private void GetModsAfterDeserialization(Dictionary <string, Modification> idToMod)
{
_allModsOneIsNterminus = new Dictionary <int, Modification>();
int currentModStart = 0;
int currentModificationLocation = 1;
bool currentlyReadingMod = false;
int bracketCount = 0;
for (int r = 0; r < FullSequence.Length; r++)
{
char c = FullSequence[r];
if (c == '[')
{
currentlyReadingMod = true;
if (bracketCount == 0)
{
currentModStart = r + 1;
}
bracketCount++;
}
else if (c == ']')
{
string modId = null;
bracketCount--;
if (bracketCount == 0)
{
try
{
//remove the beginning section (e.g. "Fixed", "Variable", "Uniprot")
string modString = FullSequence.Substring(currentModStart, r - currentModStart);
int splitIndex = modString.IndexOf(':');
string modType = modString.Substring(0, splitIndex);
modId = modString.Substring(splitIndex + 1, modString.Length - splitIndex - 1);
}
catch (Exception e)
{
throw new MzLibUtil.MzLibException(
"Error while trying to parse string into peptide: " + e.Message);
}
if (!idToMod.TryGetValue(modId, out Modification mod))
{
throw new MzLibUtil.MzLibException(
"Could not find modification while reading string: " + FullSequence);
}
if (mod.LocationRestriction.Contains("C-terminal.") && r == FullSequence.Length - 1)
{
currentModificationLocation = BaseSequence.Length + 2;
}
_allModsOneIsNterminus.Add(currentModificationLocation, mod);
currentlyReadingMod = false;
}
}
else if (!currentlyReadingMod)
{
currentModificationLocation++;
}
//else do nothing
}
}
public override int GetHashCode()
{
if (DigestionParams == null)
{
return(FullSequence.GetHashCode());
}
else
{
return(FullSequence.GetHashCode() + DigestionParams.Protease.GetHashCode());
}
}
public T GetSegmentValue(int segmentIndex)
{
string[] parts = FullSequence.GetParts(SegmentLength);
return(Converter.Decode(parts[segmentIndex]));
}
