protected override void SetScansForMSGenerator(Core.ChromPeak chromPeak, Core.Run run, int numLCScansToSum)
{
if (chromPeak == null || chromPeak.XValue == 0)
{
return;
//throw new NullReferenceException("Trying to use chromPeak to generate mass spectrum, but chrompeak is null");
}
var uimfrun = run as UIMFRun;
var chromPeakScan = (int)Math.Round(chromPeak.XValue);
var bestLCScan = uimfrun.GetClosestMS1Frame(chromPeakScan);
if (numLCScansToSum > 1)
{
throw new NotSupportedException("SmartChrompeakSelector is trying to set which frames are summed. But summing across frames isn't supported yet. Someone needs to add the code");
}
else
{
if (run.CurrentMassTag.MsLevel == 1)
{
var lcscanset = new ScanSet(bestLCScan);
uimfrun.CurrentScanSet = lcscanset;
}
else
{
// TODO: This is hard-coded to work with the "sum all consecutive MS2 frames mode" but we should really look these up by going through the IMSScanCollection
var lcscanset = new ScanSet(bestLCScan + 1, bestLCScan + 1, bestLCScan + uimfrun.GetNumberOfConsecutiveMs2Frames());
uimfrun.CurrentScanSet = lcscanset;
}
// TODO: Hard coded to sum across all IMS Scans.
int centerScan = (uimfrun.MinIMSScan + uimfrun.MaxIMSScan + 1) / 2;
uimfrun.CurrentIMSScanSet = new IMSScanSet(centerScan, uimfrun.MinIMSScan, uimfrun.MaxIMSScan);
}
}
protected override void UpdateResultWithChromPeakAndLCScanInfo(Core.TargetedResultBase result, Core.ChromPeak bestPeak)
{
var uimfRun = result.Run as UIMFRun;
result.ChromPeakSelected = bestPeak;
result.ScanSet = new ScanSet(uimfRun.CurrentScanSet.PrimaryScanNumber);
}
