bpp::CsvStatisticsOutputIterationListener Class Reference

Iteration listener that works with a SequenceStatisticsMafIterator, enabling output of results in a file in CSv format. More...

#include <Bpp/Seq/Io/Maf/IterationListener.h>

Inheritance diagram for bpp::CsvStatisticsOutputIterationListener:

Collaboration diagram for bpp::CsvStatisticsOutputIterationListener:

Public Member Functions
	CsvStatisticsOutputIterationListener (SequenceStatisticsMafIterator *iterator, const std::string &refSpecies, OutputStream *output, const std::string &sep="\t")
	CsvStatisticsOutputIterationListener (const CsvStatisticsOutputIterationListener &listener)
CsvStatisticsOutputIterationListener &	operator= (const CsvStatisticsOutputIterationListener &listener)
virtual	~CsvStatisticsOutputIterationListener ()
virtual void	iterationStarts ()
virtual void	iterationMoves (const MafBlock &currentBlock)
virtual void	iterationStops ()

Protected Attributes
SequenceStatisticsMafIterator *	statsIterator_

Private Attributes
OutputStream *	output_
std::string	sep_
std::string	refSpecies_

Detailed Description

Iteration listener that works with a SequenceStatisticsMafIterator, enabling output of results in a file in CSv format.

Definition at line 94 of file IterationListener.h.

Constructor & Destructor Documentation

CsvStatisticsOutputIterationListener() [1/2]

bpp::CsvStatisticsOutputIterationListener::CsvStatisticsOutputIterationListener ( SequenceStatisticsMafIterator *  iterator, const std::string &  refSpecies, OutputStream *  output, const std::string &  sep = "\t"  )

inline

Definition at line 103 of file IterationListener.h.

CsvStatisticsOutputIterationListener() [2/2]

bpp::CsvStatisticsOutputIterationListener::CsvStatisticsOutputIterationListener ( const CsvStatisticsOutputIterationListener &  listener )

inline

Definition at line 106 of file IterationListener.h.

~CsvStatisticsOutputIterationListener()

virtual bpp::CsvStatisticsOutputIterationListener::~CsvStatisticsOutputIterationListener ( )

inlinevirtual

Definition at line 118 of file IterationListener.h.

Member Function Documentation

iterationMoves()

void CsvStatisticsOutputIterationListener::iterationMoves ( const MafBlock &  currentBlock )

virtual

Implements bpp::IterationListener.

Definition at line 58 of file IterationListener.cpp.

References bpp::MafSequence::getChromosome(), bpp::MafBlock::getSequenceForSpecies(), bpp::MafSequence::hasCoordinates(), bpp::MafBlock::hasSequenceForSpecies(), bpp::MafSequence::start(), and bpp::MafSequence::stop().

iterationStarts()

void CsvStatisticsOutputIterationListener::iterationStarts ( )

virtual

Implements bpp::IterationListener.

Definition at line 48 of file IterationListener.cpp.

iterationStops()

virtual void bpp::CsvStatisticsOutputIterationListener::iterationStops ( )

inlinevirtual

Implements bpp::IterationListener.

Definition at line 123 of file IterationListener.h.

operator=()

CsvStatisticsOutputIterationListener& bpp::CsvStatisticsOutputIterationListener::operator= ( const CsvStatisticsOutputIterationListener &  listener )

inline

Definition at line 109 of file IterationListener.h.

References bpp::AbstractStatisticsOutputIterationListener::operator=(), output_, refSpecies_, and sep_.

Member Data Documentation

output_

OutputStream* bpp::CsvStatisticsOutputIterationListener::output_

private

Definition at line 98 of file IterationListener.h.

Referenced by operator=().

refSpecies_

std::string bpp::CsvStatisticsOutputIterationListener::refSpecies_

private

Definition at line 100 of file IterationListener.h.

Referenced by operator=().

sep_

std::string bpp::CsvStatisticsOutputIterationListener::sep_

private

Definition at line 99 of file IterationListener.h.

Referenced by operator=().

statsIterator_

SequenceStatisticsMafIterator* bpp::AbstractStatisticsOutputIterationListener::statsIterator_

protectedinherited

Definition at line 70 of file IterationListener.h.

Referenced by bpp::AbstractStatisticsOutputIterationListener::operator=().

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

• Bpp/Seq/Io/Maf/IterationListener.h
• Bpp/Seq/Io/Maf/IterationListener.cpp