factory to build different kinds of XIC extractors More...

#include <msrunxicextractorfactory.h>

Public Member Functions
MsRunXicExtractorInterfaceSp	buildMsRunXicExtractorSp (MsRunReaderSPtr &msrun_reader) const
	build a simple XIC extractor that directly uses Proeowizard library to read and extract XICs building the xic extractor is fast, but extracting each XIC is slow

void	setTmpDir (const QString &dir_name)
	set the temporary working directory

void	setMsRunXicExtractorFactoryType (pappso::MsRunXicExtractorFactoryType type)
	sets the xic extractor type

Static Public Member Functions
static MsRunXicExtractorFactory &	getInstance ()
	singleton to get the only instance of the factory

Private Member Functions
	MsRunXicExtractorFactory ()

virtual	~MsRunXicExtractorFactory ()

Private Attributes
QString	m_tmpDirName

MsRunXicExtractorFactoryType	m_type = MsRunXicExtractorFactoryType::nose

Static Private Attributes
static MsRunXicExtractorFactory	m_instance

Detailed Description

factory to build different kinds of XIC extractors

Definition at line 67 of file msrunxicextractorfactory.h.

Constructor & Destructor Documentation

◆ MsRunXicExtractorFactory()

pappso::MsRunXicExtractorFactory::MsRunXicExtractorFactory ( )

private

Definition at line 52 of file msrunxicextractorfactory.cpp.

53{

54}

◆ ~MsRunXicExtractorFactory()

pappso::MsRunXicExtractorFactory::~MsRunXicExtractorFactory ( )

privatevirtual

Definition at line 55 of file msrunxicextractorfactory.cpp.

56{

57}

Member Function Documentation

◆ buildMsRunXicExtractorSp()

MsRunXicExtractorInterfaceSp pappso::MsRunXicExtractorFactory::buildMsRunXicExtractorSp ( MsRunReaderSPtr & msrun_reader ) const

build a simple XIC extractor that directly uses Proeowizard library to read and extract XICs building the xic extractor is fast, but extracting each XIC is slow

Parameters

msrun_reader the MsRun reader on which the XIC extractor will run

Definition at line 72 of file msrunxicextractorfactory.cpp.

{
 
  pappso::TimsMsRunReaderMs2 *tims2_reader =
    dynamic_cast<pappso::TimsMsRunReaderMs2 *>(msrun_reader.get());
  if(tims2_reader == nullptr)
    {
      // NO TIMS
      if((m_type == MsRunXicExtractorFactoryType::nose) ||
         (m_type == MsRunXicExtractorFactoryType::direct))
        {
          std::shared_ptr<MsRunXicExtractor> msrun_xic_extractor_sp =
            std::make_shared<MsRunXicExtractor>(
              MsRunXicExtractor(msrun_reader));
          return (msrun_xic_extractor_sp);
        }
      else if(m_type == MsRunXicExtractorFactoryType::disk)
        {
 
          std::shared_ptr<MsRunXicExtractorDisk> msrun_xic_extractor_sp =
            std::make_shared<MsRunXicExtractorDisk>(
              MsRunXicExtractorDisk(msrun_reader, QDir(m_tmpDirName)));
 
          msrun_xic_extractor_sp.get()->prepareExtractor();
          return (msrun_xic_extractor_sp);
        }
      else if(m_type == MsRunXicExtractorFactoryType::diskbuffer)
        {
 
          std::shared_ptr<MsRunXicExtractorDiskBuffer> msrun_xic_extractor_sp =
            std::make_shared<MsRunXicExtractorDiskBuffer>(
              MsRunXicExtractorDiskBuffer(msrun_reader, QDir(m_tmpDirName)));
          msrun_xic_extractor_sp.get()->prepareExtractor();
          return (msrun_xic_extractor_sp);
        }
    }
  else
    {
      // TIMS
      std::shared_ptr<TimsDirectXicExtractor> msrun_xic_extractor_sp =
        std::make_shared<TimsDirectXicExtractor>(msrun_reader);
      return (msrun_xic_extractor_sp);
    }
  return nullptr;
}