AlignmentReference Class Reference

Inheritance diagram for AlignmentReference:

Collaboration diagram for AlignmentReference:

Public Member Functions
	AlignmentReference (GB_CSTR alignment_, int max_seq_length_, const AlignParams &ali_params_)
virtual	~AlignmentReference ()
virtual ARB_ERROR	align_to (GBDATA *gb_toalign) const =0
GB_CSTR	get_alignment () const
int	get_max_seq_length () const
const AlignParams &	get_ali_params () const

Detailed Description

Definition at line 1728 of file fast_aligner.cxx.

Constructor & Destructor Documentation

AlignmentReference::AlignmentReference ( GB_CSTR  alignment_, int  max_seq_length_, const AlignParams &  ali_params_  )

inline

Definition at line 1734 of file fast_aligner.cxx.

virtual AlignmentReference::~AlignmentReference ( )

inlinevirtual

Definition at line 1741 of file fast_aligner.cxx.

Member Function Documentation

virtual ARB_ERROR AlignmentReference::align_to ( GBDATA *  gb_toalign ) const

pure virtual

Implemented in SearchRelativesReference, ConsensusReference, and ExplicitReference.

GB_CSTR AlignmentReference::get_alignment ( ) const

inline

Definition at line 1745 of file fast_aligner.cxx.

Referenced by ExplicitReference::align_to(), ConsensusReference::align_to(), and SearchRelativesReference::align_to().

int AlignmentReference::get_max_seq_length ( ) const

inline

Definition at line 1746 of file fast_aligner.cxx.

Referenced by ExplicitReference::align_to(), ConsensusReference::align_to(), and SearchRelativesReference::align_to().

const AlignParams& AlignmentReference::get_ali_params ( ) const

inline

Definition at line 1747 of file fast_aligner.cxx.

Referenced by ExplicitReference::align_to(), ConsensusReference::align_to(), and SearchRelativesReference::align_to().

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

• SL/FAST_ALIGNER/fast_aligner.cxx