NameList = null;
break;
}
Converter <object, Set <IHashableFeature> > featurizer = FeatureLib.CreateFeaturizer(featurerizerName);
//GeneratorType generatorType = GeneratorType.ComboAndZero6SuperType;
//FeatureSerializer featureSerializer = PositiveNegativeExperimentCollection.GetFeatureSerializer();
//KmerDefinition = kmerDefinition;
//HlaResolution hlaResolution = HlaResolution.ABMixed;
string resourceName = string.Format("maxentModel{0}{1}{2}{3}.xml", modelName.Split('.')[0], SampleNEC.N.Length, SampleNEC.E.Length, SampleNEC.C.Length);
EpitopeLearningDataList = new List <EpitopeLearningDataDupHlaOK>();
using (StreamReader streamReader = Predictor.OpenResource(resourceName))
{
Logistic = (Logistic)FeatureLib.FeatureSerializer.FromXmlStreamReader(streamReader);
//Logistic.FeatureGenerator = EpitopeFeatureGenerator.GetInstance(KmerDefinition, generatorType, featureSerializer).GenerateFeatureSet;
Logistic.FeatureGenerator = FeatureLib.CreateFeaturizer(featurerizerName);
foreach (string name in NameList)
{
EpitopeLearningData epitopeLearningDataX = EpitopeLearningData.GetDbWhole(HlaFactory, SampleNEC.E.Length, name, SourceDataFileName);
Debug.Assert(epitopeLearningDataX.Count > 0, "Expect given data to have some data");
//!!!combine with previous step
EpitopeLearningDataDupHlaOK epitopeLearningData = new EpitopeLearningDataDupHlaOK(epitopeLearningDataX.Name);
foreach (KeyValuePair <Pair <string, Hla>, bool> merAndHlaAndLabel in epitopeLearningDataX)
{
Hla hlaIn = merAndHlaAndLabel.Key.Second;
Hla hlaOut = hlaForNormalization(hlaIn);
Dictionary <Hla, Dictionary <Hla, bool> > hla2ToHlaToLabel = SpecialFunctions.GetValueOrDefault(epitopeLearningData, merAndHlaAndLabel.Key.First);
Dictionary <Hla, bool> hlaToLabel = SpecialFunctions.GetValueOrDefault(hla2ToHlaToLabel, hlaOut);
hlaToLabel.Add(hlaIn, merAndHlaAndLabel.Value);
}
EpitopeLearningDataList.Add(epitopeLearningData);
}
}
HlaForNormalization = hlaForNormalization;
}
/// <summary>
/// Handles the click event of Inspect button
/// </summary>
/// <param name="sender"></param>
/// <param name="e"></param>
private void btnInspect_Click(object sender, EventArgs e)
{
if (string.IsNullOrEmpty(CabFilePath))
{
return;
}
CabUtil cabUtil = new CabUtil();
List <FeatureItem> items = null, siteItems = null;
try
{
string manifestPath = cabUtil.ExtractManifest(CabFilePath, System.IO.Path.GetTempPath());
items = ManifestLib.GetWebFeatures(manifestPath, true);
siteItems = ManifestLib.GetWebFeatures(manifestPath, false);
}
catch (NotValidCabinetException)
{
MessageBox.Show(Constants.invalidCabinet);
}
catch (ManifestNotFoundException)
{
MessageBox.Show(Constants.invalidCabinet);
}
catch (UnauthorizedAccessException)
{
MessageBox.Show(Constants.accessDenied);
}
Constants.SPStatus statusWeb = FeatureLib.ResolveFeatures(items);
Constants.SPStatus statusSite = FeatureLib.ResolveFeatures(siteItems);
BindListBox(cblWebFeatures, items);
BindListBox(cblSiteFeatures, siteItems);
cblWebFeatures.SelectionMode = SelectionMode.None;
cblSiteFeatures.SelectionMode = SelectionMode.None;
if (statusWeb == Constants.SPStatus.Unavailable || statusSite == Constants.SPStatus.Unavailable)
{
lblStatus.Text = Constants.failSP;
}
else if (statusWeb == Constants.SPStatus.Resolved && statusSite == Constants.SPStatus.Resolved)
{
lblStatus.Text = Constants.resolvedStatus;
}
else if (statusWeb == Constants.SPStatus.NotResolved || statusSite == Constants.SPStatus.NotResolved)
{
lblStatus.Text = Constants.unResolvedStatus;
}
CabUtil.DeleteFile(System.IO.Path.GetTempPath());
}