/// <summary>
/// User clicked on a chromatogram.
/// </summary>
public void FireClickedChromatogram(GraphPane graphPane)
{
if (ClickedChromatogram == null)
return;
var clickedItem = (ChromGraphItem) _closestCurve.Tag;
if (clickedItem.TransitionNode == null)
return;
var chromatogramGroupInfo = clickedItem.Chromatogram;
double displayTime = graphPane.CurveList[FULLSCAN_TRACKING_INDEX][0].X;
var retentionTime = clickedItem.GetNearestDisplayTime(displayTime);
if (retentionTime.IsZero)
return;
int scanIndex = MsDataFileScanHelper.FindScanIndex(chromatogramGroupInfo, retentionTime.MeasuredTime);
var transitions = new List<TransitionFullScanInfo>(graphPane.CurveList.Count);
int transitionIndex = 0;
foreach (var curve in GetCurveList(graphPane))
{
var graphItem = (ChromGraphItem) curve.Tag;
if (ReferenceEquals(curve, _closestCurve))
transitionIndex = transitions.Count;
var fullScanInfo = graphItem.FullScanInfo;
transitions.Add(new TransitionFullScanInfo
{
Name = fullScanInfo.ScanName,
Source = fullScanInfo.ChromInfo.Source,
ScanIndexes = fullScanInfo.ChromInfo.ScanIndexes,
Color = curve.Color,
PrecursorMz = fullScanInfo.ChromInfo.PrecursorMz,
ProductMz = fullScanInfo.ChromInfo.ProductMz,
ExtractionWidth = fullScanInfo.ChromInfo.ExtractionWidth,
IonMobilityValue = fullScanInfo.ChromInfo.IonMobilityValue,
IonMobilityExtractionWidth = fullScanInfo.ChromInfo.IonMobilityExtractionWidth,
Id = graphItem.TransitionNode.Id
});
}
IScanProvider scanProvider;
var chorusUrl = FilePath as ChorusUrl;
if (null == chorusUrl)
{
var measuredResults = DocumentUI.Settings.MeasuredResults;
scanProvider = new ScanProvider(_documentContainer.DocumentFilePath, FilePath,
chromatogramGroupInfo.Source, chromatogramGroupInfo.Times, transitions.ToArray(),
() => measuredResults.LoadMSDataFileScanIds(FilePath));
}
else
{
scanProvider = new ChorusScanProvider(_documentContainer.DocumentFilePath, chorusUrl,
chromatogramGroupInfo.Source, chromatogramGroupInfo.Times, transitions.ToArray());
}
var e = new ClickedChromatogramEventArgs(
scanProvider,
transitionIndex,
scanIndex);
ClickedChromatogram(this, e);
}
private bool ProcessMSLevel(MsDataFileUri filePath, int msLevel, IEnumerable<ChromatogramInfo> transitionPointSets,
ChromatogramGroupInfo chromInfo, double? apexRT, TransitionGroupDocNode nodeGroup, LibKey libKey, float tolerance)
{
var transitions = new List<TransitionFullScanInfo>();
var chromSource = (msLevel == 1) ? ChromSource.ms1 : ChromSource.fragment;
foreach (var tranPointSet in transitionPointSets.Where(t => t.Source == chromSource))
{
transitions.Add(new TransitionFullScanInfo
{
//Name = tranPointSet.Header.,
Source = chromSource,
ScanIndexes = chromInfo.ScanIndexes,
PrecursorMz = chromInfo.PrecursorMz,
ProductMz = tranPointSet.ProductMz,
ExtractionWidth = tranPointSet.ExtractionWidth,
//Id = nodeTran.Id
});
}
var chorusUrl = filePath as ChorusUrl;
IScanProvider scanProvider;
if (null == chorusUrl)
{
scanProvider = new ScanProvider(_documentFilePath,
filePath,
chromSource, chromInfo.Times, transitions.ToArray(),
() => _document.Settings.MeasuredResults.LoadMSDataFileScanIds(filePath));
}
else
{
scanProvider = new ChorusScanProvider(_documentFilePath,
chorusUrl,
chromSource, chromInfo.Times, transitions.ToArray());
}
// Across all spectra at the peak retention time, find the one with max total
// intensity for the mz's of interest (ie the isotopic distribution) and note its drift time.
var scanIndex = chromInfo.ScanIndexes != null
? MsDataFileScanHelper.FindScanIndex(chromInfo, apexRT.Value)
: -1;
_msDataFileScanHelper.UpdateScanProvider(scanProvider, 0, scanIndex);
_msDataFileScanHelper.MsDataSpectra = null; // Reset
scanIndex = _msDataFileScanHelper.GetScanIndex();
_msDataFileScanHelper.ScanProvider.SetScanForBackgroundLoad(scanIndex);
lock (this)
{
while (_msDataFileScanHelper.MsDataSpectra == null && _dataFileScanHelperException == null)
{
if (_progressMonitor != null && _progressMonitor.IsCanceled)
return false;
Monitor.Wait(this, 500); // Let background loader do its thing
}
}
if (_dataFileScanHelperException != null)
{
throw new IOException(TextUtil.LineSeparate(Resources.DriftTimeFinder_HandleLoadScanException_Problem_using_results_to_populate_drift_time_library__, _dataFileScanHelperException.Message), _dataFileScanHelperException);
}
if (_progressMonitor != null && !ReferenceEquals(nodeGroup, _currentDisplayedTransitionGroupDocNode))
{
// Do this after scan load so first group after file switch doesn't seem laggy
_progressStatus = _progressStatus.ChangeMessage(TextUtil.LineSeparate(filePath.GetFileName(), nodeGroup.ToString())).
UpdatePercentCompleteProgress(_progressMonitor, _currentStep++, _totalSteps);
_currentDisplayedTransitionGroupDocNode = nodeGroup;
}
EvaluateBestDriftTime(msLevel, libKey, tolerance, transitions);
return true;
}