bpp::Genepop Class Reference

The Genepop input format for popgenlib. More...

#include <Bpp/PopGen/DataSet/Io/Genepop/Genepop.h>

Inheritance diagram for bpp::Genepop:

Collaboration diagram for bpp::Genepop:

Public Member Functions
	Genepop ()
	~Genepop ()
The IDataSet interface.
void	read (std::istream &is, DataSet &data_set)
	Read a DataSet on istream. More...
void	read (const std::string &path, DataSet &data_set)
	Read a DataSet from a text file. More...
DataSet *	read (std::istream &is)
	Read istream and return a DataSet. More...
DataSet *	read (const std::string &path)
	Read a text file and return a DataSet. More...
The IOFormat interface
const std::string	getFormatName () const
const std::string	getFormatDescription () const

Private Member Functions
The IOFormat interface.
const std::string	getDataType () const

Detailed Description

The Genepop input format for popgenlib.

Author

Sylvain Gaillard

Definition at line 59 of file Genepop.h.

Constructor & Destructor Documentation

Genepop()

Genepop::Genepop

(

)

Definition at line 45 of file Genepop.cpp.

~Genepop()

Genepop::~Genepop

(

)

Definition at line 47 of file Genepop.cpp.

Member Function Documentation

getDataType()

const std::string bpp::IODataSet::getDataType ( ) const

inlineprivatevirtualinherited

Implements bpp::IOFormat.

Definition at line 67 of file IODataSet.h.

getFormatDescription()

const std::string bpp::Genepop::getFormatDescription ( ) const

inlinevirtual

Implements bpp::IOFormat.

Definition at line 89 of file Genepop.h.

getFormatName()

const std::string bpp::Genepop::getFormatName ( ) const

inlinevirtual

Implements bpp::IOFormat.

Definition at line 84 of file Genepop.h.

read() [1/4]

DataSet * Genepop::read ( const std::string &  path )

virtual

Read a text file and return a DataSet.

Reimplemented from bpp::AbstractIDataSet.

Definition at line 204 of file Genepop.cpp.

References bpp::AbstractIDataSet::read().

read() [2/4]

void Genepop::read ( const std::string &  path, DataSet &  data_set  )

virtual

Read a DataSet from a text file.

Reimplemented from bpp::AbstractIDataSet.

Definition at line 194 of file Genepop.cpp.

References bpp::AbstractIDataSet::read().

read() [3/4]

DataSet * Genepop::read ( std::istream &  is )

virtual

Read istream and return a DataSet.

Reimplemented from bpp::AbstractIDataSet.

Definition at line 199 of file Genepop.cpp.

References bpp::AbstractIDataSet::read().

read() [4/4]

void Genepop::read ( std::istream &  is, DataSet &  data_set  )

virtual

Read a DataSet on istream.

Implements bpp::AbstractIDataSet.

Definition at line 49 of file Genepop.cpp.

References bpp::DataSet::addAlleleInfoByLocusPosition(), bpp::DataSet::addEmptyGroup(), bpp::DataSet::addEmptyIndividualToGroup(), bpp::DataSet::getGroupPosition(), bpp::DataSet::getIndividualPositionInGroup(), bpp::FileTools::getNextLine(), bpp::StringTokenizer::hasMoreToken(), bpp::DataSet::initAnalyzedLoci(), bpp::DataSet::initIndividualGenotypeInGroup(), bpp::StringTokenizer::nextToken(), bpp::StringTokenizer::numberOfRemainingTokens(), bpp::TextTools::removeSurroundingWhiteSpaces(), bpp::DataSet::setIndividualMonolocusGenotypeByAlleleIdInGroup(), bpp::DataSet::setLocusInfo(), bpp::TextTools::toString(), and bpp::TextTools::toUpper().

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

• Bpp/PopGen/DataSet/Io/Genepop/Genepop.h
• Bpp/PopGen/DataSet/Io/Genepop/Genepop.cpp