example of interface to count MS levels of all spectrum in an MSrun More...

#include <spectrumcollectionhandlerinterface.h>

Inheritance diagram for pappso::MsRunSimpleStatistics:

Public Member Functions
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

virtual void	loadingEnded () override

unsigned long	getMsLevelCount (unsigned int ms_level) const

unsigned long	getTotalCount () const

Public Member Functions inherited from pappso::SpectrumCollectionHandlerInterface
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

virtual void	setNeedMsLevelPeakList (unsigned int ms_level, bool want_peak_list) final
	tells if we need the peak list given

virtual bool	shouldStop ()

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

virtual bool	isReadAhead () const
	tells if we want to read ahead spectrum

Private Attributes
std::vector< unsigned long >	m_countMsLevelSpectrum

Detailed Description

example of interface to count MS levels of all spectrum in an MSrun

Definition at line 112 of file spectrumcollectionhandlerinterface.h.

Member Function Documentation

◆ getMsLevelCount()

unsigned long pappso::MsRunSimpleStatistics::getMsLevelCount ( unsigned int ms_level ) const

Definition at line 127 of file spectrumcollectionhandlerinterface.cpp.

{
  if(ms_level == 0)
    return 0;
  if(ms_level > m_countMsLevelSpectrum.size())
    return 0;
  return (m_countMsLevelSpectrum[ms_level - 1]);
}

References m_countMsLevelSpectrum.

◆ getTotalCount()

unsigned long pappso::MsRunSimpleStatistics::getTotalCount ( ) const

Definition at line 138 of file spectrumcollectionhandlerinterface.cpp.

{
  unsigned long total = 0;
  for(unsigned long count : m_countMsLevelSpectrum)
    {
      total += count;
    }
  return total;
}

References m_countMsLevelSpectrum.

◆ loadingEnded()

void pappso::MsRunSimpleStatistics::loadingEnded ( )

overridevirtual

Reimplemented from pappso::SpectrumCollectionHandlerInterface.

Definition at line 99 of file spectrumcollectionhandlerinterface.cpp.

{
  // qDebug() << __FILE__ << "@" << __LINE__ << __FUNCTION__ << "()"
  //<< "The data loading process ended.";
}

◆ needPeakList()

bool pappso::MsRunSimpleStatistics::needPeakList ( ) const

overridevirtual

tells if we need the peak list (if we want the binary data) for each spectrum

Implements pappso::SpectrumCollectionHandlerInterface.

Definition at line 92 of file spectrumcollectionhandlerinterface.cpp.

{
  return false;
}

◆ setQualifiedMassSpectrum()

void pappso::MsRunSimpleStatistics::setQualifiedMassSpectrum ( const QualifiedMassSpectrum & spectrum )

overridevirtual

Implements pappso::SpectrumCollectionHandlerInterface.

Definition at line 107 of file spectrumcollectionhandlerinterface.cpp.

{
  // The vector[0] contains the number of spectra at MS
  // The vector[1] contains the number of spectra at MS^2
  // The vector[2] contains the number of spectra at MS^3
  // ...
 
  unsigned int ms_level = qspectrum.getMsLevel();
  if(ms_level == 0)
    return;
  if(ms_level > m_countMsLevelSpectrum.size())
    {
      m_countMsLevelSpectrum.resize(ms_level);
    }
  m_countMsLevelSpectrum[ms_level - 1]++;
}