OpenMS  2.8.0
SpectrumAccessOpenMSInMemory.h
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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 
86 
89 
91  boost::shared_ptr<OpenSwath::ISpectrumAccess> lightClone() const override;
92 
94 
96 
97  std::vector<std::size_t> getSpectraByRT(double RT, double deltaRT) const override;
98 
99  size_t getNrSpectra() const override;
100 
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 
The representation of a chromatogram.
Definition: MSChromatogram.h:57
In-Memory representation of a mass spectrometry run.
Definition: MSExperiment.h:73
The representation of a 1D spectrum.
Definition: MSSpectrum.h:70
An implementation of the OpenSWATH Spectrum Access interface completely in memory.
Definition: SpectrumAccessOpenMSInMemory.h:75
OpenMS::PeakMap MSExperimentType
Definition: SpectrumAccessOpenMSInMemory.h:77
size_t getNrSpectra() const override
Returns the number of spectra available.
~SpectrumAccessOpenMSInMemory() override
Destructor.
OpenMS::MSSpectrum MSSpectrumType
Definition: SpectrumAccessOpenMSInMemory.h:78
SpectrumAccessOpenMSInMemory(const SpectrumAccessOpenMSInMemory &rhs)
Copy constructor.
std::vector< std::size_t > getSpectraByRT(double RT, double deltaRT) const override
Return a vector of ids of spectra that are within RT +/- deltaRT.
size_t getNrChromatograms() const override
Returns the number of chromatograms available.
OpenMS::MSChromatogram MSChromatogramType
Definition: SpectrumAccessOpenMSInMemory.h:79
std::vector< OpenSwath::ChromatogramPtr > chromatograms_
Definition: SpectrumAccessOpenMSInMemory.h:112
OpenSwath::ChromatogramPtr getChromatogramById(int id) override
Return a pointer to a chromatogram at the given id.
std::vector< std::string > chromatogram_ids_
Definition: SpectrumAccessOpenMSInMemory.h:113
std::vector< OpenSwath::SpectrumPtr > spectra_
Definition: SpectrumAccessOpenMSInMemory.h:109
OpenSwath::SpectrumPtr getSpectrumById(int id) override
Return a pointer to a spectrum at the given id.
std::vector< OpenSwath::SpectrumMeta > spectra_meta_
Definition: SpectrumAccessOpenMSInMemory.h:110
std::string getChromatogramNativeID(int id) const override
Returns the native id of the chromatogram at the given id.
SpectrumAccessOpenMSInMemory(OpenSwath::ISpectrumAccess &origin)
Constructor.
boost::shared_ptr< OpenSwath::ISpectrumAccess > lightClone() const override
Light clone operator (actual data will not get copied)
OpenSwath::SpectrumMeta getSpectrumMetaById(int id) const override
Returns the meta information for a spectrum.
The interface of a mass spectrometry experiment.
Definition: openswathalgo/include/OpenMS/OPENSWATHALGO/DATAACCESS/ISpectrumAccess.h:51
Main OpenMS namespace.
Definition: FeatureDeconvolution.h:47
boost::shared_ptr< Chromatogram > ChromatogramPtr
Definition: openswathalgo/include/OpenMS/OPENSWATHALGO/DATAACCESS/DataStructures.h:172
boost::shared_ptr< Spectrum > SpectrumPtr
Definition: openswathalgo/include/OpenMS/OPENSWATHALGO/DATAACCESS/DataStructures.h:291
Identifying information for a spectrum.
Definition: openswathalgo/include/OpenMS/OPENSWATHALGO/DATAACCESS/DataStructures.h:176