public void exportAllPeaksInXCaliburFile()
{
if (File.Exists(xcaliburAllPeaksFileName))
{
File.Delete(xcaliburAllPeaksFileName);
}
Run run = new XCaliburRun(xcaliburTestfile);
ScanSetCollectionCreator scansetCreator = new ScanSetCollectionCreator(run, run.MinScan, run.MaxScan, 1, 1, false);
scansetCreator.Create();
Task msgen = new GenericMSGenerator();
DeconToolsV2.Peaks.clsPeakProcessorParameters peakParams = new DeconToolsV2.Peaks.clsPeakProcessorParameters(2, 1.3, true, DeconToolsV2.Peaks.PEAK_FIT_TYPE.QUADRATIC);
Task peakDetector = new DeconToolsPeakDetector(peakParams);
((DeconToolsPeakDetector)peakDetector).StorePeakData = true;
Task exporter = new DeconTools.Backend.ProcessingTasks.PeakListExporters.PeakListTextExporter(run.MSFileType, 1000000, xcaliburAllPeaksFileName); //trigger of 1E5 = 310 sec (memory = 150 MB); trigger of 1E6 = 231 Sec (memory = 250 MB);
foreach (ScanSet scan in run.ScanSetCollection.ScanSetList)
{
run.CurrentScanSet = scan;
msgen.Execute(run.ResultCollection);
peakDetector.Execute(run.ResultCollection);
exporter.Execute(run.ResultCollection);
}
exporter.Cleanup();
Assert.AreEqual(true, File.Exists(xcaliburAllPeaksFileName));
}
public void exportToTextFileTest1()
{
if (File.Exists(outputFilename))
{
File.Delete(outputFilename);
}
Run run = new XCaliburRun(xcaliburTestfile);
ScanSetCollectionCreator scansetCreator = new ScanSetCollectionCreator(run, 6000, 6020, 1, 1, false);
scansetCreator.Create();
Task msgen = new GenericMSGenerator();
Task peakDetector = new DeconToolsPeakDetector();
((DeconToolsPeakDetector)peakDetector).StorePeakData = true;
Task exporter = new DeconTools.Backend.ProcessingTasks.PeakListExporters.PeakListTextExporter(run.MSFileType, 1000000, outputFilename); //trigger of 1E5 = 310 sec (memory = 150 MB); trigger of 1E6 = 231 Sec (memory = 250 MB);
foreach (ScanSet scan in run.ScanSetCollection.ScanSetList)
{
run.CurrentScanSet = scan;
msgen.Execute(run.ResultCollection);
peakDetector.Execute(run.ResultCollection);
Stopwatch sw = new Stopwatch();
sw.Start();
exporter.Execute(run.ResultCollection);
sw.Stop();
if (sw.ElapsedMilliseconds > 5)
{
Console.WriteLine("PeakListExporter execution time = " + sw.ElapsedMilliseconds);
}
}
exporter.Cleanup();
Assert.AreEqual(true, File.Exists(outputFilename));
FileInfo fi = new FileInfo(outputFilename);
Assert.AreEqual(93194, fi.Length);
}
