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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_tbl_pair_
#define _h_sra_sort_tbl_pair_
#ifndef _h_sra_sort_defs_
#include "sort-defs.h"
#endif
#ifndef _h_klib_vector_
#include <klib/vector.h>
#endif
#ifndef _h_klib_refcount_
#include <klib/refcount.h>
#endif
/*--------------------------------------------------------------------------
* forwards
*/
struct VTable;
struct DbPair;
struct KThread;
struct ColumnReader;
struct ColumnWriter;
struct ColumnPair;
struct MetaPair;
struct RowSetIterator;
/*--------------------------------------------------------------------------
* TablePair
* interface to pairing of source and destination tables
*/
typedef struct TablePair_vt TablePair_vt;
typedef struct TablePair TablePair;
struct TablePair
{
/* table id range */
int64_t first_id, last_excl;
/* polymorphic */
const TablePair_vt *vt;
/* the pair of VTables */
struct VTable const *stbl;
struct VTable *dtbl;
/* the pair of KMetadata */
struct MetaPair *meta;
/* the ColumnPairs */
Vector static_cols;
Vector presort_cols;
Vector large_cols;
Vector mapped_cols;
Vector large_mapped_cols;
Vector normal_cols;
/* filters */
const char **exclude_meta;
const char **exclude_col_names;
const char **mapped_col_names;
const char **nonstatic_col_names;
const char **large_col_names;
/* row-set id ranges */
size_t max_idx_ids;
size_t min_idx_ids;
/* simple table name */
const char *name;
/* full table spec */
size_t full_spec_size;
const char *full_spec;
/* reference counting */
KRefcount refcount;
/* true if table will be reordered */
bool reorder;
/* true if already exploded */
bool exploded;
/* Thread launched by TablePairPostCopy [ to do consistency-check ] */
struct KThread * thread;
uint8_t align [ 2 ];
};
#ifndef TBLPAIR_IMPL
#define TBLPAIR_IMPL TablePair
#endif
struct TablePair_vt
{
void ( * whack ) ( TBLPAIR_IMPL *self, const ctx_t *ctx );
void ( * pre_explode ) ( TBLPAIR_IMPL *self, const ctx_t *ctx );
void ( * explode ) ( TBLPAIR_IMPL *self, const ctx_t *ctx );
struct ColumnPair* ( *make_column_pair ) ( TBLPAIR_IMPL *self, const ctx_t *ctx,
struct ColumnReader *reader, struct ColumnWriter *writer, const char *colspec, bool large );
void ( * pre_copy ) ( TBLPAIR_IMPL *self, const ctx_t *ctx );
void ( * post_copy ) ( TBLPAIR_IMPL *self, const ctx_t *ctx );
struct RowSetIterator* ( *get_rowset_iter ) ( TBLPAIR_IMPL *self,
const ctx_t *ctx, bool mapped, bool large );
};
/* Make
* make a standard table pair from existing VTable objects
*/
TablePair *TablePairMake ( const ctx_t *ctx,
struct VTable const *src, struct VTable *dst,
const char *name, const char *opt_full_spec, bool reorder );
TablePair *DbPairMakeStdTblPair ( struct DbPair *self, const ctx_t *ctx,
struct VTable const *src, struct VTable *dst, const char *name, bool reorder );
/* Release
* called by table at end of copy
*/
void TablePairRelease ( TablePair *self, const ctx_t *ctx );
/* Duplicate
*/
TablePair *TablePairDuplicate ( TablePair *self, const ctx_t *ctx );
/* Copy
* copy from source to destination table
*/
void TablePairCopy ( TablePair *self, const ctx_t *ctx );
/* PreExplode
* perform explosion before overall coopy
*/
#define TablePairPreExplode( self, ctx ) \
POLY_DISPATCH_VOID ( pre_explode, self, TBLPAIR_IMPL, ctx )
/* Explode
* probably a bad name, but it is intended to mean
* register all enclosed columns
* and create a proper pair of KMetadata
*/
void TablePairExplode ( TablePair *self, const ctx_t *ctx );
/* AddColumnPair
* called from implementations
*/
void TablePairAddColumnPair ( TablePair *self, const ctx_t *ctx, struct ColumnPair *col );
/* PreCopy
* PostCopy
* give table a chance to prepare and cleanup
*/
#define TablePairPreCopy( self, ctx ) \
POLY_DISPATCH_VOID ( pre_copy, self, TBLPAIR_IMPL, ctx )
#define TablePairPostCopy( self, ctx ) \
POLY_DISPATCH_VOID ( post_copy, self, TBLPAIR_IMPL, ctx )
/* GetRowSetIterator
* returns an iterator for copying
*/
#define TablePairGetRowSetIterator( self, ctx, mapped, large ) \
POLY_DISPATCH_PTR ( get_rowset_iter, self, TBLPAIR_IMPL, ctx, mapped, large )
/* Init
*/
void TablePairInit ( TablePair *self, const ctx_t *ctx, const TablePair_vt *vt,
struct VTable const *src, struct VTable *dst,
const char *name, const char *opt_full_spec, bool reorder );
/* Destroy
*/
void TablePairDestroy ( TablePair *self, const ctx_t *ctx );
#endif /* _h_sra_sort_tbl_pair_ */
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