reads_def.h

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#pragma once

#include <nvBowtie/bowtie2/cuda/defs.h>
#include <nvbio/io/sequence/sequence.h>
#include <nvbio/basic/cuda/ldg.h>

namespace nvbio {
namespace bowtie2 {
namespace cuda {

struct ReadsDef
{
    typedef typename binary_switch<uint32,uint4,USE_UINT4_PACKING>::type                                                     read_storage_type;
    typedef typename binary_switch<const read_storage_type*,nvbio::cuda::ldg_pointer<read_storage_type>,USE_TEX_READS>::type read_base_type;
    typedef typename binary_switch<const char*,             nvbio::cuda::ldg_pointer<char>,             USE_TEX_READS>::type read_qual_type;
    typedef io::SequenceDataViewCore<const uint32*,read_base_type,read_qual_type,const char*>                                read_view_type;
    typedef io::SequenceDataAccess<DNA_N,read_view_type>                                                                     type;
};

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