binaries/src/ViennaRNA/doc/latex/LPfold_8h.tex

   1 \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}
   2 \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}}
   3 }
   4
   5
   6 Function declarations of partition function variants of the Lfold algorithm.
   7
   8
   9 Include dependency graph for L\-Pfold.\-h\-:
  10 \nopagebreak
  11 \begin{figure}[H]
  12 \begin{center}
  13 \leavevmode
  14 \includegraphics[width=250pt]{LPfold_8h__incl}
  15 \end{center}
  16 \end{figure}
  17 \subsection*{Functions}
  18 \begin{DoxyCompactItemize}
  19 \item
  20 void \hyperlink{group__local__pf__fold_ga5a019014d37fe6105131dfc2fc447880}{update\-\_\-pf\-\_\-params\-L\-P} (int length)
  21 \item
  22 \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)
  23 \begin{DoxyCompactList}\small\item\em Compute partition functions for locally stable secondary structures. \end{DoxyCompactList}\item
  24 \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}
  25
  26 \begin{DoxyCompactList}\small\item\em Compute partition functions for locally stable secondary structures. \end{DoxyCompactList}\item
  27 void \hyperlink{group__local__pf__fold_ga0bcb751860bbf34e3dfee8c2fbdb3ef3}{putoutp\-U\-\_\-prob} (double $\ast$$\ast$p\-U, int length, int ulength, F\-I\-L\-E $\ast$fp, int energies)
  28 \begin{DoxyCompactList}\small\item\em Writes the unpaired probabilities (p\-U) or opening energies into a file. \end{DoxyCompactList}\item
  29 void \hyperlink{group__local__pf__fold_ga9acb00ee10e96b1ca4ea394cd8bcec75}{putoutp\-U\-\_\-prob\-\_\-bin} (double $\ast$$\ast$p\-U, int length, int ulength, F\-I\-L\-E $\ast$fp, int energies)
  30 \begin{DoxyCompactList}\small\item\em Writes the unpaired probabilities (p\-U) or opening energies into a binary file. \end{DoxyCompactList}\item
  31 void \hyperlink{LPfold_8h_ae85bf55053e9fb295208be322e0fa07a}{init\-\_\-pf\-\_\-fold\-L\-P} (int length)
  32 \end{DoxyCompactItemize}
  33
  34
  35 \subsection{Detailed Description}
  36 Function declarations of partition function variants of the Lfold algorithm.
  37
  38 \subsection{Function Documentation}
  39 \hypertarget{LPfold_8h_ae85bf55053e9fb295208be322e0fa07a}{\index{L\-Pfold.\-h@{L\-Pfold.\-h}!init\-\_\-pf\-\_\-fold\-L\-P@{init\-\_\-pf\-\_\-fold\-L\-P}}
  40 \index{init\-\_\-pf\-\_\-fold\-L\-P@{init\-\_\-pf\-\_\-fold\-L\-P}!LPfold.h@{L\-Pfold.\-h}}
  41 \subsubsection[{init\-\_\-pf\-\_\-fold\-L\-P}]{\setlength{\rightskip}{0pt plus 5cm}void init\-\_\-pf\-\_\-fold\-L\-P (
  42 \begin{DoxyParamCaption}
  43 \item[{int}]{length}
  44 \end{DoxyParamCaption}
  45 )}}\label{LPfold_8h_ae85bf55053e9fb295208be322e0fa07a}
  46 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