libpappsomspp
Library for mass spectrometry
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provides a multimap to find quickly spectrum index from scan number More...
#include <msrunreader.h>
Public Member Functions | |
MsRunReaderScanNumberMultiMap () | |
virtual | ~MsRunReaderScanNumberMultiMap () |
virtual void | setQualifiedMassSpectrum (const QualifiedMassSpectrum &spectrum) override |
virtual bool | needPeakList () const override |
tells if we need the peak list (if we want the binary data) for each spectrum More... | |
std::size_t | getSpectrumIndexFromScanNumber (std::size_t scan_number) const |
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virtual bool | needMsLevelPeakList (unsigned int ms_level) const final |
tells if we need the peak list (if we want the binary data) for each spectrum, given an MS level More... | |
virtual void | setNeedMsLevelPeakList (unsigned int ms_level, bool want_peak_list) final |
tells if we need the peak list given More... | |
virtual bool | shouldStop () |
virtual void | loadingEnded () |
virtual void | spectrumListHasSize (std::size_t size) |
virtual void | setReadAhead (bool is_read_ahead) final |
use threads to read a spectrum by batch of batch_size More... | |
virtual bool | isReadAhead () const |
tells if we want to read ahead spectrum More... | |
Private Attributes | |
std::multimap< std::size_t, std::size_t > | m_mmap_scan2index |
provides a multimap to find quickly spectrum index from scan number
Definition at line 131 of file msrunreader.h.
pappso::MsRunReaderScanNumberMultiMap::MsRunReaderScanNumberMultiMap | ( | ) |
Definition at line 155 of file msrunreader.cpp.
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virtual |
Definition at line 161 of file msrunreader.cpp.
std::size_t pappso::MsRunReaderScanNumberMultiMap::getSpectrumIndexFromScanNumber | ( | std::size_t | scan_number | ) | const |
Definition at line 197 of file msrunreader.cpp.
References m_mmap_scan2index.
Referenced by pappso::MsRunReader::scanNumber2SpectrumIndex().
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overridevirtual |
tells if we need the peak list (if we want the binary data) for each spectrum
Implements pappso::SpectrumCollectionHandlerInterface.
Definition at line 168 of file msrunreader.cpp.
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overridevirtual |
Implements pappso::SpectrumCollectionHandlerInterface.
Definition at line 174 of file msrunreader.cpp.
References pappso::QualifiedMassSpectrum::getMassSpectrumId(), pappso::MassSpectrumId::getNativeId(), pappso::MassSpectrumId::getSpectrumIndex(), and m_mmap_scan2index.
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private |
Definition at line 135 of file msrunreader.h.
Referenced by getSpectrumIndexFromScanNumber(), and setQualifiedMassSpectrum().