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[jabaws.git] / binaries / src / ViennaRNA / doc / latex / LPfold_8h.tex

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+\hypertarget{LPfold_8h}{\section{/home/asherstnev/\-Projects/\-Java.projects/jabaws/secure-\/git/develop/binaries/src/\-Vienna\-R\-N\-A/\-H/\-L\-Pfold.h File Reference}
+\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}}
+}
+
+
+Function declarations of partition function variants of the Lfold algorithm.  
+
+
+Include dependency graph for L\-Pfold.\-h\-:
+\nopagebreak
+\begin{figure}[H]
+\begin{center}
+\leavevmode
+\includegraphics[width=250pt]{LPfold_8h__incl}
+\end{center}
+\end{figure}
+\subsection*{Functions}
+\begin{DoxyCompactItemize}
+\item 
+void \hyperlink{group__local__pf__fold_ga5a019014d37fe6105131dfc2fc447880}{update\-\_\-pf\-\_\-params\-L\-P} (int length)
+\item 
+\hyperlink{structplist}{plist} $\ast$ \hyperlink{group__local__pf__fold_gaa1ecd401617ebc748a0220026543c777}{pfl\-\_\-fold} (char $\ast$sequence, int win\-Size, int pair\-Size, float cutoffb, double $\ast$$\ast$p\-U, struct \hyperlink{structplist}{plist} $\ast$$\ast$dpp2, F\-I\-L\-E $\ast$p\-Ufp, F\-I\-L\-E $\ast$spup)
+\begin{DoxyCompactList}\small\item\em Compute partition functions for locally stable secondary structures. \end{DoxyCompactList}\item 
+\hypertarget{group__local__pf__fold_gab354507e8028f3e1c52ef96bb1eb9df8}{\hyperlink{structplist}{plist} $\ast$ \hyperlink{group__local__pf__fold_gab354507e8028f3e1c52ef96bb1eb9df8}{pfl\-\_\-fold\-\_\-par} (char $\ast$sequence, int win\-Size, int pair\-Size, float cutoffb, double $\ast$$\ast$p\-U, struct \hyperlink{structplist}{plist} $\ast$$\ast$dpp2, F\-I\-L\-E $\ast$p\-Ufp, F\-I\-L\-E $\ast$spup, \hyperlink{structpf__paramT}{pf\-\_\-param\-T} $\ast$parameters)}\label{group__local__pf__fold_gab354507e8028f3e1c52ef96bb1eb9df8}
+
+\begin{DoxyCompactList}\small\item\em Compute partition functions for locally stable secondary structures. \end{DoxyCompactList}\item 
+void \hyperlink{group__local__pf__fold_ga0bcb751860bbf34e3dfee8c2fbdb3ef3}{putoutp\-U\-\_\-prob} (double $\ast$$\ast$p\-U, int length, int ulength, F\-I\-L\-E $\ast$fp, int energies)
+\begin{DoxyCompactList}\small\item\em Writes the unpaired probabilities (p\-U) or opening energies into a file. \end{DoxyCompactList}\item 
+void \hyperlink{group__local__pf__fold_ga9acb00ee10e96b1ca4ea394cd8bcec75}{putoutp\-U\-\_\-prob\-\_\-bin} (double $\ast$$\ast$p\-U, int length, int ulength, F\-I\-L\-E $\ast$fp, int energies)
+\begin{DoxyCompactList}\small\item\em Writes the unpaired probabilities (p\-U) or opening energies into a binary file. \end{DoxyCompactList}\item 
+void \hyperlink{LPfold_8h_ae85bf55053e9fb295208be322e0fa07a}{init\-\_\-pf\-\_\-fold\-L\-P} (int length)
+\end{DoxyCompactItemize}
+
+
+\subsection{Detailed Description}
+Function declarations of partition function variants of the Lfold algorithm. 
+
+\subsection{Function Documentation}
+\hypertarget{LPfold_8h_ae85bf55053e9fb295208be322e0fa07a}{\index{L\-Pfold.\-h@{L\-Pfold.\-h}!init\-\_\-pf\-\_\-fold\-L\-P@{init\-\_\-pf\-\_\-fold\-L\-P}}
+\index{init\-\_\-pf\-\_\-fold\-L\-P@{init\-\_\-pf\-\_\-fold\-L\-P}!LPfold.h@{L\-Pfold.\-h}}
+\subsubsection[{init\-\_\-pf\-\_\-fold\-L\-P}]{\setlength{\rightskip}{0pt plus 5cm}void init\-\_\-pf\-\_\-fold\-L\-P (
+\begin{DoxyParamCaption}
+\item[{int}]{length}
+\end{DoxyParamCaption}
+)}}\label{LPfold_8h_ae85bf55053e9fb295208be322e0fa07a}
+Dunno if this function was ever used by external programs linking to R\-N\-Alib, but it was declared P\-U\-B\-L\-I\-C before. Anyway, never use this function as it will be removed soon and does nothing at all 
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