/// <summary>
/// Raises the <see cref="ProcessingComplete"/> event.
/// </summary>
protected virtual void OnProcessingComplete()
{
try
{
ProcessingComplete?.Invoke(this, EventArgs.Empty);
}
catch (Exception ex)
{
// We protect our code from consumer thrown exceptions
OnProcessException(MessageLevel.Info, new InvalidOperationException($"Exception in consumer handler for ProcessingComplete event: {ex.Message}", ex), "ConsumerEventException");
}
}
public override int GetHashCode()
{
int hash = 1;
if (ProcessingComplete != false)
{
hash ^= ProcessingComplete.GetHashCode();
}
if (TextRank.Length != 0)
{
hash ^= TextRank.GetHashCode();
}
if (_unknownFields != null)
{
hash ^= _unknownFields.GetHashCode();
}
return(hash);
}
/// <summary>
/// Examine the spectra in a _DTA.txt file to determine the number of centroided spectra
/// </summary>
/// <param name="concatenatedDtaPath"></param>
/// <returns>True on success, false if an error</returns>
public bool CheckCDTAFile(string concatenatedDtaPath)
{
var dtLastStatusTime = DateTime.UtcNow;
var splitChars = new[] { ' ' };
try
{
if (!File.Exists(concatenatedDtaPath))
{
throw new FileNotFoundException("CDTA file not found: " + concatenatedDtaPath);
}
// Read the m/z values in the _dta.txt file
// Using a simple text reader here for speed purposes
using (var srDtaFile = new StreamReader(new FileStream(concatenatedDtaPath, FileMode.Open, FileAccess.Read, FileShare.ReadWrite)))
{
var lstMZs = new List <double>(2000);
var lstPpmDiffs = new List <double>(2000);
double previousMz = 0;
while (!srDtaFile.EndOfStream)
{
var dataLine = srDtaFile.ReadLine();
if (string.IsNullOrEmpty(dataLine))
{
continue;
}
if (dataLine.StartsWith("============="))
{
// DTA header line
// Process the data for the previous spectrum
CheckPPMDiffs(lstMZs, lstPpmDiffs, 2, eCentroidStatusConstants.Unknown);
// Reset the previous m/z value and skip the next line (since it has parent ion m/z and charge)
if (!srDtaFile.EndOfStream)
{
srDtaFile.ReadLine();
}
previousMz = 0;
lstMZs.Clear();
lstPpmDiffs.Clear();
if (DateTime.UtcNow.Subtract(dtLastStatusTime).TotalSeconds >= 30)
{
ReadingSpectra?.Invoke(TotalSpectra);
dtLastStatusTime = DateTime.UtcNow;
}
continue;
}
var dataColumns = dataLine.Split(splitChars, 3);
if (!double.TryParse(dataColumns[0], out var mz))
{
continue;
}
lstMZs.Add(mz);
if (previousMz > 0 && mz > previousMz)
{
var delMassPPM = 1000000.0 * (mz - previousMz) / mz;
lstPpmDiffs.Add(delMassPPM);
}
previousMz = mz;
}
// Process the data for the previous spectrum
CheckPPMDiffs(lstMZs, lstPpmDiffs, 2, eCentroidStatusConstants.Unknown);
}
ProcessingComplete?.Invoke(TotalSpectra);
return(true);
}
catch (Exception ex)
{
mErrorMessage = "Exception in CheckCDTAFile: " + ex.Message;
OnErrorEvent(mErrorMessage, ex);
return(false);
}
}
// Raise processing complete event on behalf of each item in collection private void item_ProcessingComplete(object sender, EventArgs e) => ProcessingComplete?.Invoke(sender, e);
