pappso::cbor::mzcbor::Scan Struct Reference

#include <scan.h>

Public Member Functions
void	fromCbor (CborStreamReader &reader)
void	fromQCborMap (const QCborMap &reader)
QJsonObject	toJsonObject () const
	write the structure to a JSON object
double	getRtInSeconds () const

Public Attributes
CvParamMap	cvParamMap

Detailed Description

Todo

write docs

Definition at line 44 of file scan.h.

Member Function Documentation

fromCbor()

void pappso::cbor::mzcbor::Scan::fromCbor

(

CborStreamReader &

reader

)

Definition at line 72 of file scan.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")
                {
                  // precursorListCvParamMap = CvParam::getCvParamsMapFromCbor(reader);
                  cvParamMap.fromCbor(reader);
                }
              else
                {
                  reader.next();
                }
            }
          else
            {
              reader.next();
            }
        }
      else
        {
          reader.next();
        }
    }
  reader.leaveContainer();
}

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

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

fromQCborMap()

void pappso::cbor::mzcbor::Scan::fromQCborMap

(

const QCborMap &

reader

)

Definition at line 34 of file scan.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::QcborSpectrum::getRetentionTimeInSeconds().

getRtInSeconds()

double pappso::cbor::mzcbor::Scan::getRtInSeconds

(

)

const

Definition at line 49 of file scan.cpp.

{
  //            <cvParam cvRef="MS" accession="MS:1000016" value="0.0048758833" name="scan start
  //            time" unitAccession="UO:0000031" unitName="minute" unitCvRef="UO" />
 
  auto it = cvParamMap.find("MS:1000016");
  if(it == cvParamMap.end())
    {
      throw pappso::ExceptionNotFound(QObject::tr("retention time not found in cvParam map"));
    }
  double rt_seconds = it->second.valueDouble;
  if(it->second.unitAccession == "UO:0000031")
    {
      // // minutes
      rt_seconds = rt_seconds * 60;
    }
 
  //              <cvParam cvRef="MS" accession="MS:1000016" value="0" name="scan start time"
  //              unitAccession="UO:0000031" unitName="minute" unitCvRef="UO" />
  return rt_seconds;
}

References cvParamMap.

Referenced by pappso::cbor::mzcbor::QcborSpectrum::getRetentionTimeInSeconds().

toJsonObject()

QJsonObject pappso::cbor::mzcbor::Scan::toJsonObject

(

)

const

write the structure to a JSON object

Returns

QJsonObject

Definition at line 110 of file scan.cpp.

{
  QJsonObject scan;
  scan.insert("cvParam", cvParamMap.toJsonArray());
  return scan;
}

References cvParamMap.

Member Data Documentation

cvParamMap

CvParamMap pappso::cbor::mzcbor::Scan::cvParamMap

Definition at line 56 of file scan.h.

Referenced by fromCbor(), fromQCborMap(), getRtInSeconds(), and toJsonObject().

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

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