WSTester updated to work plus hopefully all the other changes that need to go into...

[jabaws.git] / binaries / src / ViennaRNA / H / findpath.h

diff --git a/binaries/src/ViennaRNA/H/findpath.h b/binaries/src/ViennaRNA/H/findpath.h
new file mode 100644 (file)
index 0000000..9dcd233
--- /dev/null
+++ b/binaries/src/ViennaRNA/H/findpath.h
@@ -0,0 +1,53 @@
+#ifndef __VIENNA_RNA_PACKAGE_FIND_PATH_H__
+#define __VIENNA_RNA_PACKAGE_FIND_PATH_H__
+
+#include "data_structures.h"
+
+/**
+ *  \file findpath.h
+ *  \brief Compute direct refolding paths between two secondary structures
+ */
+
+/**
+ *  \brief Find energy of a saddle point between 2 structures
+ *  (serch only direct path)
+ *
+ *  \param seq RNA sequence
+ *  \param struc1 A pointer to the character array where the first
+ *         secondary structure in dot-bracket notation will be written to
+ *  \param struc2 A pointer to the character array where the second
+ *         secondary structure in dot-bracket notation will be written to
+ *  \param max integer how many strutures are being kept during the search
+ *  \returns the saddle energy in 10cal/mol
+ */
+int     find_saddle(const char *seq,
+                    const char *struc1,
+                    const char *struc2,
+                    int max);
+
+
+/**
+ *  \brief Find refolding path between 2 structures
+ *  (serch only direct path)
+ *
+ *  \param seq RNA sequence
+ *  \param s1 A pointer to the character array where the first
+ *         secondary structure in dot-bracket notation will be written to
+ *  \param s2 A pointer to the character array where the second
+ *         secondary structure in dot-bracket notation will be written to
+ *  \param maxkeep integer how many strutures are being kept during the search
+ *  \returns direct refolding path between two structures
+ */
+path_t* get_path( const char *seq,
+                  const char *s1,
+                  const char* s2,
+                  int maxkeep);
+
+/**
+ *  \brief Free memory allocated by get_path() function
+ *
+ *  \param path pointer to memory to be freed
+ */
+void    free_path(path_t *path);
+
+#endif