theplu::yat::omic::BamFile< Derived > Class Template Reference

#include </scratch/bob/jari/tmp/pristine/yat-0.10.x/yat/omic/BamFile.h>

Inheritance diagram for theplu::yat::omic::BamFile< Derived >:

List of all members.

Public Member Functions
	BamFile (void)
virtual	~BamFile (void)
	Destructor.
void	close (void)
	close file
bool	is_open (void) const

Protected Member Functions
void	open_base (const std::string &fn, const std::string &mode, const void *aux)
const std::string &	filename (void) const
	filename of bam file

Protected Attributes
samfile_t *	sf_

---

Detailed Description

template<typename Derived>
class theplu::yat::omic::BamFile< Derived >

Base class for bam files

Since:

New in yat 0.10

---

Constructor & Destructor Documentation

template<class Derived >

theplu::yat::omic::BamFile< Derived >::BamFile

(

void

)

Default Constructor

template<class Derived >

theplu::yat::omic::BamFile< Derived >::~BamFile ( void  )

virtual

Destructor.

Closes file if it is open.

---

Member Function Documentation

template<typename Derived>

const std::string& theplu::yat::omic::BamFile< Derived >::filename ( void  ) const

inlineprotected

filename of bam file

The filename is set in open_base().

template<class Derived >

bool theplu::yat::omic::BamFile< Derived >::is_open

(

void

)

const

Returns:

true iff open

template<class Derived >

void theplu::yat::omic::BamFile< Derived >::open_base ( const std::string &  fn, const std::string &  mode, const void *  aux  )

protected

open a bam file named fn with mode mode

See also:

samopen

---

Member Data Documentation

template<typename Derived>

samfile_t* theplu::yat::omic::BamFile< Derived >::sf_

protected

bam file handler

---

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

• /scratch/bob/jari/tmp/pristine/yat-0.10.x/yat/omic/BamFile.h