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/*
* The MIT License
*
* Wavefront Alignment Algorithms
* Copyright (c) 2017 by Santiago Marco-Sola <santiagomsola@gmail.com>
*
* This file is part of Wavefront Alignment Algorithms.
*
* Permission is hereby granted, free of charge, to any person obtaining a copy
* of this software and associated documentation files (the "Software"), to deal
* in the Software without restriction, including without limitation the rights
* to use, copy, modify, merge, publish, distribute, sublicense, and/or sell
* copies of the Software, and to permit persons to whom the Software is
* furnished to do so, subject to the following conditions:
*
* The above copyright notice and this permission notice shall be included in all
* copies or substantial portions of the Software.
*
* THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR
* IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
* FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE
* AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
* LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM,
* OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE
* SOFTWARE.
*
* PROJECT: Wavefront Alignment Algorithms
* AUTHOR(S): Santiago Marco-Sola <santiagomsola@gmail.com>
* DESCRIPTION: Individual WaveFront data structure
*/
#ifndef WAVEFRONT_H_
#define WAVEFRONT_H_
#include "system/mm_allocator.h"
#include "wavefront_offset.h"
#include "wavefront_backtrace_buffer.h"
/*
* Alignment position
*/
typedef struct {
int score; // Score
int k; // Diagonal
wf_offset_t offset; // Offset
} wavefront_pos_t;
/*
* Wavefront
*/
typedef enum {
wavefront_status_free,
wavefront_status_busy,
wavefront_status_deallocated,
} wavefront_status_type;
typedef struct {
// Dimensions
bool null; // Is null interval?
int lo; // Lowest diagonal (inclusive)
int hi; // Highest diagonal (inclusive)
// Wavefront elements
wf_offset_t* offsets; // Offsets (k-centered)
wf_offset_t* offsets_mem; // Offsets base memory (Internal)
// Piggyback backtrace
int bt_occupancy_max; // Maximum number of pcigar-ops stored on the Backtrace-block
pcigar_t* bt_pcigar; // Backtrace-block pcigar (k-centered)
bt_block_idx_t* bt_prev; // Backtrace-block previous-index (k-centered)
pcigar_t* bt_pcigar_mem; // Backtrace-block (base memory - Internal)
bt_block_idx_t* bt_prev_mem; // Backtrace-block previous-index (base memory - Internal)
// Slab internals
wavefront_status_type status; // Wavefront status (memory state)
int wf_elements_allocated; // Total wf-elements allocated (max. wf. size)
int wf_elements_allocated_min; // Minimum diagonal-element wf-element allocated
int wf_elements_allocated_max; // Maximum diagonal-element wf-element allocated
int wf_elements_init_min; // Minimum diagonal-element initialized (inclusive)
int wf_elements_init_max; // Maximum diagonal-element initialized (inclusive)
} wavefront_t;
/*
* Wavefront Set
*/
typedef struct {
/* In Wavefronts*/
wavefront_t* in_mwavefront_misms;
wavefront_t* in_mwavefront_open1;
wavefront_t* in_mwavefront_open2;
wavefront_t* in_i1wavefront_ext;
wavefront_t* in_i2wavefront_ext;
wavefront_t* in_d1wavefront_ext;
wavefront_t* in_d2wavefront_ext;
/* Out Wavefronts */
wavefront_t* out_mwavefront;
wavefront_t* out_i1wavefront;
wavefront_t* out_i2wavefront;
wavefront_t* out_d1wavefront;
wavefront_t* out_d2wavefront;
} wavefront_set_t;
/*
* Setup
*/
void wavefront_allocate(
wavefront_t* const wavefront,
const int wf_elements_allocated,
const bool allocate_backtrace,
mm_allocator_t* const mm_allocator);
void wavefront_resize(
wavefront_t* const wavefront,
const int wf_elements_allocated,
mm_allocator_t* const mm_allocator);
void wavefront_free(
wavefront_t* const wavefront,
mm_allocator_t* const mm_allocator);
/*
* Initialization
*/
void wavefront_init(
wavefront_t* const wavefront,
const int min_lo,
const int max_hi);
void wavefront_init_null(
wavefront_t* const wavefront,
const int min_lo,
const int max_hi);
void wavefront_init_victim(
wavefront_t* const wavefront,
const int min_lo,
const int max_hi);
/*
* Accessors
*/
void wavefront_set_limits(
wavefront_t* const wavefront,
const int lo,
const int hi);
/*
* Utils
*/
uint64_t wavefront_get_size(
wavefront_t* const wavefront);
#endif /* WAVEFRONT_H_ */
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