ali_plex.h
#ifndef __VIENNA_RNA_PACKAGE_ALI_PLEX_H__
#define __VIENNA_RNA_PACKAGE_ALI_PLEX_H__
#include "data_structures.h"
duplexT** aliLduplexfold( const char *s1[],
const char *s2[],
const int threshold,
const int extension_cost,
const int alignment_length,
const int delta,
const int fast,
const int il_a,
const int il_b,
const int b_a,
const int b_b);
duplexT** aliLduplexfold_XS(const char* s1[],
const char* s2[],
const int **access_s1,
const int **access_s2,
const int threshold,
const int alignment_length,
const int delta,
const int fast,
const int il_a,
const int il_b,
const int b_a,
const int b_b);
/*
extern duplexT aliduplexfold(const char *s1[], const char *s2[], const int extension_cost);
extern duplexT aliduplexfold_XS(const char *s1[], const char *s2[],const int **access_s1,
const int **access_s2, const int i_pos, const int j_pos, const int threshold);
*/
#endif