public void outputToText_xcaliburData_Test2()
{
string testFile = xcalibur_text_IsosResultOutputFile1;
List <Run> runcoll = new List <Run>();
Run run = new XCaliburRun(xcaliburFile1);
runcoll.Add(run);
ScanSetCollectionCreator sscc = new ScanSetCollectionCreator(run, 6000, 6020, 1, 1, false);
sscc.Create();
Task msgen = new GenericMSGenerator();
Task peakDetector = new DeconToolsPeakDetector();
Task decon = new HornDeconvolutor();
Task flagger = new ResultValidatorTask();
BasicIsosResultTextFileExporter isosExporter = new BasicIsosResultTextFileExporter(testFile);
Stopwatch sw;
foreach (ScanSet scan in run.ScanSetCollection.ScanSetList)
{
run.CurrentScanSet = scan;
msgen.Execute(run.ResultCollection);
peakDetector.Execute(run.ResultCollection);
decon.Execute(run.ResultCollection);
flagger.Execute(run.ResultCollection);
}
isosExporter.ExportIsosResults(run.ResultCollection.ResultList);
Assert.AreEqual(true, File.Exists(testFile));
FileInfo fi = new FileInfo(testFile);
//Assert.AreEqual(25881, fi.Length);
Console.Write(fi.Length);
}
public static IsosResultExporter CreateIsosExporter(Globals.ResultType resultType, Globals.ExporterType exporterType, string outputFileName)
{
IsosResultExporter isosExporter;
switch (resultType)
{
case Globals.ResultType.BASIC_TRADITIONAL_RESULT:
switch (exporterType)
{
case Globals.ExporterType.Text:
isosExporter = new BasicIsosResultTextFileExporter(outputFileName, TriggerToExportValue);
break;
case Globals.ExporterType.Sqlite:
isosExporter = new BasicIsosResultSqliteExporter(outputFileName, TriggerToExportValue);
break;
default:
isosExporter = new BasicIsosResultTextFileExporter(outputFileName, TriggerToExportValue);
break;
}
break;
case Globals.ResultType.UIMF_TRADITIONAL_RESULT:
switch (exporterType)
{
case Globals.ExporterType.Text:
isosExporter = new UIMFIsosResultTextFileExporter(outputFileName, TriggerToExportValue);
break;
case Globals.ExporterType.Sqlite:
isosExporter = new UIMFIsosResultSqliteExporter(outputFileName, TriggerToExportValue);
break;
default:
isosExporter = new UIMFIsosResultTextFileExporter(outputFileName, TriggerToExportValue);
break;
}
break;
case Globals.ResultType.IMS_TRADITIONAL_RESULT:
switch (exporterType)
{
case Globals.ExporterType.Text:
isosExporter = new IMFIsosResult_TextFileExporter(outputFileName, TriggerToExportValue);
break;
case Globals.ExporterType.Sqlite:
throw new NotImplementedException();
default:
isosExporter = new IMFIsosResult_TextFileExporter(outputFileName, TriggerToExportValue);
break;
}
break;
case Globals.ResultType.O16O18_TRADITIONAL_RESULT:
switch (exporterType)
{
case Globals.ExporterType.Text:
isosExporter = new O16O18IsosResultTextFileExporter(outputFileName, TriggerToExportValue);
break;
case Globals.ExporterType.Sqlite:
throw new NotImplementedException();
default:
isosExporter = new IMFIsosResult_TextFileExporter(outputFileName, TriggerToExportValue);
break;
}
break;
case Globals.ResultType.BASIC_TARGETED_RESULT:
throw new ApplicationException("Cannot create IsosExporter for Targeted-type results");
case Globals.ResultType.O16O18_TARGETED_RESULT:
throw new ApplicationException("Cannot create IsosExporter for Targeted-type results");
case Globals.ResultType.N14N15_TARGETED_RESULT:
throw new ApplicationException("Cannot create IsosExporter for Targeted-type results");
case Globals.ResultType.DEUTERATED_TARGETED_RESULT:
throw new ApplicationException("Cannot create IsosExporter for Targeted-type results");
default:
throw new ApplicationException("Cannot create IsosExporter for this type of Result: " + resultType);
}
return(isosExporter);
}
