1 \hypertarget{cofold_8h}{\section{cofold.\-h}
2 \label{cofold_8h}\index{/home/asherstnev/\-Projects/\-Java.\-projects/jabaws/secure-\/git/develop/binaries/src/\-Vienna\-R\-N\-A/\-H/cofold.\-h@{/home/asherstnev/\-Projects/\-Java.\-projects/jabaws/secure-\/git/develop/binaries/src/\-Vienna\-R\-N\-A/\-H/cofold.\-h}}
6 00001 \textcolor{preprocessor}{#ifndef \_\_VIENNA\_RNA\_PACKAGE\_COFOLD\_H\_\_}
7 00002 \textcolor{preprocessor}{}\textcolor{preprocessor}{#define \_\_VIENNA\_RNA\_PACKAGE\_COFOLD\_H\_\_}
8 00003 \textcolor{preprocessor}{}
9 00004 \textcolor{preprocessor}{#include "\hyperlink{data__structures_8h}{data\_structures.h}"}
11 00006 \textcolor{preprocessor}{#ifdef \_\_GNUC\_\_}
12 00007 \textcolor{preprocessor}{}\textcolor{preprocessor}{#define DEPRECATED(func) func \_\_attribute\_\_ ((deprecated))}
13 00008 \textcolor{preprocessor}{}\textcolor{preprocessor}{#else}
14 00009 \textcolor{preprocessor}{}\textcolor{preprocessor}{#define DEPRECATED(func) func}
15 00010 \textcolor{preprocessor}{}\textcolor{preprocessor}{#endif}
16 00011 \textcolor{preprocessor}{}
17 00065 \textcolor{keywordtype}{float} \hyperlink{group__mfe__cofold_gabc8517f22cfe70595ee81fc837910d52}{cofold}( \textcolor{keyword}{const} \textcolor{keywordtype}{char} *sequence,
18 00066 \textcolor{keywordtype}{char} *structure);
20 00072 \textcolor{keywordtype}{float} \hyperlink{group__mfe__cofold_gafe430060533f14b11fc611f60b3f1f6f}{cofold\_par}( \textcolor{keyword}{const} \textcolor{keywordtype}{char} *\textcolor{keywordtype}{string},
21 00073 \textcolor{keywordtype}{char} *structure,
22 00074 \hyperlink{structparamT}{paramT} *parameters,
23 00075 \textcolor{keywordtype}{int} is\_constrained);
25 00080 \textcolor{keywordtype}{void} \hyperlink{group__mfe__cofold_gaafb33d7473eb9af9d1b168ca8761c41a}{free\_co\_arrays}(\textcolor{keywordtype}{void});
27 00085 \textcolor{keywordtype}{void} \hyperlink{group__mfe__cofold_ga4fcbf34e77b99bfbb2333d2ab0c41a57}{update\_cofold\_params}(\textcolor{keywordtype}{void});
29 00087 \textcolor{keywordtype}{void} update\_cofold\_params\_par(\hyperlink{structparamT}{paramT} *parameters);
32 00105 \textcolor{keywordtype}{void} \hyperlink{group__mfe__cofold_ga5f5bf4df35d0554f6ace9579f8744c48}{export\_cofold\_arrays\_gq}( \textcolor{keywordtype}{int} **f5\_p,
33 00106 \textcolor{keywordtype}{int} **c\_p,
34 00107 \textcolor{keywordtype}{int} **fML\_p,
35 00108 \textcolor{keywordtype}{int} **fM1\_p,
36 00109 \textcolor{keywordtype}{int} **fc\_p,
37 00110 \textcolor{keywordtype}{int} **ggg\_p,
38 00111 \textcolor{keywordtype}{int} **indx\_p,
39 00112 \textcolor{keywordtype}{char} **ptype\_p);
41 00128 \textcolor{keywordtype}{void} \hyperlink{group__mfe__cofold_ga5cb6b59983f1f74ccc00b9b9c4e84482}{export\_cofold\_arrays}(\textcolor{keywordtype}{int} **f5\_p,
42 00129 \textcolor{keywordtype}{int} **c\_p,
43 00130 \textcolor{keywordtype}{int} **fML\_p,
44 00131 \textcolor{keywordtype}{int} **fM1\_p,
45 00132 \textcolor{keywordtype}{int} **fc\_p,
46 00133 \textcolor{keywordtype}{int} **indx\_p,
47 00134 \textcolor{keywordtype}{char} **ptype\_p);
50 00153 \hyperlink{structSOLUTION}{SOLUTION} *\hyperlink{group__subopt__zuker_ga0d5104e3ecf119d8eabd40aa5fe47f90}{zukersubopt}(\textcolor{keyword}{const} \textcolor{keywordtype}{char} *\textcolor{keywordtype}{string});
52 00161 \hyperlink{structSOLUTION}{SOLUTION} *\hyperlink{group__subopt__zuker_ga6d98a9450d1affadf144ac79f543da8c}{zukersubopt\_par}( \textcolor{keyword}{const} \textcolor{keywordtype}{char} *\textcolor{keywordtype}{string},
53 00162 \hyperlink{structparamT}{paramT} *parameters);
55 00172 \textcolor{keywordtype}{void} \hyperlink{cofold_8h_a4958b517c613e4d2afd5bce6c1060a79}{get\_monomere\_mfes}( \textcolor{keywordtype}{float} *e1,
56 00173 \textcolor{keywordtype}{float} *e2);
59 00180 DEPRECATED(\textcolor{keywordtype}{void} \hyperlink{cofold_8h_afee0c32208aa2ac97338b6e3fbad7fa5}{initialize\_cofold}(\textcolor{keywordtype}{int} length));
61 00182 \textcolor{preprocessor}{#endif}