public DatabaseOptions(DatabaseOptions source)
{
this.Location = source.Location;
this.AccessNumberPattern = source.AccessNumberPattern;
this.DecoyPattern = source.DecoyPattern;
this.RemovePeptideFromDecoyDB = source.RemovePeptideFromDecoyDB;
this.RemoveContamination = source.RemoveContamination;
this.ContaminationNamePattern = source.ContaminationNamePattern;
this.ContaminationDescriptionPattern = source.ContaminationDescriptionPattern;
}
public BuildSummaryOptions()
{
MergeResult = true;
KeepTopPeptideFromSameEngineButDifferentSearchParameters = true;
SavePeptidesFile = true;
IsSemiPeptideConsiderAsUnique = true;
Database = new DatabaseOptions();
FalseDiscoveryRate = new FalseDiscoveryRateOptions();
Classification = new ClassificationOptions();
PeptideFilter = new PeptideFilterOptions();
DatasetList = new DatasetListOptions();
ConflictType = ResolveSearchEngineConflictTypeFactory.QValue;
MinimumEngineAgreeCount = 1;
PeptideRetrieval = false;
}
public static DatabaseOptions LoadOptions(XElement parentNode)
{
var result = new DatabaseOptions();
result.Load(parentNode);
return result;
}