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/*===========================================================================
*
* PUBLIC DOMAIN NOTICE
* National Center for Biotechnology Information
*
* This software/database is a "United States Government Work" under the
* terms of the United States Copyright Act. It was written as part of
* the author's official duties as a United States Government employee and
* thus cannot be copyrighted. This software/database is freely available
* to the public for use. The National Library of Medicine and the U.S.
* Government have not placed any restriction on its use or reproduction.
*
* Although all reasonable efforts have been taken to ensure the accuracy
* and reliability of the software and data, the NLM and the U.S.
* Government do not and cannot warrant the performance or results that
* may be obtained by using this software or data. The NLM and the U.S.
* Government disclaim all warranties, express or implied, including
* warranties of performance, merchantability or fitness for any particular
* purpose.
*
* Please cite the author in any work or product based on this material.
*
* ===========================================================================
*
*/
#ifndef _h_sra_sort_glob_poslen_
#define _h_sra_sort_glob_poslen_
#ifndef _h_sra_sort_col_pair_
#include "col-pair.h"
#endif
/*--------------------------------------------------------------------------
* forwards
*/
struct TablePair;
/*--------------------------------------------------------------------------
* inline functions
*/
#define MAX_POS_BITS 34
#define MAX_LEN_BITS ( 64 - MAX_POS_BITS )
static __inline__
uint64_t encode_pos_len ( uint64_t pos, uint32_t len )
{
assert ( pos < ( ( ~ ( uint64_t ) 0 ) >> MAX_LEN_BITS ) );
assert ( 0 < len && len <= ( ( ~ ( uint32_t ) 0 ) >> ( 32 - MAX_LEN_BITS ) ) );
/* position ascending, length descending */
return ( ( pos + 1 ) << MAX_LEN_BITS ) - len;
}
static __inline__
uint64_t decode_pos_len ( uint64_t pos_len )
{
return pos_len >> MAX_LEN_BITS;
}
static __inline__
uint32_t poslen_to_len ( uint64_t pos_len )
{
return ( 1U << MAX_LEN_BITS ) - ( ( uint32_t ) pos_len & ( ( ~ ( uint32_t ) 0 ) >> ( 32 - MAX_LEN_BITS ) ) );
}
static __inline__
uint64_t local_to_global ( int64_t row_id, uint32_t chunk_size, uint32_t offset )
{
assert ( row_id > 0 );
return ( row_id - 1 ) * chunk_size + offset;
}
static __inline__
int64_t global_to_row_id ( uint64_t pos, uint32_t chunk_size )
{
return ( pos / chunk_size ) + 1;
}
/*--------------------------------------------------------------------------
* GlobalPosLenReader
*/
typedef struct GlobalPosLenReader GlobalPosLenReader;
/* MakeGlobalPosLenReader
*/
ColumnReader *TablePairMakeGlobalPosLenReader ( struct TablePair *self, const ctx_t *ctx, uint32_t chunk_size );
#endif /* _h_sra_sort_glob_poslen_ */
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