Look for external MIDs in FASTA/Q description lines. More...

Inheritance diagram for vdj_pipe::External_mid_inline:

Collaboration diagram for vdj_pipe::External_mid_inline:

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Public Member Functions
	External_mid_inline (Vm_access_single const &vma, boost::property_tree::ptree const &pt, Pipe_environment &pe)

void	run ()

Public Member Functions inherited from vdj_pipe::detail::Step_base_single
void	reset_access (Value_ids_single const &ids)

Public Member Functions inherited from vdj_pipe::detail::Step_base
char	delimiter () const

	Step_base (boost::property_tree::ptree const &pt, Pipe_environment const &pe)

void	summary (std::ostream &) const

Additional Inherited Members
Public Types inherited from vdj_pipe::detail::Step_base_single
typedef Vm_access_single	vma_type

Public Types inherited from vdj_pipe::detail::Step_base
typedef Seq_record::sequence	seq_type

typedef Qual_record::quality	qual_type

Public Types inherited from vdj_pipe::detail::External_mid_base
typedef Step_base::Err	Err

Protected Member Functions inherited from vdj_pipe::detail::Step_base_single
	Step_base_single (vma_type const &vma, boost::property_tree::ptree const &pt, Pipe_environment const &pe)

Protected Member Functions inherited from vdj_pipe::detail::External_mid_base
	VDJ_PIPE_KEYWORD_STRUCT (kwds,(fasta_path)(pairs_path)(value_name)(min_score)(max_mismatches)(require_best))

std::size_t	mid_size () const

void	find_mid (const boost::string_ref seq, Value_map &vm)

Protected Attributes inherited from vdj_pipe::detail::Step_base_single
Vm_access_single	vma_

Detailed Description

Look for external MIDs in FASTA/Q description lines.

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

Public Member Functions