Add missing doc files

[jabaws.git] / binaries / src / ViennaRNA / doc / latex / 2Dfold_8h_source.tex

diff --git a/binaries/src/ViennaRNA/doc/latex/2Dfold_8h_source.tex b/binaries/src/ViennaRNA/doc/latex/2Dfold_8h_source.tex
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+\hypertarget{2Dfold_8h}{\section{2\-Dfold.h}
+\label{2Dfold_8h}\index{/home/asherstnev/\-Projects/\-Java.\-projects/jabaws/secure-\/git/develop/binaries/src/\-Vienna\-R\-N\-A/\-H/2\-Dfold.\-h@{/home/asherstnev/\-Projects/\-Java.\-projects/jabaws/secure-\/git/develop/binaries/src/\-Vienna\-R\-N\-A/\-H/2\-Dfold.\-h}}
+}
+
+\begin{DoxyCode}
+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{DoxyCode}