pappso::XmlStreamReaderInterface Class Reference

convenient xml reader helper More...

#include <xmlstreamreaderinterface.h>

Inheritance diagram for pappso::XmlStreamReaderInterface:

Public Member Functions
	XmlStreamReaderInterface ()
virtual	~XmlStreamReaderInterface ()
virtual bool	readFile (const QString &fileName)
bool	read (QIODevice *device)
bool	read (const QString &xml_content)
QString	errorString () const

Protected Member Functions
virtual void	readStream ()=0
void	cloneStartElement (QXmlStreamWriter &output) const
void	cloneElement (QXmlStreamWriter &output)
void	cloneNode (QXmlStreamWriter &output)

Protected Attributes
QXmlStreamReader	m_qxmlStreamReader

Detailed Description

convenient xml reader helper

Definition at line 40 of file xmlstreamreaderinterface.h.

Constructor & Destructor Documentation

XmlStreamReaderInterface()

XmlStreamReaderInterface::XmlStreamReaderInterface

(

)

Default constructor

Definition at line 37 of file xmlstreamreaderinterface.cpp.

{
}

~XmlStreamReaderInterface()

XmlStreamReaderInterface::~XmlStreamReaderInterface ( )

virtual

Destructor

Definition at line 41 of file xmlstreamreaderinterface.cpp.

{
}

Member Function Documentation

cloneElement()

void pappso::XmlStreamReaderInterface::cloneElement ( QXmlStreamWriter & output )

protected

Definition at line 120 of file xmlstreamreaderinterface.cpp.

{
  qDebug() << " name=" << m_qxmlStreamReader.name();
  output.writeStartElement(m_qxmlStreamReader.namespaceUri().toString(),
                           m_qxmlStreamReader.name().toString());
  output.writeAttributes(m_qxmlStreamReader.attributes());
 
  qDebug() << m_qxmlStreamReader.name();
  while(m_qxmlStreamReader.readNext() && !m_qxmlStreamReader.isEndElement())
    {
      cloneNode(output);
      if(output.hasError())
        {
          qDebug();
          m_qxmlStreamReader.raiseError(QObject::tr("Error in output stream"));
        }
    }
  qDebug();
  output.writeEndElement();
}

References cloneNode(), and m_qxmlStreamReader.

Referenced by cloneNode(), pappso::WrapTandemResults::process_group_note(), pappso::WrapTandemResults::readStream(), and readStream().

cloneNode()

void pappso::XmlStreamReaderInterface::cloneNode ( QXmlStreamWriter & output )

protected

Definition at line 142 of file xmlstreamreaderinterface.cpp.

{
  qDebug();
  if(m_qxmlStreamReader.isCharacters())
    {
      qDebug() << "isCharacters " << m_qxmlStreamReader.text();
      if((m_qxmlStreamReader.text().toString() == "\n") ||
         (m_qxmlStreamReader.text().toString() == "\n\t"))
        {
          // xml cleaner
        }
      else
        {
          output.writeCharacters(m_qxmlStreamReader.text().toString().trimmed());
        }
    }
  else if(m_qxmlStreamReader.isEndElement())
    {
      qDebug() << "isEndElement";
      output.writeEndElement();
    }
  else if(m_qxmlStreamReader.isStartElement())
    {
      qDebug() << "isStartElement";
      cloneElement(output);
    }
  else
    {
    }
  qDebug();
}

References cloneElement(), and m_qxmlStreamReader.

Referenced by cloneElement(), and readStream().

cloneStartElement()

void pappso::XmlStreamReaderInterface::cloneStartElement ( QXmlStreamWriter & output ) const

protected

Definition at line 108 of file xmlstreamreaderinterface.cpp.

{
  output.writeStartElement(m_qxmlStreamReader.name().toString());
 
  for(auto declaration : m_qxmlStreamReader.namespaceDeclarations())
    {
      output.writeNamespace(declaration.namespaceUri().toString(), declaration.prefix().toString());
    }
  output.writeAttributes(m_qxmlStreamReader.attributes());
}

References m_qxmlStreamReader.

Referenced by pappso::WrapTandemResults::process_group_note(), pappso::WrapTandemInput::readStream(), pappso::WrapTandemResults::readStream(), and readStream().

errorString()

QString pappso::XmlStreamReaderInterface::errorString

(

)

const

Definition at line 46 of file xmlstreamreaderinterface.cpp.

{
  if(m_qxmlStreamReader.errorString().isEmpty())
    return "";
  else
    {
      QString error = QObject::tr("ERROR at line %1 column %2\n%3")
                        .arg(m_qxmlStreamReader.lineNumber())
                        .arg(m_qxmlStreamReader.columnNumber())
                        .arg(m_qxmlStreamReader.errorString());
      return error;
    }
}

References m_qxmlStreamReader.

Referenced by pappso::cbor::psm::MzIdentMlReader::MzIdentMlReader(), pappso::TandemWrapperRun::readTandemPresetFile(), pappso::TandemWrapperRun::wrapTandemInputFile(), and pappso::TandemWrapperRun::writeFinalTandemOutput().

read() [1/2]

bool pappso::XmlStreamReaderInterface::read

(

const QString &

xml_content

)

Definition at line 98 of file xmlstreamreaderinterface.cpp.

