/*
* Copyright (c) <2008 - 2020>, University of Washington, Simon Fraser University
* All rights reserved.
*
* Redistribution and use in source and binary forms, with or without modification,
* are permitted provided that the following conditions are met:
*
* Redistributions of source code must retain the above copyright notice, this list
* of conditions and the following disclaimer.
* - Redistributions in binary form must reproduce the above copyright notice, this
* list of conditions and the following disclaimer in the documentation and/or other
* materials provided with the distribution.
* - Neither the name of the <ORGANIZATION> nor the names of its contributors may be
* used to endorse or promote products derived from this software without specific
* prior written permission.
*
* THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS
* "AS IS" AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT
* LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR
* A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT OWNER OR
* CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL,
* EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO,
* PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR
* PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF
* LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING
* NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS
* SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
*/
/*
* Author:
* Faraz Hach (fhach AT cs DOT sfu DOT ca)
* Iman Sarrafi (isarrafi AT cs DOT sfu DOT ca)
*/
#ifndef __HASH_TABLE__
#define __HASH_TABLE__
typedef struct HashTable
{
long long hv;
int *locs;
} HashTable;
typedef struct
{
GeneralIndex *list;
} IHashTable;
char *getRefGenome();
char *getRefGenomeName();
int getRefGenomeOffset();
CompressedSeq *getCmpRefGenome();
CompressedSeq *getCmpRefGenOrigin();
int getRefGenLength();
int getCmpRefGenLength();
int initLoadingHashTable(char*);
HashTable *getHashTable();
GeneralIndex *getCandidates(int hv);
unsigned char *getAlphabetCount();
void rewindHashTable();
int getChrCnt();
char **getChrNames();
int getMaxChrLength();
int generateHashTable(char*, char*);
int checkHashTable(char*);
int loadHashTable(double*);
void finalizeLoadingHashTable();
#endif