private String GetBaseId( ProteinDetectionHypothesisType pdh )
{
int i = pdh.id.IndexOf('@');
return i < 0 ? pdh.id : pdh.id.Substring(0,i);
}
private void UpdatePdhCvs( ProteinDetectionHypothesisType pdh, Protein.EvidenceType evidence )
{
List<AbstractParamType> list = new List<AbstractParamType>();
foreach( AbstractParamType item in pdh.Items )
if( !item.name.Contains("PAnalyzer") && !item.name.Contains("leading") )
list.Add( item );
CVParamType ev = new CVParamType(), ld = new CVParamType();
ev.cvRef = "PSI-MS";
ld.cvRef = "PSI-MS";
switch( evidence ) {
case Protein.EvidenceType.Conclusive:
ev.accession = "MS:1002213";
ev.name = "PAnalyzer:conclusive protein";
ld.accession = "MS:1002401";
ld.name = "leading protein";
break;
case Protein.EvidenceType.Indistinguishable:
ev.accession = "MS:1002214";
ev.name = "PAnalyzer:indistinguishable protein";
ld.accession = "MS:1002401";
ld.name = "leading protein";
break;
case Protein.EvidenceType.Group:
ev.accession = "MS:1002216";
ev.name = "PAnalyzer:ambiguous group member";
ld.accession = "MS:1002401";
ld.name = "leading protein";
break;
case Protein.EvidenceType.NonConclusive:
ev.accession = "MS:1002215";
ev.name = "PAnalyzer:non-conclusive protein";
ld.accession = "MS:1002402";
ld.name = "non-leading protein";
break;
default: // filtered
return;
}
list.Add(ld);
list.Add(ev);
pdh.Items = list.ToArray();
}
private ProteinDetectionHypothesisType ClonePDH( ProteinDetectionHypothesisType pdh )
{
ProteinDetectionHypothesisType clon = new ProteinDetectionHypothesisType();
clon.id = pdh.id;
clon.name = pdh.name;
clon.dBSequence_ref = pdh.dBSequence_ref;
clon.passThreshold = pdh.passThreshold;
clon.PeptideHypothesis = pdh.PeptideHypothesis;
clon.Items = pdh.Items;
return clon;
}