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nvbio::bowtie2::cuda::detail::BestTracebackStream< ALN_IDX, AlignerType, PipelineType > Member List

This is the complete list of members for nvbio::bowtie2::cuda::detail::BestTracebackStream< ALN_IDX, AlignerType, PipelineType >, including all inherited members.

aligner() constnvbio::bowtie2::cuda::detail::AlignmentStreamBase< TRACEBACK_STREAM, AlignerType, PipelineType >inline
aligner_type typedefnvbio::bowtie2::cuda::detail::AlignmentStreamBase< TRACEBACK_STREAM, AlignerType, PipelineType >
AlignmentStreamBase(const PipelineType _pipeline, const aligner_type _aligner, const ParamsPOD _params)nvbio::bowtie2::cuda::detail::AlignmentStreamBase< TRACEBACK_STREAM, AlignerType, PipelineType >inline
base_type typedefnvbio::bowtie2::cuda::detail::BestTracebackStream< ALN_IDX, AlignerType, PipelineType >
BestTracebackStream(const MateType _mate_type, const uint32 _count, const uint32 *_idx, io::Alignment *_best_data, const uint32 _best_stride, const uint32 _band_len, const PipelineType _pipeline, const AlignerType _aligner, const ParamsPOD _params)nvbio::bowtie2::cuda::detail::BestTracebackStream< ALN_IDX, AlignerType, PipelineType >inline
context_type typedefnvbio::bowtie2::cuda::detail::BestTracebackStream< ALN_IDX, AlignerType, PipelineType >
finish(const uint32 i, const context_type *context, const uint32 ed, const int32 score)nvbio::bowtie2::cuda::detail::BestTracebackStream< ALN_IDX, AlignerType, PipelineType >inline
init_context(const uint32 i, context_type *context) const nvbio::bowtie2::cuda::detail::BestTracebackStream< ALN_IDX, AlignerType, PipelineType >inline
load_strings(const uint32 i, const uint32 window_begin, const uint32 window_end, const context_type *context, strings_type *strings) constnvbio::bowtie2::cuda::detail::AlignmentStreamBase< TRACEBACK_STREAM, AlignerType, PipelineType >inline
m_alignernvbio::bowtie2::cuda::detail::AlignmentStreamBase< TRACEBACK_STREAM, AlignerType, PipelineType >
m_band_lennvbio::bowtie2::cuda::detail::BestTracebackStream< ALN_IDX, AlignerType, PipelineType >
m_best_datanvbio::bowtie2::cuda::detail::BestTracebackStream< ALN_IDX, AlignerType, PipelineType >
m_best_stridenvbio::bowtie2::cuda::detail::BestTracebackStream< ALN_IDX, AlignerType, PipelineType >
m_countnvbio::bowtie2::cuda::detail::BestTracebackStream< ALN_IDX, AlignerType, PipelineType >
m_idxnvbio::bowtie2::cuda::detail::BestTracebackStream< ALN_IDX, AlignerType, PipelineType >
m_mate_typenvbio::bowtie2::cuda::detail::BestTracebackStream< ALN_IDX, AlignerType, PipelineType >
m_paramsnvbio::bowtie2::cuda::detail::AlignmentStreamBase< TRACEBACK_STREAM, AlignerType, PipelineType >
m_pipelinenvbio::bowtie2::cuda::detail::AlignmentStreamBase< TRACEBACK_STREAM, AlignerType, PipelineType >
mate_type() const nvbio::bowtie2::cuda::detail::BestTracebackStream< ALN_IDX, AlignerType, PipelineType >inline
max_pattern_length() const nvbio::bowtie2::cuda::detail::BestTracebackStream< ALN_IDX, AlignerType, PipelineType >inline
max_text_length() const nvbio::bowtie2::cuda::detail::BestTracebackStream< ALN_IDX, AlignerType, PipelineType >inline
output(const uint32 i, const context_type *context)nvbio::bowtie2::cuda::detail::BestTracebackStream< ALN_IDX, AlignerType, PipelineType >inline
pattern_length(const uint32 i, const context_type *context) constnvbio::bowtie2::cuda::detail::AlignmentStreamBase< TRACEBACK_STREAM, AlignerType, PipelineType >inline
scheme_type typedefnvbio::bowtie2::cuda::detail::BestTracebackStream< ALN_IDX, AlignerType, PipelineType >
size() const nvbio::bowtie2::cuda::detail::BestTracebackStream< ALN_IDX, AlignerType, PipelineType >inline
strings_type typedefnvbio::bowtie2::cuda::detail::AlignmentStreamBase< TRACEBACK_STREAM, AlignerType, PipelineType >
text_length(const uint32 i, const context_type *context) constnvbio::bowtie2::cuda::detail::AlignmentStreamBase< TRACEBACK_STREAM, AlignerType, PipelineType >inline