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+<h1>/homes/fmmarquesmadeira/Projects/jabaws/binaries/src/ViennaRNA/H/data_structures.h File Reference</h1>
<p>All datastructures and typedefs shared among the Vienna RNA Package can be found here.
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-Data Structures</h2></td></tr>
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-<tr class="memdesc:"><td class="mdescLeft"> </td><td class="mdescRight">this datastructure is used as input parameter in functions of <a class="el" href="PS__dot_8h.html" title="Various functions for plotting RNA secondary structures, dot-plots and other visualizations.">PS_dot.h</a> and others <a href="structplist.html#details">More...</a><br/></td></tr>
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-<tr class="memdesc:"><td class="mdescLeft"> </td><td class="mdescRight">this is a workarround for the SWIG Perl Wrapper RNA plot function that returns an array of type <a class="el" href="structCOORDINATE.html" title="this is a workarround for the SWIG Perl Wrapper RNA plot function that returns an array of type COORD...">COORDINATE</a> <a href="structCOORDINATE.html#details">More...</a><br/></td></tr>
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-<tr class="memdesc:"><td class="mdescLeft"> </td><td class="mdescRight">Stack of partial structures for backtracking. <a href="structsect.html#details">More...</a><br/></td></tr>
-<tr class="memitem:"><td class="memItemLeft" align="right" valign="top">struct  </td><td class="memItemRight" valign="bottom"><a class="el" href="structbondT.html">bondT</a></td></tr>
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-<tr class="memitem:"><td class="memItemLeft" align="right" valign="top">struct  </td><td class="memItemRight" valign="bottom"><a class="el" href="structbondTEn.html">bondTEn</a></td></tr>
-<tr class="memdesc:"><td class="mdescLeft"> </td><td class="mdescRight">Base pair with associated energy. <a href="structbondTEn.html#details">More...</a><br/></td></tr>
-<tr class="memitem:"><td class="memItemLeft" align="right" valign="top">struct  </td><td class="memItemRight" valign="bottom"><a class="el" href="structmodel__detailsT.html">model_detailsT</a></td></tr>
-<tr class="memdesc:"><td class="mdescLeft"> </td><td class="mdescRight">The data structure that contains the complete model details used throughout the calculations. <a href="structmodel__detailsT.html#details">More...</a><br/></td></tr>
-<tr class="memitem:"><td class="memItemLeft" align="right" valign="top">struct  </td><td class="memItemRight" valign="bottom"><a class="el" href="structparamT.html">paramT</a></td></tr>
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-<tr class="memdesc:"><td class="mdescLeft"> </td><td class="mdescRight">The datastructure that contains temperature scaled Boltzmann weights of the energy parameters. <a href="structpf__paramT.html#details">More...</a><br/></td></tr>
-<tr class="memitem:"><td class="memItemLeft" align="right" valign="top">struct  </td><td class="memItemRight" valign="bottom"><a class="el" href="structPAIR.html">PAIR</a></td></tr>
-<tr class="memdesc:"><td class="mdescLeft"> </td><td class="mdescRight">Base pair data structure used in subopt.c. <a href="structPAIR.html#details">More...</a><br/></td></tr>
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-<tr class="memdesc:"><td class="mdescLeft"> </td><td class="mdescRight">Sequence interval stack element used in subopt.c. <a href="structINTERVAL.html#details">More...</a><br/></td></tr>
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-<tr class="memitem:"><td class="memItemLeft" align="right" valign="top">struct  </td><td class="memItemRight" valign="bottom"><a class="el" href="structcofoldF.html">cofoldF</a></td></tr>
-<tr class="memitem:"><td class="memItemLeft" align="right" valign="top">struct  </td><td class="memItemRight" valign="bottom"><a class="el" href="structConcEnt.html">ConcEnt</a></td></tr>
-<tr class="memitem:"><td class="memItemLeft" align="right" valign="top">struct  </td><td class="memItemRight" valign="bottom"><a class="el" href="structpairpro.html">pairpro</a></td></tr>
