private void WriteHeader(TextWriter writer, string filePath, XRawFileIO reader, string hash, IReadOnlyCollection <int> targetScans)
{
var version = ProcessFilesOrDirectoriesBase.GetEntryOrExecutingAssembly().GetName().Version;
var sb = new StringBuilder();
sb.AppendLine("<?xml version=\"1.0\" encoding=\"ISO-8859-1\"?>");
sb.AppendLine("<mzXML xmlns=\"http://sashimi.sourceforge.net/schema_revision/mzXML_3.1\"");
sb.AppendLine(" xmlns:xsi=\"http://www.w3.org/2001/XMLSchema-instance\"");
sb.AppendLine(" xsi:schemaLocation=\"http://sashimi.sourceforge.net/schema_revision/mzXML_3.1 http://sashimi.sourceforge.net/schema_revision/mzXML_3.1/mzXML_idx_3.1.xsd\">");
sb.AppendLine(WriteMsRunTag(reader, targetScans));
sb.AppendLine(WriteParentFileTag(filePath, hash));
sb.AppendLine(" <msInstrument>");
sb.AppendLine(" <msManufacturer category=\"msManufacturer\" value=\"Thermo Finnigan\" />");
sb.AppendLine(" <msModel category=\"msModel\" value=\"unknown\" />");
sb.AppendFormat(" <msIonisation category=\"msIonisation\" value=\"{0}\" />", GetIonizationSource(reader)).AppendLine();
sb.AppendFormat(" <msMassAnalyzer category=\"msMassAnalyzer\" value=\"{0}\" />", GetMzAnalyzer(reader)).AppendLine();
sb.AppendLine(" <msDetector category=\"msDetector\" value=\"unknown\" />");
sb.AppendLine(" <software type=\"acquisition\" name=\"Xcalibur\" version=\"3.1.2279\" />");
sb.AppendLine(" </msInstrument>");
sb.AppendLine(" <dataProcessing centroided=\"1\">");
sb.AppendFormat(
" <software type=\"conversion\" name=\"WriteFaimsXMLFromRawFile\" version=\"{0}\" />", version).AppendLine();
sb.Append(" </dataProcessing>");
var headerText = sb.ToString();
ByteTracker(headerText);
writer.WriteLine(headerText);
}
/// <summary>
/// Entry method
/// </summary>
private static void Main()
{
try
{
mLogger = new FileLogger(@"Logs\StatusMsgDBUpdater", BaseLogger.LogLevels.INFO);
var appVersion = ProcessFilesOrDirectoriesBase.GetEntryOrExecutingAssembly().GetName().Version.ToString();
mLogger.Info("=== Started StatusMessageDBUpdater V" + appVersion + " =====");
var restart = true;
var runFailureCount = 0;
var startTime = DateTime.UtcNow;
while (restart)
{
// Start the main program running
try
{
var mainProcess = new MainProgram();
mainProcess.DebugEvent += MainProcess_DebugEvent;
mainProcess.ErrorEvent += MainProcess_ErrorEvent;
mainProcess.WarningEvent += MainProcess_WarningEvent;
mainProcess.StatusEvent += MainProcess_StatusEvent;
if (!mainProcess.InitMgr(startTime))
{
ProgRunner.SleepMilliseconds(1500);
return;
}
// Start the main process
// If it receives the ReadConfig command, DoProcess will return true
restart = mainProcess.DoProcess();
runFailureCount = 0;
}
catch (Exception ex2)
{
ShowErrorMessage("Error running the main process", ex2);
runFailureCount++;
var sleepSeconds = 1.5 * runFailureCount;
if (sleepSeconds > 30)
{
sleepSeconds = 30;
}
ProgRunner.SleepMilliseconds((int)(sleepSeconds * 1000));
}
}
FileLogger.FlushPendingMessages();
}
catch (Exception ex)
{
ShowErrorMessage("Error starting application", ex);
}
ProgRunner.SleepMilliseconds(1500);
}