OpenMS  3.0.0
SpectrumAccessOpenMSInMemory.h
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31 // $Maintainer: Hannes Roest $
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34 
35 #pragma once
36 
41 
43 
44 #include <boost/shared_ptr.hpp>
45 
46 namespace OpenMS
47 {
73  class OPENMS_DLLAPI SpectrumAccessOpenMSInMemory :
75  {
76 public:
80 
83 
85  ~SpectrumAccessOpenMSInMemory() override;
86 
89 
91  boost::shared_ptr<OpenSwath::ISpectrumAccess> lightClone() const override;
92 
93  OpenSwath::SpectrumPtr getSpectrumById(int id) override;
94 
95  OpenSwath::SpectrumMeta getSpectrumMetaById(int id) const override;
96 
97  std::vector<std::size_t> getSpectraByRT(double RT, double deltaRT) const override;
98 
99  size_t getNrSpectra() const override;
100 
101  OpenSwath::ChromatogramPtr getChromatogramById(int id) override;
102 
103  size_t getNrChromatograms() const override;
104 
105  std::string getChromatogramNativeID(int id) const override;
106 
107 private:
108 
109  std::vector< OpenSwath::SpectrumPtr > spectra_;
110  std::vector< OpenSwath::SpectrumMeta > spectra_meta_;
111 
112  std::vector< OpenSwath::ChromatogramPtr > chromatograms_;
113  std::vector< std::string > chromatogram_ids_;
114 
115  };
116 
117 } //end namespace OpenMS
118 
OpenMS::SpectrumAccessOpenMSInMemory::chromatogram_ids_
std::vector< std::string > chromatogram_ids_
Definition: SpectrumAccessOpenMSInMemory.h:113
OpenMS::SpectrumAccessOpenMSInMemory::chromatograms_
std::vector< OpenSwath::ChromatogramPtr > chromatograms_
Definition: SpectrumAccessOpenMSInMemory.h:112
ISpectrumAccess.h
OpenMS::MSExperiment
In-Memory representation of a mass spectrometry run.
Definition: MSExperiment.h:70
OpenMS::SpectrumAccessOpenMSInMemory::spectra_meta_
std::vector< OpenSwath::SpectrumMeta > spectra_meta_
Definition: SpectrumAccessOpenMSInMemory.h:110
OpenMS
Main OpenMS namespace.
Definition: FeatureDeconvolution.h:47
OpenMS::SpectrumAccessOpenMSInMemory::MSExperimentType
OpenMS::PeakMap MSExperimentType
Definition: SpectrumAccessOpenMSInMemory.h:77
OpenMS::SpectrumAccessOpenMSInMemory::MSSpectrumType
OpenMS::MSSpectrum MSSpectrumType
Definition: SpectrumAccessOpenMSInMemory.h:78
MSExperiment.h
OpenSwath::OSSpectrumMeta
Identifying information for a spectrum.
Definition: openswathalgo/include/OpenMS/OPENSWATHALGO/DATAACCESS/DataStructures.h:175
OpenSwath::ISpectrumAccess
The interface of a mass spectrometry experiment.
Definition: openswathalgo/include/OpenMS/OPENSWATHALGO/DATAACCESS/ISpectrumAccess.h:50
MSChromatogram.h
OpenMS::MSChromatogram
The representation of a chromatogram.
Definition: MSChromatogram.h:53
OpenMS::SpectrumAccessOpenMSInMemory::spectra_
std::vector< OpenSwath::SpectrumPtr > spectra_
Definition: SpectrumAccessOpenMSInMemory.h:109
OpenMS::SpectrumAccessOpenMSInMemory::MSChromatogramType
OpenMS::MSChromatogram MSChromatogramType
Definition: SpectrumAccessOpenMSInMemory.h:79
OpenSwath::SpectrumPtr
boost::shared_ptr< Spectrum > SpectrumPtr
Definition: openswathalgo/include/OpenMS/OPENSWATHALGO/DATAACCESS/DataStructures.h:296
OpenSwath::ChromatogramPtr
boost::shared_ptr< Chromatogram > ChromatogramPtr
Definition: openswathalgo/include/OpenMS/OPENSWATHALGO/DATAACCESS/DataStructures.h:172
OpenMS::MSSpectrum
The representation of a 1D spectrum.
Definition: MSSpectrum.h:66
OpenMS::DIM_UNIT::RT
RT in seconds.
StandardTypes.h
MSSpectrum.h
OpenMS::SpectrumAccessOpenMSInMemory
An implementation of the OpenSWATH Spectrum Access interface completely in memory.
Definition: SpectrumAccessOpenMSInMemory.h:73