-<tr class="memitem:"><td class="memItemLeft" align="right" valign="top">struct  </td><td class="memItemRight" valign="bottom"><a class="el" href="structpair__info.html">pair_info</a></td></tr>
-<tr class="memdesc:"><td class="mdescLeft"> </td><td class="mdescRight">A base pair info structure. <a href="structpair__info.html#details">More...</a><br/></td></tr>
-<tr class="memitem:"><td class="memItemLeft" align="right" valign="top">struct  </td><td class="memItemRight" valign="bottom"><a class="el" href="structmove__t.html">move_t</a></td></tr>
-<tr class="memitem:"><td class="memItemLeft" align="right" valign="top">struct  </td><td class="memItemRight" valign="bottom"><a class="el" href="structintermediate__t.html">intermediate_t</a></td></tr>
-<tr class="memitem:"><td class="memItemLeft" align="right" valign="top">struct  </td><td class="memItemRight" valign="bottom"><a class="el" href="structpath__t.html">path_t</a></td></tr>
-<tr class="memitem:"><td class="memItemLeft" align="right" valign="top">struct  </td><td class="memItemRight" valign="bottom"><a class="el" href="structpu__contrib.html">pu_contrib</a></td></tr>
-<tr class="memdesc:"><td class="mdescLeft"> </td><td class="mdescRight">contributions to p_u <a href="structpu__contrib.html#details">More...</a><br/></td></tr>
-<tr class="memitem:"><td class="memItemLeft" align="right" valign="top">struct  </td><td class="memItemRight" valign="bottom"><a class="el" href="structinteract.html">interact</a></td></tr>
-<tr class="memitem:"><td class="memItemLeft" align="right" valign="top">struct  </td><td class="memItemRight" valign="bottom"><a class="el" href="structpu__out.html">pu_out</a></td></tr>
-<tr class="memdesc:"><td class="mdescLeft"> </td><td class="mdescRight">Collection of all free_energy of beeing unpaired values for output. <a href="structpu__out.html#details">More...</a><br/></td></tr>
-<tr class="memitem:"><td class="memItemLeft" align="right" valign="top">struct  </td><td class="memItemRight" valign="bottom"><a class="el" href="structconstrain.html">constrain</a></td></tr>
-<tr class="memdesc:"><td class="mdescLeft"> </td><td class="mdescRight">constraints for cofolding <a href="structconstrain.html#details">More...</a><br/></td></tr>
-<tr class="memitem:"><td class="memItemLeft" align="right" valign="top">struct  </td><td class="memItemRight" valign="bottom"><a class="el" href="structduplexT.html">duplexT</a></td></tr>
-<tr class="memitem:"><td class="memItemLeft" align="right" valign="top">struct  </td><td class="memItemRight" valign="bottom"><a class="el" href="structfolden.html">folden</a></td></tr>
-<tr class="memitem:"><td class="memItemLeft" align="right" valign="top">struct  </td><td class="memItemRight" valign="bottom"><a class="el" href="structsnoopT.html">snoopT</a></td></tr>
-<tr class="memitem:"><td class="memItemLeft" align="right" valign="top">struct  </td><td class="memItemRight" valign="bottom"><a class="el" href="structdupVar.html">dupVar</a></td></tr>
-<tr class="memitem:"><td class="memItemLeft" align="right" valign="top">struct  </td><td class="memItemRight" valign="bottom"><a class="el" href="structTwoDfold__solution.html">TwoDfold_solution</a></td></tr>
-<tr class="memdesc:"><td class="mdescLeft"> </td><td class="mdescRight">Solution element returned from TwoDfoldList. <a href="structTwoDfold__solution.html#details">More...</a><br/></td></tr>
-<tr class="memitem:"><td class="memItemLeft" align="right" valign="top">struct  </td><td class="memItemRight" valign="bottom"><a class="el" href="structTwoDfold__vars.html">TwoDfold_vars</a></td></tr>
-<tr class="memdesc:"><td class="mdescLeft"> </td><td class="mdescRight">Variables compound for 2Dfold MFE folding. <a href="structTwoDfold__vars.html#details">More...</a><br/></td></tr>
-<tr class="memitem:"><td class="memItemLeft" align="right" valign="top">struct  </td><td class="memItemRight" valign="bottom"><a class="el" href="structTwoDpfold__solution.html">TwoDpfold_solution</a></td></tr>
-<tr class="memdesc:"><td class="mdescLeft"> </td><td class="mdescRight">Solution element returned from TwoDpfoldList. <a href="structTwoDpfold__solution.html#details">More...</a><br/></td></tr>
