Rate Distribution I/O in BppO format. More...

#include <Bpp/Phyl/Io/BppORateDistributionFormat.h>

Inheritance diagram for bpp::BppORateDistributionFormat:

Collaboration diagram for bpp::BppORateDistributionFormat:

Public Member Functions
	BppORateDistributionFormat (bool allowConstant)
	Build a new BppORateDistributionFormat object. More...

virtual	~BppORateDistributionFormat ()

DiscreteDistribution *	read (const std::string &distDescription, bool parseArguments)

void	write (const DiscreteDistribution &dist, OutputStream &out, std::map< std::string, std::string > &globalAliases, std::vector< std::string > &writtenNames) const

Private Attributes
bool	allowConstant_

Detailed Description

Rate Distribution I/O in BppO format.

Creates a new discrete distribution object according to distribution description syntax (see the Bio++ Progam Suite manual for a detailed description of this syntax).

Rate distributions are normalized and have a mean of 1, so that branch lengths are measured in mean number of substitutions per site.

See also: BppODiscreteDistribtution for a more generic parser.

Definition at line 60 of file BppORateDistributionFormat.h.

Constructor & Destructor Documentation

◆ BppORateDistributionFormat()

bpp::BppORateDistributionFormat::BppORateDistributionFormat ( bool allowConstant )

inline

Build a new BppORateDistributionFormat object.

Parameters

allowConstant Is contant distribution allowed.

Definition at line 72 of file BppORateDistributionFormat.h.

◆ ~BppORateDistributionFormat()

virtual bpp::BppORateDistributionFormat::~BppORateDistributionFormat ( )

inlinevirtual

Definition at line 77 of file BppORateDistributionFormat.h.

Member Function Documentation

◆ read()

DiscreteDistribution * BppORateDistributionFormat::read	(	const std::string &	distDescription,
		bool	parseArguments
	)

Definition at line 61 of file BppORateDistributionFormat.cpp.

References read().

Referenced by bpp::PhylogeneticsApplicationTools::getRateDistribution(), and read().

◆ write()

void BppORateDistributionFormat::write	(	const DiscreteDistribution &	dist,
		OutputStream &	out,
		std::map< std::string, std::string > &	globalAliases,
		std::vector< std::string > &	writtenNames
	)		const