Add missing doc files

[jabaws.git] / binaries / src / ViennaRNA / doc / latex / LPfold_8h_source.tex

diff --git a/binaries/src/ViennaRNA/doc/latex/LPfold_8h_source.tex b/binaries/src/ViennaRNA/doc/latex/LPfold_8h_source.tex
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+\hypertarget{LPfold_8h}{\section{L\-Pfold.\-h}
+\label{LPfold_8h}\index{/home/asherstnev/\-Projects/\-Java.\-projects/jabaws/secure-\/git/develop/binaries/src/\-Vienna\-R\-N\-A/\-H/\-L\-Pfold.\-h@{/home/asherstnev/\-Projects/\-Java.\-projects/jabaws/secure-\/git/develop/binaries/src/\-Vienna\-R\-N\-A/\-H/\-L\-Pfold.\-h}}
+}
+
+\begin{DoxyCode}
+00001 \textcolor{preprocessor}{#ifndef \_\_VIENNA\_RNA\_PACKAGE\_LPFOLD\_H\_\_}
+00002 \textcolor{preprocessor}{}\textcolor{preprocessor}{#define \_\_VIENNA\_RNA\_PACKAGE\_LPFOLD\_H\_\_}
+00003 \textcolor{preprocessor}{}
+00004 \textcolor{preprocessor}{#include "\hyperlink{data__structures_8h}{data\_structures.h}"}
+00005 
+00006 \textcolor{preprocessor}{#ifdef \_\_GNUC\_\_}
+00007 \textcolor{preprocessor}{}\textcolor{preprocessor}{#define DEPRECATED(func) func \_\_attribute\_\_ ((deprecated))}
+00008 \textcolor{preprocessor}{}\textcolor{preprocessor}{#else}
+00009 \textcolor{preprocessor}{}\textcolor{preprocessor}{#define DEPRECATED(func) func}
+00010 \textcolor{preprocessor}{}\textcolor{preprocessor}{#endif}
+00011 \textcolor{preprocessor}{}
+00029 \textcolor{keywordtype}{void} \hyperlink{group__local__pf__fold_ga5a019014d37fe6105131dfc2fc447880}{update\_pf\_paramsLP}(\textcolor{keywordtype}{int} length);
+00030 
+00037 \textcolor{keywordtype}{void} update\_pf\_paramsLP\_par(\textcolor{keywordtype}{int} length, \hyperlink{structpf__paramT}{pf\_paramT} *parameters);
+00038 
+00076 \hyperlink{structplist}{plist} *\hyperlink{group__local__pf__fold_gaa1ecd401617ebc748a0220026543c777}{pfl\_fold}(\textcolor{keywordtype}{char} *sequence,
+00077                 \textcolor{keywordtype}{int} winSize,
+00078                 \textcolor{keywordtype}{int} pairSize,
+00079                 \textcolor{keywordtype}{float} cutoffb,
+00080                 \textcolor{keywordtype}{double} **pU,
+00081                 \textcolor{keyword}{struct} \hyperlink{structplist}{plist} **dpp2,
+00082                 FILE *pUfp,
+00083                 FILE *spup);
+00084 
+00091 \hyperlink{structplist}{plist} *\hyperlink{group__local__pf__fold_gab354507e8028f3e1c52ef96bb1eb9df8}{pfl\_fold\_par}(\textcolor{keywordtype}{char} *sequence,
+00092                     \textcolor{keywordtype}{int} winSize,
+00093                     \textcolor{keywordtype}{int} pairSize,
+00094                     \textcolor{keywordtype}{float} cutoffb,
+00095                     \textcolor{keywordtype}{double} **pU,
+00096                     \textcolor{keyword}{struct} \hyperlink{structplist}{plist} **dpp2,
+00097                     FILE *pUfp,
+00098                     FILE *spup,
+00099                     \hyperlink{structpf__paramT}{pf\_paramT} *parameters);
+00100 
+00101 
+00102 \textcolor{keywordtype}{void} putoutpU\_prob\_par( \textcolor{keywordtype}{double} **pU,
+00103                         \textcolor{keywordtype}{int} length,
+00104                         \textcolor{keywordtype}{int} ulength,
+00105                         FILE *fp,
+00106                         \textcolor{keywordtype}{int} energies,
+00107                         \hyperlink{structpf__paramT}{pf\_paramT} *parameters);
+00108 
+00109 
+00124 \textcolor{keywordtype}{void}    \hyperlink{group__local__pf__fold_ga0bcb751860bbf34e3dfee8c2fbdb3ef3}{putoutpU\_prob}(\textcolor{keywordtype}{double} **pU,
+00125                       \textcolor{keywordtype}{int} length,
+00126                       \textcolor{keywordtype}{int} ulength,
+00127                       FILE *fp,
+00128                       \textcolor{keywordtype}{int} energies);
+00129 
+00130 \textcolor{keywordtype}{void} putoutpU\_prob\_bin\_par( \textcolor{keywordtype}{double} **pU,
+00131                             \textcolor{keywordtype}{int} length,
+00132                             \textcolor{keywordtype}{int} ulength,
+00133                             FILE *fp,
+00134                             \textcolor{keywordtype}{int} energies,
+00135                             \hyperlink{structpf__paramT}{pf\_paramT} *parameters);
+00136 
+00151 \textcolor{keywordtype}{void}    \hyperlink{group__local__pf__fold_ga9acb00ee10e96b1ca4ea394cd8bcec75}{putoutpU\_prob\_bin}(\textcolor{keywordtype}{double} **pU,
+00152                           \textcolor{keywordtype}{int} length,
+00153                           \textcolor{keywordtype}{int} ulength,
+00154                           FILE *fp,
+00155                           \textcolor{keywordtype}{int} energies);
+00156 
+00162 DEPRECATED(\textcolor{keywordtype}{void} \hyperlink{LPfold_8h_ae85bf55053e9fb295208be322e0fa07a}{init\_pf\_foldLP}(\textcolor{keywordtype}{int} length));
+00163 
+00164 \textcolor{preprocessor}{#endif}
+\end{DoxyCode}