-<tr class="memitem:"><td class="memItemLeft" align="right" valign="top">struct  </td><td class="memItemRight" valign="bottom"><a class="el" href="structTwoDpfold__vars.html">TwoDpfold_vars</a></td></tr>
-<tr class="memdesc:"><td class="mdescLeft"> </td><td class="mdescRight">Variables compound for 2Dfold partition function folding. <a href="structTwoDpfold__vars.html#details">More...</a><br/></td></tr>
-</table><table class="memberdecls">
-<tr class="heading"><td colspan="2"><h2><a name="define-members"></a>
-Macros</h2></td></tr>
-<tr class="memitem:a05a5ffe718aa431d97419a12fb082379"><td class="memItemLeft" align="right" valign="top"><a class="anchor" id="a05a5ffe718aa431d97419a12fb082379"></a>
-#define </td><td class="memItemRight" valign="bottom"><a class="el" href="data__structures_8h.html#a05a5ffe718aa431d97419a12fb082379">MAXALPHA</a>   20</td></tr>
-<tr class="memdesc:a05a5ffe718aa431d97419a12fb082379"><td class="mdescLeft"> </td><td class="mdescRight">Maximal length of alphabet. <br/></td></tr>
-<tr class="memitem:a5ec740b80afb4906ba4311dbd8ddbd89"><td class="memItemLeft" align="right" valign="top"><a class="anchor" id="a5ec740b80afb4906ba4311dbd8ddbd89"></a>
-#define </td><td class="memItemRight" valign="bottom"><a class="el" href="data__structures_8h.html#a5ec740b80afb4906ba4311dbd8ddbd89">MAXDOS</a>   1000</td></tr>
-<tr class="memdesc:a5ec740b80afb4906ba4311dbd8ddbd89"><td class="mdescLeft"> </td><td class="mdescRight">Maximum density of states discretization for subopt. <br/></td></tr>
+<table border="0" cellpadding="0" cellspacing="0">
+<tr><td colspan="2"><h2>Data Structures</h2></td></tr>
+<tr><td class="memItemLeft" align="right" valign="top">struct </td><td class="memItemRight" valign="bottom"><a class="el" href="structplist.html">plist</a></td></tr>
+<tr><td class="mdescLeft"> </td><td class="mdescRight">this datastructure is used as input parameter in functions of <a class="el" href="PS__dot_8h.html" title="Various functions for plotting RNA secondary structures, dot-plots and other visualizations...">PS_dot.h</a> and others <a href="structplist.html#_details">More...</a><br/></td></tr>
+<tr><td class="memItemLeft" align="right" valign="top">struct </td><td class="memItemRight" valign="bottom"><a class="el" href="structcpair.html">cpair</a></td></tr>
+<tr><td class="mdescLeft"> </td><td class="mdescRight">this datastructure is used as input parameter in functions of PS_dot.c <a href="structcpair.html#_details">More...</a><br/></td></tr>
+<tr><td class="memItemLeft" align="right" valign="top">struct </td><td class="memItemRight" valign="bottom"><a class="el" href="structCOORDINATE.html">COORDINATE</a></td></tr>
+<tr><td class="mdescLeft"> </td><td class="mdescRight">this is a workarround for the SWIG Perl Wrapper RNA plot function that returns an array of type <a class="el" href="structCOORDINATE.html" title="this is a workarround for the SWIG Perl Wrapper RNA plot function that returns an...">COORDINATE</a> <a href="structCOORDINATE.html#_details">More...</a><br/></td></tr>
+<tr><td class="memItemLeft" align="right" valign="top">struct </td><td class="memItemRight" valign="bottom"><a class="el" href="structsect.html">sect</a></td></tr>
+<tr><td class="mdescLeft"> </td><td class="mdescRight">Stack of partial structures for backtracking. <a href="structsect.html#_details">More...</a><br/></td></tr>
+<tr><td class="memItemLeft" align="right" valign="top">struct </td><td class="memItemRight" valign="bottom"><a class="el" href="structbondT.html">bondT</a></td></tr>
+<tr><td class="mdescLeft"> </td><td class="mdescRight">Base pair. <a href="structbondT.html#_details">More...</a><br/></td></tr>
+<tr><td class="memItemLeft" align="right" valign="top">struct </td><td class="memItemRight" valign="bottom"><a class="el" href="structbondTEn.html">bondTEn</a></td></tr>
+<tr><td class="mdescLeft"> </td><td class="mdescRight">Base pair with associated energy. <a href="structbondTEn.html#_details">More...</a><br/></td></tr>
+<tr><td class="memItemLeft" align="right" valign="top">struct </td><td class="memItemRight" valign="bottom"><a class="el" href="structmodel__detailsT.html">model_detailsT</a></td></tr>
