pappso::cbor::mzcbor::MzcborIndexReader Class Reference

#include <mzcborindexreader.h>

Inheritance diagram for pappso::cbor::mzcbor::MzcborIndexReader:

Public Member Functions
	MzcborIndexReader ()
virtual	~MzcborIndexReader ()
virtual void	readCbor (QFile *cborp)
virtual void	close ()
	convenient function to clean pointer before leaving
bool	isMzcborIndex () const
const std::vector< QString > &	getRunIdList () const
const std::vector< std::vector< qint64 > > &	getRunAndSpectrumOffsetList () const
const std::vector< std::vector< QString > > &	getRunAndSpectrumIdList () const
const std::vector< std::vector< qint64 > > &	getRunAndSpectrumTotalIonCountList () const
const std::vector< std::vector< std::uint8_t > > &	getRunAndSpectrumMsLevelList () const
const std::vector< std::vector< double > > &	getRunAndSpectrumRtList () const
Public Member Functions inherited from pappso::cbor::CborStreamReaderInterface
	CborStreamReaderInterface ()
virtual	~CborStreamReaderInterface ()

Protected Member Functions
void	readRoot ()
Protected Member Functions inherited from pappso::cbor::CborStreamReaderInterface
bool	getExpectedString ()
void	initCborReader (QFile *pcborfile)
void	initCborReader (QIODevice *pcborfile)

Private Attributes
bool	m_isMzcborIndex = false
QString	m_from
std::vector< QString >	m_runIdList
std::vector< std::vector< qint64 > >	m_runAndSpectrumOffsetList
std::vector< std::vector< QString > >	m_runAndSpectrumIdList
std::vector< std::vector< qint64 > >	m_runAndSpectrumTotalIonCountList
std::vector< std::vector< std::uint8_t > >	m_runAndSpectrumMsLevelList
std::vector< std::vector< double > >	m_runAndSpectrumRtList

Additional Inherited Members
Protected Attributes inherited from pappso::cbor::CborStreamReaderInterface
CborStreamReader *	mpa_cborReader = nullptr
QString	m_expectedString
QByteArray	m_data

Detailed Description

Todo:

write docs

Definition at line 42 of file mzcborindexreader.h.

Constructor & Destructor Documentation

MzcborIndexReader()

pappso::cbor::mzcbor::MzcborIndexReader::MzcborIndexReader

(

)

Default constructor

Definition at line 32 of file mzcborindexreader.cpp.

{
}

~MzcborIndexReader()

pappso::cbor::mzcbor::MzcborIndexReader::~MzcborIndexReader ( )

virtual

Destructor

Definition at line 36 of file mzcborindexreader.cpp.

{
}

Member Function Documentation

close()

void pappso::cbor::mzcbor::MzcborIndexReader::close ( )

virtual

convenient function to clean pointer before leaving

Reimplemented from pappso::cbor::CborStreamReaderInterface.

Definition at line 41 of file mzcborindexreader.cpp.

{
}

Referenced by pappso::MzcborMsRunReader::initialize().

getRunAndSpectrumIdList()

const std::vector< std::vector< QString > > & pappso::cbor::mzcbor::MzcborIndexReader::getRunAndSpectrumIdList

(

)

const

Definition at line 168 of file mzcborindexreader.cpp.

{
  return m_runAndSpectrumIdList;
}

Referenced by pappso::MzcborMsRunReader::initialize().

getRunAndSpectrumMsLevelList()

const std::vector< std::vector< std::uint8_t > > & pappso::cbor::mzcbor::MzcborIndexReader::getRunAndSpectrumMsLevelList

(

)

const

Definition at line 186 of file mzcborindexreader.cpp.

{
  return m_runAndSpectrumMsLevelList;
}

Referenced by pappso::MzcborMsRunReader::initialize().

getRunAndSpectrumOffsetList()

const std::vector< std::vector< qint64 > > & pappso::cbor::mzcbor::MzcborIndexReader::getRunAndSpectrumOffsetList

(

)

const

Definition at line 162 of file mzcborindexreader.cpp.

{
  return m_runAndSpectrumOffsetList;
}

Referenced by pappso::MzcborMsRunReader::initialize().

getRunAndSpectrumRtList()

const std::vector< std::vector< double > > & pappso::cbor::mzcbor::MzcborIndexReader::getRunAndSpectrumRtList

(

)

const

Definition at line 180 of file mzcborindexreader.cpp.

{
  return m_runAndSpectrumRtList;
}

Referenced by pappso::MzcborMsRunReader::initialize().

getRunAndSpectrumTotalIonCountList()

const std::vector< std::vector< qint64 > > & pappso::cbor::mzcbor::MzcborIndexReader::getRunAndSpectrumTotalIonCountList

(

)

const

Definition at line 174 of file mzcborindexreader.cpp.

{
  return m_runAndSpectrumTotalIonCountList;
}

Referenced by pappso::MzcborMsRunReader::initialize().

getRunIdList()

const std::vector< QString > & pappso::cbor::mzcbor::MzcborIndexReader::getRunIdList

(

)

const

Definition at line 155 of file mzcborindexreader.cpp.

{
 
  return m_runIdList;
}

Referenced by pappso::MzcborMsFileReader::getMsRunIds(), and pappso::MzcborMsRunReader::initialize().

isMzcborIndex()

bool pappso::cbor::mzcbor::MzcborIndexReader::isMzcborIndex

(

)

const

Definition at line 148 of file mzcborindexreader.cpp.

