cram_stats.h

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/*
Copyright (c) 2012-2013 Genome Research Ltd.
Author: James Bonfield <jkb@sanger.ac.uk>

Redistribution and use in source and binary forms, with or without 
modification, are permitted provided that the following conditions are met:

   1. Redistributions of source code must retain the above copyright notice, 
this list of conditions and the following disclaimer.

   2. 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.

   3. Neither the names Genome Research Ltd and Wellcome Trust Sanger
Institute 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 GENOME RESEARCH LTD AND CONTRIBUTORS "AS IS" AND 
ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED 
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*/

#ifndef _CRAM_STATS_H_
#define _CRAM_STATS_H_

#ifdef __cplusplus
extern "C" {
#endif

cram_stats *cram_stats_create(void);
void cram_stats_add(cram_stats *st, int32_t val);
void cram_stats_del(cram_stats *st, int32_t val);
void cram_stats_dump(cram_stats *st);
void cram_stats_free(cram_stats *st);

/*
 * Computes entropy from integer frequencies for various encoding methods and
 * picks the best encoding.
 *
 * FIXME: we could reuse some of the code here for the actual encoding
 * parameters too. Eg the best 'k' for SUBEXP or the code lengths for huffman.
 *
 * Returns the best codec to use.
 */
enum cram_encoding cram_stats_encoding(cram_fd *fd, cram_stats *st);

#ifdef __cplusplus
}
#endif

#endif