RefGenome.h

/*
 * Copyright (c) <2008 - 2020>, University of Washington, Simon Fraser University, Bilkent 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 names of the University of Washington, Simon Fraser University,
 *   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
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 */

/*
  Authors:
  Farhad Hormozdiari
  Faraz Hach
  Can Alkan
  Emails:
  farhadh AT uw DOT edu
  fhach AT cs DOT sfu DOT ca
  calkan AT cs DOT bilkent DOT edu DOT tr
*/



#ifndef _REF_GENOME_
#define _REF_GENOME_

int		initLoadingRefGenome(char *fileName);
void	finalizeLoadingRefGenome();
int		loadRefGenome(char **refGen, char **refGenName, int *refGenOff);

void getPosRefGenome(fpos_t *position_ig);
void setPosRefGenome(fpos_t *position_ig);


#endif