This is the complete list of members for nvbio::bowtie2::cuda::AllMappingPipelineState< ScoringScheme >, including all inherited members.

AllMappingPipelineState(const uint32 _anchor, const read_batch_type _reads, const read_batch_type _reads_o, const uint32 _genome_len, const genome_iterator _genome, const fmi_type _fmi, const rfmi_type _rfmi, const ScoringScheme _scoring_scheme, const int32 _score_limit, Aligner &_aligner)	nvbio::bowtie2::cuda::AllMappingPipelineState< ScoringScheme >	inline
anchor	nvbio::bowtie2::cuda::BaseScoringPipelineState< ScoringScheme >
base_type typedef	nvbio::bowtie2::cuda::AllMappingPipelineState< ScoringScheme >
BaseScoringPipelineState(const uint32 _anchor, const read_batch_type _reads, const read_batch_type _reads_o, const uint32 _genome_len, const genome_iterator _genome, const fmi_type _fmi, const rfmi_type _rfmi, const ScoringScheme _scoring_scheme, const int32 _score_limit, Aligner &_aligner)	nvbio::bowtie2::cuda::BaseScoringPipelineState< ScoringScheme >	inline
buffer_alignments	nvbio::bowtie2::cuda::AllMappingPipelineState< ScoringScheme >
buffer_read_info	nvbio::bowtie2::cuda::AllMappingPipelineState< ScoringScheme >
cigar	nvbio::bowtie2::cuda::AllMappingPipelineState< ScoringScheme >
cigar_coords	nvbio::bowtie2::cuda::AllMappingPipelineState< ScoringScheme >
dp_buffer	nvbio::bowtie2::cuda::AllMappingPipelineState< ScoringScheme >
dp_buffer_size	nvbio::bowtie2::cuda::AllMappingPipelineState< ScoringScheme >
fmi	nvbio::bowtie2::cuda::BaseScoringPipelineState< ScoringScheme >
fmi_type typedef	nvbio::bowtie2::cuda::AllMappingPipelineState< ScoringScheme >
genome	nvbio::bowtie2::cuda::BaseScoringPipelineState< ScoringScheme >
genome_iterator typedef	nvbio::bowtie2::cuda::AllMappingPipelineState< ScoringScheme >
genome_length	nvbio::bowtie2::cuda::BaseScoringPipelineState< ScoringScheme >
get_reads(const uint32 mate) const	nvbio::bowtie2::cuda::BaseScoringPipelineState< ScoringScheme >	inline
hits	nvbio::bowtie2::cuda::BaseScoringPipelineState< ScoringScheme >
hits_queue_size	nvbio::bowtie2::cuda::BaseScoringPipelineState< ScoringScheme >
idx_queue	nvbio::bowtie2::cuda::BaseScoringPipelineState< ScoringScheme >
mds	nvbio::bowtie2::cuda::AllMappingPipelineState< ScoringScheme >
n_hits_per_read	nvbio::bowtie2::cuda::BaseScoringPipelineState< ScoringScheme >
opposite_queue	nvbio::bowtie2::cuda::BaseScoringPipelineState< ScoringScheme >
opposite_queue_size	nvbio::bowtie2::cuda::BaseScoringPipelineState< ScoringScheme >
output_read_info	nvbio::bowtie2::cuda::AllMappingPipelineState< ScoringScheme >
read_batch_type typedef	nvbio::bowtie2::cuda::AllMappingPipelineState< ScoringScheme >
reads	nvbio::bowtie2::cuda::BaseScoringPipelineState< ScoringScheme >
reads_o	nvbio::bowtie2::cuda::BaseScoringPipelineState< ScoringScheme >
rfmi	nvbio::bowtie2::cuda::BaseScoringPipelineState< ScoringScheme >
rfmi_type typedef	nvbio::bowtie2::cuda::AllMappingPipelineState< ScoringScheme >
scheme_type typedef	nvbio::bowtie2::cuda::AllMappingPipelineState< ScoringScheme >
score_limit	nvbio::bowtie2::cuda::BaseScoringPipelineState< ScoringScheme >
scoring_queues	nvbio::bowtie2::cuda::BaseScoringPipelineState< ScoringScheme >
scoring_scheme	nvbio::bowtie2::cuda::BaseScoringPipelineState< ScoringScheme >