score_best_impl.h

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#pragma once

#include <nvbio/alignment/alignment.h>
#include <nvbio/alignment/batched.h>
#include <nvbio/io/utils.h>

namespace nvbio {
namespace bowtie2 {
namespace cuda {

template <typename ScoringScheme> struct BaseScoringPipelineState;
template <typename ScoringScheme> struct BestApproxScoringPipelineState;



template <typename scheme_type>
void score_best_t(
    const uint32                                        band_len,
    const BestApproxScoringPipelineState<scheme_type>&  pipeline,
    const ParamsPOD                                     params);


} // namespace cuda
} // namespace bowtie2
} // namespace nvbio

#include <nvBowtie/bowtie2/cuda/score_best_inl.h>