{
  return m_isMzcborIndex;
}

readCbor()

void pappso::cbor::mzcbor::MzcborIndexReader::readCbor ( QFile *  cborp )

virtual

Definition at line 46 of file mzcborindexreader.cpp.

{
  qDebug();
  initCborReader(cborp);
 
  qDebug();
  if(mpa_cborReader->isMap())
    {
      readRoot();
    }
  qDebug();
}

Referenced by pappso::MzcborMsRunReader::initialize().

readRoot()

void pappso::cbor::mzcbor::MzcborIndexReader::readRoot ( )

protected

Definition at line 61 of file mzcborindexreader.cpp.

{
  qDebug();
  mpa_cborReader->enterContainer();
 
  while(getExpectedString())
    {
 
      if(m_expectedString == "informations")
        {
          QCborMap cbor_informations;
          mpa_cborReader->readCborMap(cbor_informations);
        }
      else if(m_expectedString == "from")
        {
          m_isMzcborIndex = true;
          qDebug() << m_expectedString;
          if(getExpectedString())
            {
              m_from = m_expectedString;
            }
        }
      else if(m_expectedString == "runIdList")
        {
          mpa_cborReader->readArray(m_runIdList);
        }
      else if(m_expectedString == "runSpectrumIndexList")
        {
          std::size_t length = mpa_cborReader->length();
          mpa_cborReader->enterContainer();
          for(std::size_t i = 0; i < length; i++)
            {
              m_runAndSpectrumOffsetList.push_back(std::vector<qint64>());
              mpa_cborReader->readArray(m_runAndSpectrumOffsetList.back());
            }
          mpa_cborReader->leaveContainer();
        }
      else if(m_expectedString == "runSpectrumNativeIdList")
        {
          std::size_t length = mpa_cborReader->length();
          mpa_cborReader->enterContainer();
          for(std::size_t i = 0; i < length; i++)
            {
              m_runAndSpectrumIdList.push_back(std::vector<QString>());
              mpa_cborReader->readArray(m_runAndSpectrumIdList.back());
            }
          mpa_cborReader->leaveContainer();
        }
      else if(m_expectedString == "runSpectrumMsLevelList")
        {
          std::size_t length = mpa_cborReader->length();
          mpa_cborReader->enterContainer();
          for(std::size_t i = 0; i < length; i++)
            {
              m_runAndSpectrumMsLevelList.push_back(std::vector<std::uint8_t>());
              mpa_cborReader->readArray(m_runAndSpectrumMsLevelList.back());
            }
          mpa_cborReader->leaveContainer();
        }
      else if(m_expectedString == "runSpectrumTotalIonCountList")
        {
          std::size_t length = mpa_cborReader->length();
          mpa_cborReader->enterContainer();
          for(std::size_t i = 0; i < length; i++)
            {
              m_runAndSpectrumTotalIonCountList.push_back(std::vector<qint64>());
              mpa_cborReader->readArray(m_runAndSpectrumTotalIonCountList.back());
            }
          mpa_cborReader->leaveContainer();
        }
      else if(m_expectedString == "runSpectrumRtList")
        {
          std::size_t length = mpa_cborReader->length();
          mpa_cborReader->enterContainer();
          for(std::size_t i = 0; i < length; i++)
            {
              m_runAndSpectrumRtList.push_back(std::vector<double>());
              mpa_cborReader->readArray(m_runAndSpectrumRtList.back());
            }
          mpa_cborReader->leaveContainer();
        }
    }
  mpa_cborReader->leaveContainer();
}

Member Data Documentation

m_from

QString pappso::cbor::mzcbor::MzcborIndexReader::m_from

private

Definition at line 74 of file mzcborindexreader.h.

m_isMzcborIndex

bool pappso::cbor::mzcbor::MzcborIndexReader::m_isMzcborIndex = false

private

Definition at line 73 of file mzcborindexreader.h.

m_runAndSpectrumIdList

std::vector<std::vector<QString> > pappso::cbor::mzcbor::MzcborIndexReader::m_runAndSpectrumIdList

private

Definition at line 77 of file mzcborindexreader.h.

m_runAndSpectrumMsLevelList

std::vector<std::vector<std::uint8_t> > pappso::cbor::mzcbor::MzcborIndexReader::m_runAndSpectrumMsLevelList

private

Definition at line 79 of file mzcborindexreader.h.

m_runAndSpectrumOffsetList

std::vector<std::vector<qint64> > pappso::cbor::mzcbor::MzcborIndexReader::m_runAndSpectrumOffsetList

private

Definition at line 76 of file mzcborindexreader.h.

m_runAndSpectrumRtList

std::vector<std::vector<double> > pappso::cbor::mzcbor::MzcborIndexReader::m_runAndSpectrumRtList

private

Definition at line 80 of file mzcborindexreader.h.

m_runAndSpectrumTotalIonCountList

std::vector<std::vector<qint64> > pappso::cbor::mzcbor::MzcborIndexReader::m_runAndSpectrumTotalIonCountList

private

Definition at line 78 of file mzcborindexreader.h.

m_runIdList

std::vector<QString> pappso::cbor::mzcbor::MzcborIndexReader::m_runIdList

private

Definition at line 75 of file mzcborindexreader.h.

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The documentation for this class was generated from the following files:

• pappsomspp/core/processing/cbor/mzcbor/mzcborindexreader.h
• pappsomspp/core/processing/cbor/mzcbor/mzcborindexreader.cpp