1 /* 2 Copyright (c) 2012-2013, 2018 Genome Research Ltd. 3 Author: James Bonfield <jkb@sanger.ac.uk> 4 5 Redistribution and use in source and binary forms, with or without 6 modification, are permitted provided that the following conditions are met: 7 8 1. Redistributions of source code must retain the above copyright notice, 9 this list of conditions and the following disclaimer. 10 11 2. Redistributions in binary form must reproduce the above copyright notice, 12 this list of conditions and the following disclaimer in the documentation 13 and/or other materials provided with the distribution. 14 15 3. Neither the names Genome Research Ltd and Wellcome Trust Sanger 16 Institute nor the names of its contributors may be used to endorse or promote 17 products derived from this software without specific prior written permission. 18 19 THIS SOFTWARE IS PROVIDED BY GENOME RESEARCH LTD AND CONTRIBUTORS "AS IS" AND 20 ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED 21 WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE 22 DISCLAIMED. IN NO EVENT SHALL GENOME RESEARCH LTD OR CONTRIBUTORS BE LIABLE 23 FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL 24 DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR 25 SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER 26 CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, 27 OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE 28 OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. 29 */ 30 31 #ifndef CRAM_STATS_H 32 #define CRAM_STATS_H 33 34 #ifdef __cplusplus 35 extern "C" { 36 #endif 37 38 cram_stats *cram_stats_create(void); 39 int cram_stats_add(cram_stats *st, int64_t val); 40 void cram_stats_del(cram_stats *st, int64_t val); 41 void cram_stats_dump(cram_stats *st); 42 void cram_stats_free(cram_stats *st); 43 44 /* 45 * Computes entropy from integer frequencies for various encoding methods and 46 * picks the best encoding. 47 * 48 * FIXME: we could reuse some of the code here for the actual encoding 49 * parameters too. Eg the best 'k' for SUBEXP or the code lengths for huffman. 50 * 51 * Returns the best codec to use. 52 */ 53 enum cram_encoding cram_stats_encoding(cram_fd *fd, cram_stats *st); 54 55 #ifdef __cplusplus 56 } 57 #endif 58 59 #endif 60