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 More...

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

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

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

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;
 }