+<tr><td class="mdescLeft"> </td><td class="mdescRight">The data structure that contains the complete model details used throughout the calculations. <a href="structmodel__detailsT.html#_details">More...</a><br/></td></tr>
+<tr><td class="memItemLeft" align="right" valign="top">struct </td><td class="memItemRight" valign="bottom"><a class="el" href="structparamT.html">paramT</a></td></tr>
+<tr><td class="mdescLeft"> </td><td class="mdescRight">The datastructure that contains temperature scaled energy parameters. <a href="structparamT.html#_details">More...</a><br/></td></tr>
+<tr><td class="memItemLeft" align="right" valign="top">struct </td><td class="memItemRight" valign="bottom"><a class="el" href="structpf__paramT.html">pf_paramT</a></td></tr>
+<tr><td class="mdescLeft"> </td><td class="mdescRight">The datastructure that contains temperature scaled Boltzmann weights of the energy parameters. <a href="structpf__paramT.html#_details">More...</a><br/></td></tr>
+<tr><td class="memItemLeft" align="right" valign="top">struct </td><td class="memItemRight" valign="bottom"><a class="el" href="structPAIR.html">PAIR</a></td></tr>
+<tr><td class="mdescLeft"> </td><td class="mdescRight">Base pair data structure used in subopt.c. <a href="structPAIR.html#_details">More...</a><br/></td></tr>
+<tr><td class="memItemLeft" align="right" valign="top">struct </td><td class="memItemRight" valign="bottom"><a class="el" href="structINTERVAL.html">INTERVAL</a></td></tr>
+<tr><td class="mdescLeft"> </td><td class="mdescRight">Sequence interval stack element used in subopt.c. <a href="structINTERVAL.html#_details">More...</a><br/></td></tr>
+<tr><td class="memItemLeft" align="right" valign="top">struct </td><td class="memItemRight" valign="bottom"><a class="el" href="structSOLUTION.html">SOLUTION</a></td></tr>
+<tr><td class="mdescLeft"> </td><td class="mdescRight">Solution element from subopt.c. <a href="structSOLUTION.html#_details">More...</a><br/></td></tr>
+<tr><td class="memItemLeft" align="right" valign="top">struct </td><td class="memItemRight" valign="bottom"><a class="el" href="structcofoldF.html">cofoldF</a></td></tr>
+<tr><td class="memItemLeft" align="right" valign="top">struct </td><td class="memItemRight" valign="bottom"><a class="el" href="structConcEnt.html">ConcEnt</a></td></tr>
+<tr><td class="memItemLeft" align="right" valign="top">struct </td><td class="memItemRight" valign="bottom"><a class="el" href="structpairpro.html">pairpro</a></td></tr>
+<tr><td class="memItemLeft" align="right" valign="top">struct </td><td class="memItemRight" valign="bottom"><a class="el" href="structpair__info.html">pair_info</a></td></tr>
+<tr><td class="mdescLeft"> </td><td class="mdescRight">A base pair info structure. <a href="structpair__info.html#_details">More...</a><br/></td></tr>
+<tr><td class="memItemLeft" align="right" valign="top">struct </td><td class="memItemRight" valign="bottom"><a class="el" href="structmove__t.html">move_t</a></td></tr>
+<tr><td class="memItemLeft" align="right" valign="top">struct </td><td class="memItemRight" valign="bottom"><a class="el" href="structintermediate__t.html">intermediate_t</a></td></tr>
+<tr><td class="memItemLeft" align="right" valign="top">struct </td><td class="memItemRight" valign="bottom"><a class="el" href="structpath__t.html">path_t</a></td></tr>
+<tr><td class="memItemLeft" align="right" valign="top">struct </td><td class="memItemRight" valign="bottom"><a class="el" href="structpu__contrib.html">pu_contrib</a></td></tr>
+<tr><td class="mdescLeft"> </td><td class="mdescRight">contributions to p_u <a href="structpu__contrib.html#_details">More...</a><br/></td></tr>
+<tr><td class="memItemLeft" align="right" valign="top">struct </td><td class="memItemRight" valign="bottom"><a class="el" href="structinteract.html">interact</a></td></tr>
+<tr><td class="memItemLeft" align="right" valign="top">struct </td><td class="memItemRight" valign="bottom"><a class="el" href="structpu__out.html">pu_out</a></td></tr>
+<tr><td class="mdescLeft"> </td><td class="mdescRight">Collection of all free_energy of beeing unpaired values for output. <a href="structpu__out.html#_details">More...</a><br/></td></tr>
