fmindex_def.h

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#pragma once

#include <nvbio/fmindex/fmindex.h>
#include <nvbio/io/fmindex/fmindex.h>

namespace nvbio {
namespace bowtie2 {
namespace cuda {

struct FMIndexDef
{
    typedef io::FMIndexDataDevice::count_table_type                         count_table_type;
    typedef io::FMIndexDataDevice::occ_type                                 occ_type;
    typedef io::FMIndexDataDevice::bwt_type                                 bwt_type;
    typedef io::FMIndexDataDevice::ssa_type                                 ssa_type;
    typedef io::FMIndexDataDevice::rank_dict_type                           rank_dict_type;
    typedef io::FMIndexDataDevice::fm_index_type                            type;
};

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