\hypertarget{2Dfold_8h_source}{
\section{/homes/fmmarquesmadeira/Projects/jabaws/binaries/src/ViennaRNA/H/2Dfold.h}
}


\begin{footnotesize}\begin{alltt}
00001 \textcolor{comment}{/*}
00002 \textcolor{comment}{      minimum free energy}
00003 \textcolor{comment}{      RNA secondary structure with}
00004 \textcolor{comment}{      basepair distance d to reference structure prediction}
00005 \textcolor{comment}{}
00006 \textcolor{comment}{*/}
00007 \textcolor{preprocessor}{#ifndef \_\_VIENNA\_RNA\_PACKAGE\_TWO\_D\_FOLD\_H\_\_}
00008 \textcolor{preprocessor}{}\textcolor{preprocessor}{#define \_\_VIENNA\_RNA\_PACKAGE\_TWO\_D\_FOLD\_H\_\_}
00009 \textcolor{preprocessor}{}
00032 \textcolor{preprocessor}{#include "\hyperlink{data__structures_8h}{data_structures.h}"}
00033 
00034 \textcolor{preprocessor}{#ifdef \_\_GNUC\_\_}
00035 \textcolor{preprocessor}{}\textcolor{preprocessor}{#define DEPRECATED(func) func \_\_attribute\_\_ ((deprecated))}
00036 \textcolor{preprocessor}{}\textcolor{preprocessor}{#else}
00037 \textcolor{preprocessor}{}\textcolor{preprocessor}{#define DEPRECATED(func) func}
00038 \textcolor{preprocessor}{}\textcolor{preprocessor}{#endif}
00039 \textcolor{preprocessor}{}
00057 \hyperlink{structTwoDfold__vars}{TwoDfold_vars} *\hyperlink{group__kl__neighborhood__mfe_gac9284f132cf0eaa0a2f43590eda05488}{get_TwoDfold_variables}(\textcolor{keyword}{const} \textcolor{keywordtype}{char} *seq,
00058                                       \textcolor{keyword}{const} \textcolor{keywordtype}{char} *structure1,
00059                                       \textcolor{keyword}{const} \textcolor{keywordtype}{char} *structure2,
00060                                       \textcolor{keywordtype}{int} circ);
00061 
00071 \textcolor{keywordtype}{void}          \hyperlink{group__kl__neighborhood__mfe_ga05bf4f31d216b1b160fd2d3d68e9b487}{destroy_TwoDfold_variables}(\hyperlink{structTwoDfold__vars}{TwoDfold_vars} *our\_variables);
00072 
00076 DEPRECATED(\hyperlink{structTwoDfold__solution}{TwoDfold_solution} **TwoDfold(\hyperlink{structTwoDfold__vars}{TwoDfold_vars} *our\_variables,
00077                                         \textcolor{keywordtype}{int} distance1,
00078                                         \textcolor{keywordtype}{int} distance2));
00079 
00104 \hyperlink{structTwoDfold__solution}{TwoDfold_solution} *\hyperlink{group__kl__neighborhood__mfe_ga47da790166020558d27323aef489703e}{TwoDfoldList}(\hyperlink{structTwoDfold__vars}{TwoDfold_vars} *vars,
00105                                 \textcolor{keywordtype}{int} distance1,
00106                                 \textcolor{keywordtype}{int} distance2);
00107 
00126 \textcolor{keywordtype}{char} *\hyperlink{group__kl__neighborhood__mfe_gaf4dc05bf8fc1ea53acd7aeb798ba80c2}{TwoDfold_backtrack_f5}(\textcolor{keywordtype}{unsigned} \textcolor{keywordtype}{int} j,
00127                             \textcolor{keywordtype}{int} k,
00128                             \textcolor{keywordtype}{int} l,
00129                             \hyperlink{structTwoDfold__vars}{TwoDfold_vars} *vars);
00130 
00134 \textcolor{preprocessor}{#endif}
\end{alltt}\end{footnotesize}
