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fold_vars.h
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1 #ifndef VIENNA_RNA_PACKAGE_FOLD_VARS_H
2 #define VIENNA_RNA_PACKAGE_FOLD_VARS_H
3
4 #include <ViennaRNA/data_structures.h>
5 /* For now, we include model.h by default to provide backwards compatibility
6 However, this will most likely change, since fold_vars.h is scheduled to
7 vanish from the sources at latest in ViennaRNA Package v3
8 */
9 #include <ViennaRNA/model.h>
10
11
17 #ifdef DEPRECATION_WARNINGS
18 # ifdef __GNUC__
19 # define DEPRECATED(func) func __attribute__ ((deprecated))
20 # else
21 # define DEPRECATED(func) func
22 # endif
23 #else
24 # define DEPRECATED(func) func
25 #endif
26
30 extern int fold_constrained;
31
35 extern int csv;
36
41 extern char *RibosumFile;
42
47 extern int james_rule;
48
52 extern int logML;
53
65 extern int cut_point;
66
73 extern bondT *base_pair;
74
80 extern FLT_OR_DBL *pr;
81
88 extern int *iindx;
89
90
91
92
93 #endif
FLT_OR_DBL
double FLT_OR_DBL
Typename for floating point number in partition function computations.
Definition: data_structures.h:39
csv
int csv
generate comma seperated output
cut_point
int cut_point
Marks the position (starting from 1) of the first nucleotide of the second molecule within the concat...
model.h
The model details data structure and its corresponding modifiers.
data_structures.h
base_pair
bondT * base_pair
Contains a list of base pairs after a call to fold().
fold_constrained
int fold_constrained
Global switch to activate/deactivate folding with structure constraints.
james_rule
int james_rule
RibosumFile
char * RibosumFile
vrna_bp_stack_s
Base pair stack element.
Definition: data_structures.h:192
pr
FLT_OR_DBL * pr
A pointer to the base pair probability matrix.
iindx
int * iindx
index array to move through pr.
logML
int logML