{
  m_qxmlStreamReader.clear();
  m_qxmlStreamReader.addData(xml_content);
  m_qxmlStreamReader.setNamespaceProcessing(true);
  readStream();
 
  return !m_qxmlStreamReader.error();
}

References m_qxmlStreamReader, and readStream().

read() [2/2]

bool pappso::XmlStreamReaderInterface::read

(

QIODevice *

device

)

Definition at line 87 of file xmlstreamreaderinterface.cpp.

{
 
  m_qxmlStreamReader.setDevice(device);
  m_qxmlStreamReader.setNamespaceProcessing(true);
  readStream();
 
  return !m_qxmlStreamReader.error();
}

References m_qxmlStreamReader, and readStream().

Referenced by readFile().

readFile()

bool pappso::XmlStreamReaderInterface::readFile ( const QString & fileName )

virtual

Definition at line 61 of file xmlstreamreaderinterface.cpp.

{
  QFile file(fileName);
  if(!file.open(QFile::ReadOnly | QFile::Text))
    {
      m_qxmlStreamReader.raiseError(QObject::tr("Cannot read file %1 : %2")
                                      .arg(QFileInfo(fileName).absoluteFilePath())
                                      .arg(m_qxmlStreamReader.errorString()));
      return false;
    }
 
  if(read(&file))
    {
      file.close();
      return true;
    }
  else
    {
      file.close();
      m_qxmlStreamReader.raiseError(QObject::tr("Error reading file %1 : %2")
                                      .arg(QFileInfo(fileName).absoluteFilePath())
                                      .arg(m_qxmlStreamReader.errorString()));
      return false;
    }
}

References m_qxmlStreamReader, and read().

Referenced by pappso::cbor::psm::MzIdentMlReader::MzIdentMlReader(), pappso::TandemWrapperRun::readTandemPresetFile(), pappso::TandemWrapperRun::wrapTandemInputFile(), and pappso::TandemWrapperRun::writeFinalTandemOutput().

readStream()

virtual void pappso::XmlStreamReaderInterface::readStream ( )

protectedpure virtual

Implemented in pappso::cbor::mzcbor::MzmlConvert, pappso::cbor::psm::MzIdentMlReader, pappso::WrapTandemInput, pappso::WrapTandemResults, and pappso::XtandemPresetReader.

References cloneElement(), cloneNode(), and cloneStartElement().

Referenced by read(), and read().

Member Data Documentation

m_qxmlStreamReader

QXmlStreamReader pappso::XmlStreamReaderInterface::m_qxmlStreamReader

protected

Definition at line 71 of file xmlstreamreaderinterface.h.

Referenced by cloneElement(), cloneNode(), cloneStartElement(), errorString(), pappso::cbor::mzcbor::MzmlConvert::getCurrentSpectrumSize(), pappso::cbor::mzcbor::MzmlConvert::insideElement(), pappso::WrapTandemResults::process_group_note(), read(), read(), pappso::XtandemPresetReader::read_note(), pappso::cbor::psm::MzIdentMlReader::readAnalysisCollectionItem(), pappso::cbor::psm::MzIdentMlReader::readAnalysisData(), pappso::cbor::psm::MzIdentMlReader::readAnalysisProtocolCollection(), pappso::cbor::psm::MzIdentMlReader::readAnalysisSoftware(), pappso::cbor::mzcbor::MzmlConvert::readBinaryDataArrayList(), pappso::cbor::psm::MzIdentMlReader::readCvParam(), pappso::cbor::psm::MzIdentMlReader::readDataCollectionItem(), pappso::cbor::psm::MzIdentMlReader::readDBSequence(), readFile(), pappso::cbor::psm::MzIdentMlReader::readInputs(), pappso::cbor::psm::MzIdentMlReader::readPeptide(), pappso::cbor::psm::MzIdentMlReader::readPeptideEvidence(), pappso::cbor::psm::MzIdentMlReader::readSearchDatabase(), pappso::cbor::psm::MzIdentMlReader::readSequenceCollectionItem(), pappso::cbor::psm::MzIdentMlReader::readSpectraData(), pappso::cbor::psm::MzIdentMlReader::readSpectrumIdentification(), pappso::cbor::psm::MzIdentMlReader::readSpectrumIdentificationItem(), pappso::cbor::psm::MzIdentMlReader::readSpectrumIdentificationResult(), pappso::cbor::mzcbor::MzmlConvert::readStream(), pappso::cbor::psm::MzIdentMlReader::readStream(), pappso::WrapTandemInput::readStream(), pappso::WrapTandemResults::readStream(), pappso::XtandemPresetReader::readStream(), and pappso::cbor::psm::MzIdentMlReader::readUserParam().

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

• pappsomspp/core/processing/xml/xmlstreamreaderinterface.h
• pappsomspp/core/processing/xml/xmlstreamreaderinterface.cpp