public PFindModification ParseModification(Dictionary <string, string> parameters)
{
var result = new PFindModification();
result.StaticModification.Modification = parameters["Fixed_modifications"];
result.DynamicModification.Modification = parameters["Variable_modifications"];
return(result);
}
protected void ModifySequence(IdentifiedPeptide mp, Dictionary <int, string> modifications, PFindModification mm)
{
var positions = (from m in modifications
where !mm.StaticModification.ModificationMap.ContainsValue(m.Value)
orderby m.Key descending
select m.Key).ToList();
foreach (var pos in positions)
{
string mod = modifications[pos];
if (this.ModificationCharMap.ContainsKey(mod))
{
if (pos == mp.Sequence.Length)
{
mp.Sequence = mp.Sequence + this.ModificationCharMap[mod].ToString();
}
else
{
mp.Sequence = mp.Sequence.Insert(pos + 1, this.ModificationCharMap[mod].ToString());
}
}
else
{
throw new Exception(MyConvert.Format("Cannot find dynamic modification {0} definition", mod));
}
}
}
protected void AssignModification(IIdentifiedSpectrum mph, Dictionary <int, string> modifications, PFindModification mm)
{
var mods = (from m in modifications
select m.Value).Distinct().ToArray();
mph.Modifications = string.Join("; ", mods);
}
