bpp::AbstractOProbabilisticAlignment Class Reference

Partial implementation of the OProbabilisticAlignment interface. More...

#include <Bpp/Seq/Io/AbstractOAlignment.h>

Inheritance diagram for bpp::AbstractOProbabilisticAlignment:

Collaboration diagram for bpp::AbstractOProbabilisticAlignment:

Public Member Functions
	AbstractOProbabilisticAlignment ()
virtual	~AbstractOProbabilisticAlignment ()
const std::string	getDataType () const
virtual const std::string	getFormatName () const=0
virtual const std::string	getFormatDescription () const=0
OProbabilisticAlignment methods:
void	writeAlignment (std::ostream &output, const ProbabilisticSiteContainerInterface &psc) const override=0
	Write a container to a stream. More...
void	writeAlignment (const std::string &path, const ProbabilisticSiteContainerInterface &psc, bool overwrite=true) const override
	Write a container to a file. More...

Detailed Description

Partial implementation of the OProbabilisticAlignment interface.

Definition at line 50 of file AbstractOAlignment.h.

Constructor & Destructor Documentation

AbstractOProbabilisticAlignment()

bpp::AbstractOProbabilisticAlignment::AbstractOProbabilisticAlignment ( )

inline

Definition at line 54 of file AbstractOAlignment.h.

~AbstractOProbabilisticAlignment()

virtual bpp::AbstractOProbabilisticAlignment::~AbstractOProbabilisticAlignment ( )

inlinevirtual

Definition at line 55 of file AbstractOAlignment.h.

Member Function Documentation

getDataType()

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

inlinevirtualinherited

Implements bpp::IOFormat.

Reimplemented in bpp::Pasta.

Definition at line 44 of file IoSequence.h.

writeAlignment() [1/2]

void bpp::AbstractOProbabilisticAlignment::writeAlignment ( const std::string &  path, const ProbabilisticSiteContainerInterface &  sc, bool  overwrite = true  ) const

inlineoverridevirtual

Write a container to a file.

Parameters

path	The path to the file to write.
sc	The container to write.
overwrite	If true the sequences are written at the beginning of the file instead of being appended. Any previous content will be lost.

Implements bpp::OProbabilisticAlignment.

Definition at line 65 of file AbstractOAlignment.h.

References writeAlignment().

writeAlignment() [2/2]

void bpp::AbstractOProbabilisticAlignment::writeAlignment ( std::ostream &  output, const ProbabilisticSiteContainerInterface &  sc  ) const

overridepure virtual

Write a container to a stream.

Parameters

output	The output stream where to write.
sc	The container to write.

Implements bpp::OProbabilisticAlignment.

Implemented in bpp::Pasta.

Referenced by writeAlignment().

---

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

• Bpp/Seq/Io/AbstractOAlignment.h