SpectrumAccessOnDisc.h

Go to the documentation of this file.

// Copyright (c) 2002-present, OpenMS Inc. -- EKU Tuebingen, ETH Zurich, and FU Berlin
// SPDX-License-Identifier: BSD-3-Clause
//
// --------------------------------------------------------------------------
// $Maintainer: Julianus Pfeuffer $
// $Authors: Julianus Pfeuffer $
// --------------------------------------------------------------------------
 
#pragma once
 
#include <OpenMS/KERNEL/IMSExperimentRandomAccess.h>
#include <OpenMS/OPENSWATHALGO/DATAACCESS/ISpectrumAccess.h>
 
#include <memory>
#include <vector>
 
namespace OpenMS
{
  class OPENMS_DLLAPI SpectrumAccessOnDisc :
    public OpenSwath::ISpectrumAccess
  {
  public:
    explicit SpectrumAccessOnDisc(std::shared_ptr<IMSExperimentRandomAccess> experiment);
 
    SpectrumAccessOnDisc(std::shared_ptr<IMSExperimentRandomAccess> experiment, std::vector<Size> indices);
 
    SpectrumAccessOnDisc(const SpectrumAccessOnDisc& rhs);
 
    ~SpectrumAccessOnDisc() override;
 
    std::shared_ptr<OpenSwath::ISpectrumAccess> lightClone() const override;
 
    OpenSwath::SpectrumPtr getSpectrumById(int id) override;
 
    OpenSwath::SpectrumMeta getSpectrumMetaById(int id) const override;
 
    std::vector<std::size_t> getSpectraByRT(double RT, double deltaRT) const override;
 
    size_t getNrSpectra() const override;
 
    OpenSwath::ChromatogramPtr getChromatogramById(int id) override;
 
    size_t getNrChromatograms() const override;
 
    std::string getChromatogramNativeID(int id) const override;
 
    Size getExperimentIndex(int id) const;
 
    const IMSExperimentRandomAccess& getExperiment() const;
 
  private:
    struct View
    {
      std::vector<Size> indices; 
      std::vector<double> rts;   
    };
    std::shared_ptr<IMSExperimentRandomAccess> experiment_;
    std::shared_ptr<const View> view_;
  };
} // namespace OpenMS