+<tr><td class="memItemLeft" align="right" valign="top">struct </td><td class="memItemRight" valign="bottom"><a class="el" href="structconstrain.html">constrain</a></td></tr>
+<tr><td class="mdescLeft"> </td><td class="mdescRight">constraints for cofolding <a href="structconstrain.html#_details">More...</a><br/></td></tr>
+<tr><td class="memItemLeft" align="right" valign="top">struct </td><td class="memItemRight" valign="bottom"><a class="el" href="structduplexT.html">duplexT</a></td></tr>
+<tr><td class="memItemLeft" align="right" valign="top">struct </td><td class="memItemRight" valign="bottom"><a class="el" href="structfolden.html">folden</a></td></tr>
+<tr><td class="memItemLeft" align="right" valign="top">struct </td><td class="memItemRight" valign="bottom"><a class="el" href="structsnoopT.html">snoopT</a></td></tr>
+<tr><td class="memItemLeft" align="right" valign="top">struct </td><td class="memItemRight" valign="bottom"><a class="el" href="structdupVar.html">dupVar</a></td></tr>
+<tr><td class="memItemLeft" align="right" valign="top">struct </td><td class="memItemRight" valign="bottom"><a class="el" href="structTwoDfold__solution.html">TwoDfold_solution</a></td></tr>
+<tr><td class="mdescLeft"> </td><td class="mdescRight">Solution element returned from TwoDfoldList. <a href="structTwoDfold__solution.html#_details">More...</a><br/></td></tr>
+<tr><td class="memItemLeft" align="right" valign="top">struct </td><td class="memItemRight" valign="bottom"><a class="el" href="structTwoDfold__vars.html">TwoDfold_vars</a></td></tr>
+<tr><td class="mdescLeft"> </td><td class="mdescRight">Variables compound for 2Dfold MFE folding. <a href="structTwoDfold__vars.html#_details">More...</a><br/></td></tr>
+<tr><td class="memItemLeft" align="right" valign="top">struct </td><td class="memItemRight" valign="bottom"><a class="el" href="structTwoDpfold__solution.html">TwoDpfold_solution</a></td></tr>
+<tr><td class="mdescLeft"> </td><td class="mdescRight">Solution element returned from TwoDpfoldList. <a href="structTwoDpfold__solution.html#_details">More...</a><br/></td></tr>
+<tr><td class="memItemLeft" align="right" valign="top">struct </td><td class="memItemRight" valign="bottom"><a class="el" href="structTwoDpfold__vars.html">TwoDpfold_vars</a></td></tr>
+<tr><td class="mdescLeft"> </td><td class="mdescRight">Variables compound for 2Dfold partition function folding. <a href="structTwoDpfold__vars.html#_details">More...</a><br/></td></tr>
+<tr><td colspan="2"><h2>Defines</h2></td></tr>
+<tr><td class="memItemLeft" align="right" valign="top"><a class="anchor" id="a05a5ffe718aa431d97419a12fb082379"></a><!-- doxytag: member="data_structures.h::MAXALPHA" ref="a05a5ffe718aa431d97419a12fb082379" args="" -->
+#define </td><td class="memItemRight" valign="bottom"><a class="el" href="data__structures_8h.html#a05a5ffe718aa431d97419a12fb082379">MAXALPHA</a> 20</td></tr>
+<tr><td class="mdescLeft"> </td><td class="mdescRight">Maximal length of alphabet. <br/></td></tr>
+<tr><td class="memItemLeft" align="right" valign="top"><a class="anchor" id="a5ec740b80afb4906ba4311dbd8ddbd89"></a><!-- doxytag: member="data_structures.h::MAXDOS" ref="a5ec740b80afb4906ba4311dbd8ddbd89" args="" -->
+#define </td><td class="memItemRight" valign="bottom"><a class="el" href="data__structures_8h.html#a5ec740b80afb4906ba4311dbd8ddbd89">MAXDOS</a> 1000</td></tr>
+<tr><td class="mdescLeft"> </td><td class="mdescRight">Maximum density of states discretization for subopt. <br/></td></tr>
</table>
-<hr/><a name="details" id="details"></a><h2>Detailed Description</h2>
-<div class="textblock"><p>All datastructures and typedefs shared among the Vienna RNA Package can be found here. </p>
-</div></div><!-- contents -->
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- <img class="footer" src="doxygen.png" alt="doxygen"/></a> 1.8.1.1 </li>
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+<hr/><a name="_details"></a><h2>Detailed Description</h2>
+<p>All datastructures and typedefs shared among the Vienna RNA Package can be found here. </p>
</div>
+<hr size="1"/><address style="text-align: right;"><small>Generated on 11 Apr 2017 for RNAlib-2.1.2 by
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