vdj_pipe::Vm_access_paired_emid Class Reference

Access to value map for paired eMID read pipeline and processing steps. More...

#include <value_map_access_paired.hpp>

Inheritance diagram for vdj_pipe::Vm_access_paired_emid:

Collaboration diagram for vdj_pipe::Vm_access_paired_emid:

Public Member Functions
	Vm_access_paired_emid ()
seq_type const &	emid_fwd () const
void	emid_fwd (seq_type const &seq)
seq_type const &	emid_rev () const
void	emid_rev (seq_type const &seq)
std::string const &	emid_path_fwd () const
std::string const &	emid_path_rev () const
void	emid_path_fwd (std::string const &s)
void	emid_path_rev (std::string const &s)
Public Member Functions inherited from vdj_pipe::Vm_access_paired
	Vm_access_paired ()
std::string const &	description_fwd () const
void	description_fwd (std::string const &descr)
std::string const &	description_rev () const
void	description_rev (std::string const &descr)
seq_type const &	sequence_fwd () const
std::string	sequence_fwd (const bool trim) const
void	sequence_fwd (seq_type const &seq)
seq_type const &	sequence_rev () const
std::string	sequence_rev (const bool trim, const bool reverse) const
void	sequence_rev (seq_type const &seq)
qual_type const &	quality_fwd () const
qual_type	quality_fwd (const bool trim) const
void	quality_fwd (qual_type const &qual)
qual_type const &	quality_rev () const
qual_type	quality_rev (const bool trim, const bool reverse) const
void	quality_rev (qual_type const &qual)
sequence_interval	interval_fwd () const
void	interval_fwd (sequence_interval const &si)
sequence_interval	interval_rev () const
void	interval_rev (sequence_interval const &si)
std::string const &	sequence_path_fwd () const
void	sequence_path_fwd (std::string const &s)
std::string const &	sequence_path_rev () const
void	sequence_path_rev (std::string const &s)
std::string const &	quality_path_fwd () const
void	quality_path_fwd (std::string const &s)
std::string const &	quality_path_rev () const
void	quality_path_rev (std::string const &s)
Public Member Functions inherited from vdj_pipe::Value_map
	Value_map ()
iterator	begin () const
iterator	end () const
std::size_t	size () const
void	clear_values ()
std::string const &	name (const Val_id vid) const
Val_id	insert_name (std::string const &name)
Val_id	insert_new_name (std::string const &name)
Val_id const *	find_id (std::string const &name) const
Val_id	value_id (std::string const &name) const
value_variant const &	operator[] (const Val_id vid) const
value_variant &	operator[] (const Val_id vid)
long	read_count () const
void	read_count_reset ()
void	read_count_incr ()
long	file_read_count () const
void	file_read_count_reset ()
void	file_read_count_incr ()
std::string const &	seq_file_name () const
void	seq_file_name (std::string const &fn)
std::string const &	read_id_nothrow () const
std::string const &	read_id () const
void	read_id (std::string const &id)
template<typename T >
T const &	value (std::string const &name) const
template<typename T >
T const *	value_ptr (std::string const &name) const
template<typename T >
T const &	value (const Val_id id) const
template<typename T >
T const *	value_ptr (const Val_id id) const
std::string const &	str_nothrow (const Val_id id) const

Private Attributes
Value_ids_emid	ids_

Additional Inherited Members
Public Types inherited from vdj_pipe::Vm_access_paired
typedef Seq_record::sequence	seq_type
typedef Qual_record::quality	qual_type
Public Types inherited from vdj_pipe::Value_map
typedef map_type::iterator	iterator
typedef iterator	const_iterator
Protected Member Functions inherited from vdj_pipe::Value_map
std::string	sequence (const Val_id seq_id, const Val_id trim_id, const bool trimmed, const bool reverse_compl) const
Qual_record::quality	quality (const Val_id qual_id, const Val_id trim_id, const bool trimmed, const bool reverse_compl) const
Protected Attributes inherited from vdj_pipe::Vm_access_paired
Value_ids_paired	ids_

Detailed Description

Access to value map for paired eMID read pipeline and processing steps.

Constructor & Destructor Documentation

vdj_pipe::Vm_access_paired_emid::Vm_access_paired_emid ( )

inline

Member Function Documentation

seq_type const& vdj_pipe::Vm_access_paired_emid::emid_fwd ( ) const

inline

void vdj_pipe::Vm_access_paired_emid::emid_fwd ( seq_type const &  seq )

inline

std::string const& vdj_pipe::Vm_access_paired_emid::emid_path_fwd ( ) const

inline

void vdj_pipe::Vm_access_paired_emid::emid_path_fwd ( std::string const &  s )

inline

std::string const& vdj_pipe::Vm_access_paired_emid::emid_path_rev ( ) const

inline

void vdj_pipe::Vm_access_paired_emid::emid_path_rev ( std::string const &  s )

inline

seq_type const& vdj_pipe::Vm_access_paired_emid::emid_rev ( ) const

inline

void vdj_pipe::Vm_access_paired_emid::emid_rev ( seq_type const &  seq )

inline

Member Data Documentation

Value_ids_emid vdj_pipe::Vm_access_paired_emid::ids_

private

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

• include/vdj_pipe/value_map_access_paired.hpp