public static void DoQc(WorkflowParameters parameters)
{
//QcDataCollectionDDA qcDataCollection;
dynamic qcDataCollection;
string dataDirectory = parameters.RawFileDirectory;
string qcDirectory = parameters.QcParams.QcDirectory;
string qcSearchDataDirecotry = parameters.QcParams.QcSearchDataDirectory;
List <string> fileList = new List <string>();
string qcFile = Path.Combine(qcDirectory, "QC.xml");
(fileList, qcDataCollection) = GetFileListAndQcFile(parameters);
foreach (string fileName in fileList)
{
Console.WriteLine("\nProcessing {0}", fileName);
if (!RawFileInfo.CheckIfValid(fileName))
{
continue;
}
// okay, it is probably a real raw file, let's do the QC
// check if the raw file already exists in the QC data with a different name
if (CheckIfFilePresentInQcCollection(fileName, qcDataCollection))
{
Log.Information("A file with the same creation date and time as {File} already exists in the QC data", fileName);
Console.WriteLine("A file with the same creation date and time as {File} already exists in the QC data. Skipping to next file.",
fileName);
continue;
}
IRawFileThreadManager rawFileThreadManager = RawFileReaderFactory.CreateThreadManager(fileName);
if (parameters.ExpType == ExperimentType.DDA)
{
WorkFlowsDDA.QcDDA(rawFileThreadManager, parameters);
}
//else if (parameters.ExpType == ExperimentType.DIA)
//{
// WorkFlowsDIA.QcDIA(rawFileThreadManager, parameters);
//}
/*
* using (IRawDataPlus rawFile = RawFileReaderFactory.ReadFile(fileName))
* {
* rawFile.SelectInstrument(Device.MS, 1);
*
* if (parameters.ExpType == ExperimentType.DDA)
* {
* WorkFlowsDDA.QcDDA(rawFile, parameters);
* }
* else if (parameters.ExpType == ExperimentType.DIA)
* {
* WorkFlowsDIA.QcDIA(rawFile, parameters);
* }
* }*/
Log.Information("QC finished: {File}", fileName);
}
Log.Information("QC of all files completed");
Console.WriteLine("QC of all files completed!");
}
