public void OnBuildLibrary(IList <string> filesList, double hcdError, double cidError, FragmentationMode fragmentationMode, int numResultsPerScanToInclude)
{
foreach (var file in filesList)
{
using (var reader = new StreamReader(new FileStream(file, FileMode.Open, FileAccess.Read, FileShare.ReadWrite)))
{
if (reader.EndOfStream)
{
continue;
}
var headerLine = reader.ReadLine();
if (string.IsNullOrWhiteSpace(headerLine))
{
// Empty header line
continue;
}
var header = headerLine.Split('\t').ToList();
var index = header.IndexOf("Raw Data File");
if (index == -1)
{
continue;
}
if (reader.EndOfStream)
{
continue;
}
try
{
var dataLine = reader.ReadLine();
if (string.IsNullOrWhiteSpace(dataLine))
{
// Empty data line
continue;
}
var rawFileName = dataLine.Split('\t')[index];
LibraryBuilder.AddDmsDataset(rawFileName);
UpdateRawFileLocation(rawFileName);
OnProcessAllTarget(hcdError, cidError, fragmentationMode, numResultsPerScanToInclude);
LoadLipidIdentifications(file);
OnExportGlobalResults(file.Replace(".tsv", ".msp"));
//Delete the raw files we copied from DMS to save space
LcMsRun.Close();
LcMsRun = null;
OnPropertyChanged("LcMsRun");
GC.Collect();
//File.Delete(rawFileName);
var pbfFilePath = Path.ChangeExtension(rawFileName, ".pbf");
if (string.IsNullOrWhiteSpace(pbfFilePath))
{
continue;
}
var pbfFile = new FileInfo(pbfFilePath);
if (pbfFile.Exists)
{
pbfFile.Delete();
}
}
catch (Exception)
{
// Ignore the error
}
}
}
}
