H/subopt.h

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/* subopt.h */
#ifndef __VIENNA_RNA_PACKAGE_SUBOPT_H__
#define __VIENNA_RNA_PACKAGE_SUBOPT_H__

#include "data_structures.h"

#define MAXDOS 1000

SOLUTION *subopt (char *seq,
                  char *sequence,
                  int delta,
                  FILE *fp);

SOLUTION *subopt_par( char *seq,
                      char *structure,
                      paramT *parameters,
                      int delta,
                      int is_constrained,
                      int is_circular,
                      FILE *fp);

SOLUTION *subopt_circ ( char *seq,
                        char *sequence,
                        int delta,
                        FILE *fp);

extern  int     subopt_sorted;

extern  int     density_of_states[MAXDOS+1];

extern  double  print_energy;

#endif
/* End of file */

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