\hypertarget{data__structures_8h}{
\section{/homes/fmmarquesmadeira/Projects/jabaws/binaries/src/ViennaRNA/H/data\_\-structures.h File Reference}
\label{data__structures_8h}\index{/homes/fmmarquesmadeira/Projects/jabaws/binaries/src/ViennaRNA/H/data\_\-structures.h@{/homes/fmmarquesmadeira/Projects/jabaws/binaries/src/ViennaRNA/H/data\_\-structures.h}}
}


All datastructures and typedefs shared among the Vienna RNA Package can be found here.  
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\subsection*{Data Structures}
\begin{DoxyCompactItemize}
\item 
struct \hyperlink{structplist}{plist}
\begin{DoxyCompactList}\small\item\em this datastructure is used as input parameter in functions of \hyperlink{PS__dot_8h}{PS\_\-dot.h} and others \item\end{DoxyCompactList}\item 
struct \hyperlink{structcpair}{cpair}
\begin{DoxyCompactList}\small\item\em this datastructure is used as input parameter in functions of PS\_\-dot.c \item\end{DoxyCompactList}\item 
struct \hyperlink{structCOORDINATE}{COORDINATE}
\begin{DoxyCompactList}\small\item\em this is a workarround for the SWIG Perl Wrapper RNA plot function that returns an array of type \hyperlink{structCOORDINATE}{COORDINATE} \item\end{DoxyCompactList}\item 
struct \hyperlink{structsect}{sect}
\begin{DoxyCompactList}\small\item\em Stack of partial structures for backtracking. \item\end{DoxyCompactList}\item 
struct \hyperlink{structbondT}{bondT}
\begin{DoxyCompactList}\small\item\em Base pair. \item\end{DoxyCompactList}\item 
struct \hyperlink{structbondTEn}{bondTEn}
\begin{DoxyCompactList}\small\item\em Base pair with associated energy. \item\end{DoxyCompactList}\item 
struct \hyperlink{structmodel__detailsT}{model\_\-detailsT}
\begin{DoxyCompactList}\small\item\em The data structure that contains the complete model details used throughout the calculations. \item\end{DoxyCompactList}\item 
struct \hyperlink{structparamT}{paramT}
\begin{DoxyCompactList}\small\item\em The datastructure that contains temperature scaled energy parameters. \item\end{DoxyCompactList}\item 
struct \hyperlink{structpf__paramT}{pf\_\-paramT}
\begin{DoxyCompactList}\small\item\em The datastructure that contains temperature scaled Boltzmann weights of the energy parameters. \item\end{DoxyCompactList}\item 
struct \hyperlink{structPAIR}{PAIR}
\begin{DoxyCompactList}\small\item\em Base pair data structure used in subopt.c. \item\end{DoxyCompactList}\item 
struct \hyperlink{structINTERVAL}{INTERVAL}
\begin{DoxyCompactList}\small\item\em Sequence interval stack element used in subopt.c. \item\end{DoxyCompactList}\item 
struct \hyperlink{structSOLUTION}{SOLUTION}
\begin{DoxyCompactList}\small\item\em Solution element from subopt.c. \item\end{DoxyCompactList}\item 
struct \hyperlink{structcofoldF}{cofoldF}
\item 
struct \hyperlink{structConcEnt}{ConcEnt}
\item 
struct \hyperlink{structpairpro}{pairpro}
\item 
struct \hyperlink{structpair__info}{pair\_\-info}
\begin{DoxyCompactList}\small\item\em A base pair info structure. \item\end{DoxyCompactList}\item 
struct \hyperlink{structmove__t}{move\_\-t}
\item 
struct \hyperlink{structintermediate__t}{intermediate\_\-t}
\item 
struct \hyperlink{structpath__t}{path\_\-t}
\item 
struct \hyperlink{structpu__contrib}{pu\_\-contrib}
\begin{DoxyCompactList}\small\item\em contributions to p\_\-u \item\end{DoxyCompactList}\item 
struct \hyperlink{structinteract}{interact}
\item 
struct \hyperlink{structpu__out}{pu\_\-out}
\begin{DoxyCompactList}\small\item\em Collection of all free\_\-energy of beeing unpaired values for output. \item\end{DoxyCompactList}\item 
struct \hyperlink{structconstrain}{constrain}
\begin{DoxyCompactList}\small\item\em constraints for cofolding \item\end{DoxyCompactList}\item 
struct \hyperlink{structduplexT}{duplexT}
\item 
struct \hyperlink{structfolden}{folden}
\item 
struct \hyperlink{structsnoopT}{snoopT}
\item 
struct \hyperlink{structdupVar}{dupVar}
\item 
struct \hyperlink{structTwoDfold__solution}{TwoDfold\_\-solution}
\begin{DoxyCompactList}\small\item\em Solution element returned from TwoDfoldList. \item\end{DoxyCompactList}\item 
struct \hyperlink{structTwoDfold__vars}{TwoDfold\_\-vars}
\begin{DoxyCompactList}\small\item\em Variables compound for 2Dfold MFE folding. \item\end{DoxyCompactList}\item 
struct \hyperlink{structTwoDpfold__solution}{TwoDpfold\_\-solution}
\begin{DoxyCompactList}\small\item\em Solution element returned from TwoDpfoldList. \item\end{DoxyCompactList}\item 
struct \hyperlink{structTwoDpfold__vars}{TwoDpfold\_\-vars}
\begin{DoxyCompactList}\small\item\em Variables compound for 2Dfold partition function folding. \item\end{DoxyCompactList}\end{DoxyCompactItemize}
\subsection*{Defines}
\begin{DoxyCompactItemize}
\item 
\hypertarget{data__structures_8h_a05a5ffe718aa431d97419a12fb082379}{
\#define \hyperlink{data__structures_8h_a05a5ffe718aa431d97419a12fb082379}{MAXALPHA}~20}
\label{data__structures_8h_a05a5ffe718aa431d97419a12fb082379}

\begin{DoxyCompactList}\small\item\em Maximal length of alphabet. \item\end{DoxyCompactList}\item 
\hypertarget{data__structures_8h_a5ec740b80afb4906ba4311dbd8ddbd89}{
\#define \hyperlink{data__structures_8h_a5ec740b80afb4906ba4311dbd8ddbd89}{MAXDOS}~1000}
\label{data__structures_8h_a5ec740b80afb4906ba4311dbd8ddbd89}

\begin{DoxyCompactList}\small\item\em Maximum density of states discretization for subopt. \item\end{DoxyCompactList}\end{DoxyCompactItemize}


\subsection{Detailed Description}
All datastructures and typedefs shared among the Vienna RNA Package can be found here. 