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

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

diff --git a/binaries/src/ViennaRNA/H/svm_utils.h b/binaries/src/ViennaRNA/H/svm_utils.h
new file mode 100644 (file)
index 0000000..8e3f55c
--- /dev/null
+++ b/binaries/src/ViennaRNA/H/svm_utils.h
@@ -0,0 +1,46 @@
+#ifndef __VIENNA_RNA_PACKAGE_SUBOPT_H__
+#define __VIENNA_RNA_PACKAGE_SUBOPT_H__
+
+typedef struct svm_model{
+  struct svm_parameter param;
+  int nr_class;
+  int l;
+  struct svm_node **SV;
+  double **sv_coef;
+  double *rho;
+  double *probA;
+  double *probB;
+  int *label;
+  int *nSV;
+  int free_sv;
+} svm_model;
+
+extern  char *avg_model_string;
+extern  char *sd_model_string;
+
+float     get_z(char *sequence,
+                double energy);
+double    avg_regression (int N,
+                          int A,
+                          int C,
+                          int G,
+                          int T,
+                          struct svm_model *avg_model,
+                          int *info );
+double    sd_regression  (int N,
+                          int A,
+                          int C,
+                          int G,
+                          int T,
+                          struct svm_model  *sd_model);
+double    minimal_sd     (int N,
+                          int A,
+                          int C,
+                          int G,
+                          int T);
+svm_model *svm_load_model_string(char *modelString);
+int       *get_seq_composition( short *S,
+                                unsigned int start,
+                                unsigned int stop);
+
+#endif