OpenMS  2.6.0
MSDataSqlConsumer.h
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31 // $Maintainer: Hannes Roest $
32 // $Authors: Hannes Roest $
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34 
35 #pragma once
36 
38 
40 
41 namespace OpenMS
42 {
43 
44  namespace Internal
45  {
46  class MzMLSqliteHandler;
47  }
48 
60  class OPENMS_DLLAPI MSDataSqlConsumer :
62  {
66 
67  public:
68 
80  MSDataSqlConsumer(String filename, int buffer_size = 500, bool full_meta = true, bool lossy_compression=false, double linear_mass_acc=1e-4);
81 
87  ~MSDataSqlConsumer() override;
88 
95  void flush();
96 
100  void consumeSpectrum(SpectrumType & s) override;
101 
105  void consumeChromatogram(ChromatogramType & c) override;
106 
107  void setExpectedSize(Size /* expectedSpectra */, Size /* expectedChromatograms */) override;
108 
109  void setExperimentalSettings(const ExperimentalSettings& /* exp */) override;
110 
111  protected:
112 
115 
116  size_t flush_after_;
118  std::vector<SpectrumType> spectra_;
119  std::vector<ChromatogramType> chromatograms_;
120 
122  };
123 
124 } //end namespace OpenMS
125 
126 
OpenMS::Internal::MzMLSqliteHandler
Sqlite handler for storing spectra and chromatograms in sqMass format.
Definition: MzMLSqliteHandler.h:77
OpenMS::Interfaces::IMSDataConsumer
The interface of a consumer of spectra and chromatograms.
Definition: IMSDataConsumer.h:69
OpenMS::MSDataSqlConsumer::filename_
String filename_
Definition: MSDataSqlConsumer.h:113
OpenMS::MSDataSqlConsumer::SpectrumType
MapType::SpectrumType SpectrumType
Definition: MSDataSqlConsumer.h:64
OpenMS::ExperimentalSettings
Description of the experimental settings.
Definition: ExperimentalSettings.h:59
OpenMS::String
A more convenient string class.
Definition: String.h:59
OpenMS::MSDataSqlConsumer::chromatograms_
std::vector< ChromatogramType > chromatograms_
Definition: MSDataSqlConsumer.h:119
OpenMS::MSExperiment
In-Memory representation of a mass spectrometry experiment.
Definition: MSExperiment.h:77
OpenMS::Size
size_t Size
Size type e.g. used as variable which can hold result of size()
Definition: Types.h:127
OpenMS::Constants::c
const double c
IMSDataConsumer.h
OpenMS::MSDataSqlConsumer::peak_meta_
MSExperiment peak_meta_
Definition: MSDataSqlConsumer.h:121
OpenMS
Main OpenMS namespace.
Definition: FeatureDeconvolution.h:46
OpenMS::MSDataSqlConsumer
A data consumer that inserts MS data into a SQLite database.
Definition: MSDataSqlConsumer.h:60
OpenMS::MSDataSqlConsumer::handler_
OpenMS::Internal::MzMLSqliteHandler * handler_
Definition: MSDataSqlConsumer.h:114
OpenMS::MSDataSqlConsumer::MapType
MSExperiment MapType
Definition: MSDataSqlConsumer.h:63
MSExperiment.h
OpenMS::MSDataSqlConsumer::full_meta_
bool full_meta_
Definition: MSDataSqlConsumer.h:117
OpenMS::MSChromatogram
The representation of a chromatogram.
Definition: MSChromatogram.h:54
OpenMS::MSDataSqlConsumer::spectra_
std::vector< SpectrumType > spectra_
Definition: MSDataSqlConsumer.h:118
OpenMS::MSDataSqlConsumer::ChromatogramType
MapType::ChromatogramType ChromatogramType
Definition: MSDataSqlConsumer.h:65
OpenMS::MSDataSqlConsumer::flush_after_
size_t flush_after_
Definition: MSDataSqlConsumer.h:116
OpenMS::MSSpectrum
The representation of a 1D spectrum.
Definition: MSSpectrum.h:67