pappso::cbor::mzcbor::SelectedIon Struct Reference

#include <precursor.h>

Public Member Functions
void	fromCbor (CborStreamReader &reader)
void	fromQCborMap (const QCborMap &reader)
int	getChargeState () const
double	getIntensity (bool *isok) const
double	getMz () const

Public Attributes
CvParamMap	cvParamMap

Detailed Description

Definition at line 71 of file precursor.h.

Member Function Documentation

fromCbor()

void pappso::cbor::mzcbor::SelectedIon::fromCbor

(

CborStreamReader &

reader

)

Definition at line 177 of file precursor.cpp.

{
  QString txt_value;
  reader.enterContainer();
  qDebug() << txt_value;
  while(reader.hasNext() && (!reader.isInvalid()))
    {
      if(reader.isString())
        {
          if(reader.decodeString(txt_value))
            {
              qDebug() << txt_value;
              if(txt_value == "cvParam")
                {
                  cvParamMap.fromCbor(reader);
                  // reader.next();
                }
              else
                {
                  reader.next();
                }
            }
          else
            {
              reader.next();
            }
        }
      else
        {
          reader.next();
        }
    }
  reader.leaveContainer();
}

References cvParamMap, and pappso::cbor::CborStreamReader::decodeString().

Referenced by pappso::cbor::mzcbor::Precursor::fromCbor().

fromQCborMap()

void pappso::cbor::mzcbor::SelectedIon::fromQCborMap

(

const QCborMap &

reader

)

Definition at line 162 of file precursor.cpp.

{
  QString txt_value;
  for(auto it_binarr = cbor_map.cbegin(); it_binarr != cbor_map.cend(); it_binarr++)
    {
      txt_value = it_binarr.key().toString();
      qDebug() << txt_value;
      if(txt_value == "cvParam")
        {
          cvParamMap.fromQCborArray(it_binarr.value().toArray());
          // reader.next();
        }
    }
}

References cvParamMap.

Referenced by pappso::cbor::mzcbor::QcborSpectrumPrecursor::getSelectedIonList().

getChargeState()

int pappso::cbor::mzcbor::SelectedIon::getChargeState

(

)

const

Definition at line 214 of file precursor.cpp.

{
 
  //      <cvParam cvRef="MS" accession="MS:1000041" value="3" name="charge state" />
 
  auto it = cvParamMap.find("MS:1000041");
  if(it == cvParamMap.end())
    {
      throw pappso::ExceptionNotFound(
        QObject::tr("Charge state not found in SelectedIon cvParam map"));
    }
  qDebug() << it->first << " " << it->second.valueInt;
  return it->second.valueInt;
}

References cvParamMap.

getIntensity()

double pappso::cbor::mzcbor::SelectedIon::getIntensity

(

bool *

isok

)

const

Definition at line 230 of file precursor.cpp.

{
 
  //         <cvParam cvRef="MS" accession="MS:1000042" value="248032.25" name="peak intensity"
  //         unitAccession="MS:1000131" unitName="number of detector counts" unitCvRef="MS" />
  // MS:1000042
  auto it = cvParamMap.find("MS:1000042");
  if(it == cvParamMap.end())
    {
      // throw pappso::ExceptionNotFound(
      // QObject::tr("Intensity not found in SelectedIon cvParam map"));
      *isok = false;
      return 0;
    }
  qDebug() << it->first << " " << it->second.valueDouble;
  double intensity = it->second.valueDouble;
  *isok            = true;
  if(std::isnan(intensity))
    {
      return it->second.valueInt;
    }
  return intensity;
}

References cvParamMap.

getMz()

double pappso::cbor::mzcbor::SelectedIon::getMz

(

)

const

Definition at line 255 of file precursor.cpp.

{
 
  //     <cvParam cvRef="MS" accession="MS:1000744" value="506.2513" name="selected ion m/z"
  //     unitAccession="MS:1000040" unitName="m/z" unitCvRef="MS" />
 
  auto it = cvParamMap.find("MS:1000744");
  if(it == cvParamMap.end())
    {
      throw pappso::ExceptionNotFound(QObject::tr("m/z not found in SelectedIon cvParam map"));
    }
  qDebug() << it->first << " " << it->second.valueDouble;
  return it->second.valueDouble;
}

References cvParamMap.

Member Data Documentation

cvParamMap

CvParamMap pappso::cbor::mzcbor::SelectedIon::cvParamMap

Definition at line 80 of file precursor.h.

Referenced by fromCbor(), fromQCborMap(), getChargeState(), getIntensity(), and getMz().

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

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