private void GenerateTasks()
{
using (var scope = container.BeginLifetimeScope())
{
ISpectrumFactory spectrumFactory = scope.Resolve <ISpectrumFactory>();
spectrumFactory.Init(SearchParameters.Access.MSMSFile);
int start = spectrumFactory.GetFirstScan();
int end = spectrumFactory.GetLastScan();
List <int> msSpectrumScans = new List <int>();
for (int scan = start; scan <= end; scan++)
{
if (spectrumFactory.GetMSnOrder(scan) == 1)
{
msSpectrumScans.Add(scan);
}
}
for (int i = 0; i < msSpectrumScans.Count; i++)
{
if (i < msSpectrumScans.Count - 1)
{
tasks.Enqueue(new Tuple <int, int>(msSpectrumScans[i], msSpectrumScans[i + 1] - 1));
}
else
{
tasks.Enqueue(new Tuple <int, int>(msSpectrumScans[i], end));
}
}
}
}
private void InitializeWindow()
{
using (var scope = container.BeginLifetimeScope())
{
ISpectrumFactory spectrumFactory = scope.Resolve <ISpectrumFactory>();
Results = scope.Resolve <IResults>();
spectrumFactory.Init(SearchParameters.Access.MSMSFile);
StartScan = spectrumFactory.GetFirstScan();
EndScan = spectrumFactory.GetLastScan();
}
}
public FDRSearchEThcDEngine(IProteinCreator proteinCreator,
IPeptideCreator peptideCreator,
IGlycanCreator glycanCreator,
ISpectrumFactory spectrumFactory,
ISpectrumProcessing spectrumProcessing,
IMonoMassSpectrumGetter monoMassSpectrumGetter,
IPrecursorMatcher precursorMatcher,
ISpectrumFilter spectrumFilter,
ISearchEThcD searchEThcDRunner,
IResults results,
IReportProducer reportProducer,
double pesudoMass = -526.7728) :
base(proteinCreator, peptideCreator, glycanCreator, spectrumFactory,
spectrumProcessing, monoMassSpectrumGetter, precursorMatcher, spectrumFilter, searchEThcDRunner, results, reportProducer)
{
this.pesudoMass = pesudoMass;
}
public GeneralSearchEThcDEngine(
IProteinCreator proteinCreator,
IPeptideCreator peptideCreator,
IGlycanCreator glycanCreator,
ISpectrumFactory spectrumFactory,
ISpectrumProcessing spectrumProcessing,
IMonoMassSpectrumGetter monoMassSpectrumGetter,
IPrecursorMatcher precursorMatcher,
ISpectrumFilter spectrumFilter,
ISearchEThcD searchEThcDRunner,
IResults results,
IReportProducer reportProducer
)
{
// protein
this.proteinCreator = proteinCreator;
// peptides
this.peptideCreator = peptideCreator;
// glycans
this.glycanCreator = glycanCreator;
// spectrum
this.spectrumFactory = spectrumFactory;
// spectrum processing
this.spectrumProcessing = spectrumProcessing;
this.monoMassSpectrumGetter = monoMassSpectrumGetter;
// glycopeptides
this.precursorMatcher = precursorMatcher;
this.spectrumFilter = spectrumFilter;
// search
this.searchEThcDRunner = searchEThcDRunner;
// result
this.results = results;
this.reportProducer = reportProducer;
}
