A crtp-base class for alignment traceback matrices. More...

Inheritance diagram for seqan3::detail::alignment_trace_matrix_base< trace_t >:

Public Attributes
std::vector< element_type, allocator_type >	cache_left {}
	Internal cache for the trace values to the left.

element_type	cache_up {}
	Internal cache for the last trace value above.

pool_type	data {}
	The linearised matrix storing the trace data in column-major-order.

size_type	num_cols {}
	The number of columns.

size_type	num_rows {}
	The number of num_rows.

Protected Types
using	allocator_type = std::conditional_t< detail::simd_concept< trace_t >, aligned_allocator< element_type, sizeof(element_type)>, std::allocator< element_type > >
	The allocator type. Uses seqan3::aligned_allocator if storing seqan3::detail::simd_concepttypes.

using	coordinate_type = advanceable_alignment_coordinate< advanceable_alignment_coordinate_state::row >
	The coordinate type.

using	element_type = trace_t
	The actual element type.

using	pool_type = two_dimensional_matrix< element_type, allocator_type, matrix_major_order::column >
	The type of the underlying memory pool.

using	size_type = size_t
	The size type.

Detailed Description

template<typename trace_t>
struct seqan3::detail::alignment_trace_matrix_base< trace_t >

A crtp-base class for alignment traceback matrices.

Template Parameters

derived_t	The derived type.
trace_t	The type of the trace directions.

Manages the actual storage as a std::vector. How much memory is allocated is handled by the derived type. The trace_t must be either a seqan3::detail::trace_directions enum value or a seqan3::detail::simd_conceptvector over seqan3::detail::trace_directions.

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

Public Attributes