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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: WaveFront-Alignment module for backtracing alignments
*/
#ifndef WAVEFRONT_BACKTRACE_H_
#define WAVEFRONT_BACKTRACE_H_
#include "wavefront_aligner.h"
/*
* Backtrace wavefronts
*/
void wavefront_backtrace_linear(
wavefront_aligner_t* const wf_aligner,
const int alignment_score,
const int alignment_k,
const wf_offset_t alignment_offset);
void wavefront_backtrace_affine(
wavefront_aligner_t* const wf_aligner,
const affine2p_matrix_type component_begin,
const affine2p_matrix_type component_end,
const int alignment_score,
const int alignment_k,
const wf_offset_t alignment_offset);
/*
* Backtrace from BT-Buffer (pcigar)
*/
void wavefront_backtrace_pcigar(
wavefront_aligner_t* const wf_aligner,
const int alignment_k,
const int alignment_offset,
const pcigar_t pcigar_last,
const bt_block_idx_t prev_idx_last);
#endif /* WAVEFRONT_BACKTRACE_H_ */
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