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+<h1>model_detailsT Struct Reference</h1><!-- doxytag: class="model_detailsT" -->
<p>The data structure that contains the complete model details used throughout the calculations.
- <a href="structmodel__detailsT.html#details">More...</a></p>
-<table class="memberdecls">
-<tr class="heading"><td colspan="2"><h2><a name="pub-attribs"></a>
-Data Fields</h2></td></tr>
-<tr class="memitem:a89f9df217a4a7f4351a642655976376b"><td class="memItemLeft" align="right" valign="top">int </td><td class="memItemRight" valign="bottom"><a class="el" href="structmodel__detailsT.html#a89f9df217a4a7f4351a642655976376b">dangles</a></td></tr>
-<tr class="memdesc:a89f9df217a4a7f4351a642655976376b"><td class="mdescLeft"> </td><td class="mdescRight">Specifies the dangle model used in any energy evaluation (0,1,2 or 3) <a href="#a89f9df217a4a7f4351a642655976376b"></a><br/></td></tr>
-<tr class="memitem:a9d73fde17b0465311a80f607faa85617"><td class="memItemLeft" align="right" valign="top"><a class="anchor" id="a9d73fde17b0465311a80f607faa85617"></a>
-int </td><td class="memItemRight" valign="bottom"><a class="el" href="structmodel__detailsT.html#a9d73fde17b0465311a80f607faa85617">special_hp</a></td></tr>
-<tr class="memdesc:a9d73fde17b0465311a80f607faa85617"><td class="mdescLeft"> </td><td class="mdescRight">Include special hairpin contributions for tri, tetra and hexaloops. <br/></td></tr>
-<tr class="memitem:a6fb076173d2cbc4259606ce23eedf17d"><td class="memItemLeft" align="right" valign="top"><a class="anchor" id="a6fb076173d2cbc4259606ce23eedf17d"></a>
-int </td><td class="memItemRight" valign="bottom"><a class="el" href="structmodel__detailsT.html#a6fb076173d2cbc4259606ce23eedf17d">noLP</a></td></tr>
-<tr class="memdesc:a6fb076173d2cbc4259606ce23eedf17d"><td class="mdescLeft"> </td><td class="mdescRight">Only consider canonical structures, i.e. no 'lonely' base pairs. <br/></td></tr>
-<tr class="memitem:a0f982e6904d012e4fe41e99daa797f5d"><td class="memItemLeft" align="right" valign="top"><a class="anchor" id="a0f982e6904d012e4fe41e99daa797f5d"></a>
-int </td><td class="memItemRight" valign="bottom"><a class="el" href="structmodel__detailsT.html#a0f982e6904d012e4fe41e99daa797f5d">noGU</a></td></tr>
-<tr class="memdesc:a0f982e6904d012e4fe41e99daa797f5d"><td class="mdescLeft"> </td><td class="mdescRight">Do not allow GU pairs. <br/></td></tr>
-<tr class="memitem:ae9cedf375cd904e5fb8e56cf3f64bcd9"><td class="memItemLeft" align="right" valign="top"><a class="anchor" id="ae9cedf375cd904e5fb8e56cf3f64bcd9"></a>
-int </td><td class="memItemRight" valign="bottom"><a class="el" href="structmodel__detailsT.html#ae9cedf375cd904e5fb8e56cf3f64bcd9">noGUclosure</a></td></tr>
-<tr class="memdesc:ae9cedf375cd904e5fb8e56cf3f64bcd9"><td class="mdescLeft"> </td><td class="mdescRight">Do not allow loops to be closed by GU pair. <br/></td></tr>
-<tr class="memitem:a415556dc150e02d108be81ecc5c48e85"><td class="memItemLeft" align="right" valign="top"><a class="anchor" id="a415556dc150e02d108be81ecc5c48e85"></a>
-int </td><td class="memItemRight" valign="bottom"><a class="el" href="structmodel__detailsT.html#a415556dc150e02d108be81ecc5c48e85">logML</a></td></tr>
-<tr class="memdesc:a415556dc150e02d108be81ecc5c48e85"><td class="mdescLeft"> </td><td class="mdescRight">Use logarithmic scaling for multi loops. <br/></td></tr>
-<tr class="memitem:a55f083dad18c216505805a8062e63074"><td class="memItemLeft" align="right" valign="top"><a class="anchor" id="a55f083dad18c216505805a8062e63074"></a>
-int </td><td class="memItemRight" valign="bottom"><a class="el" href="structmodel__detailsT.html#a55f083dad18c216505805a8062e63074">circ</a></td></tr>
-<tr class="memdesc:a55f083dad18c216505805a8062e63074"><td class="mdescLeft"> </td><td class="mdescRight">Assume molecule to be circular. <br/></td></tr>
-<tr class="memitem:aa1ecdce7bc3f375bd8a9a7b738abc0ea"><td class="memItemLeft" align="right" valign="top"><a class="anchor" id="aa1ecdce7bc3f375bd8a9a7b738abc0ea"></a>
-int </td><td class="memItemRight" valign="bottom"><a class="el" href="structmodel__detailsT.html#aa1ecdce7bc3f375bd8a9a7b738abc0ea">gquad</a></td></tr>
-<tr class="memdesc:aa1ecdce7bc3f375bd8a9a7b738abc0ea"><td class="mdescLeft"> </td><td class="mdescRight">Include G-quadruplexes in structure prediction. <br/></td></tr>
+<a href="#_details">More...</a></p>
+<table border="0" cellpadding="0" cellspacing="0">
+<tr><td colspan="2"><h2>Data Fields</h2></td></tr>
+<tr><td class="memItemLeft" align="right" valign="top">int </td><td class="memItemRight" valign="bottom"><a class="el" href="structmodel__detailsT.html#a89f9df217a4a7f4351a642655976376b">dangles</a></td></tr>
+<tr><td class="mdescLeft"> </td><td class="mdescRight">Specifies the dangle model used in any energy evaluation (0,1,2 or 3). <a href="#a89f9df217a4a7f4351a642655976376b"></a><br/></td></tr>
+<tr><td class="memItemLeft" align="right" valign="top"><a class="anchor" id="a9d73fde17b0465311a80f607faa85617"></a><!-- doxytag: member="model_detailsT::special_hp" ref="a9d73fde17b0465311a80f607faa85617" args="" -->
+int </td><td class="memItemRight" valign="bottom"><a class="el" href="structmodel__detailsT.html#a9d73fde17b0465311a80f607faa85617">special_hp</a></td></tr>
+<tr><td class="mdescLeft"> </td><td class="mdescRight">Include special hairpin contributions for tri, tetra and hexaloops. <br/></td></tr>
+<tr><td class="memItemLeft" align="right" valign="top"><a class="anchor" id="a6fb076173d2cbc4259606ce23eedf17d"></a><!-- doxytag: member="model_detailsT::noLP" ref="a6fb076173d2cbc4259606ce23eedf17d" args="" -->
+int </td><td class="memItemRight" valign="bottom"><a class="el" href="structmodel__detailsT.html#a6fb076173d2cbc4259606ce23eedf17d">noLP</a></td></tr>
+<tr><td class="mdescLeft"> </td><td class="mdescRight">Only consider canonical structures, i.e. no 'lonely' base pairs. <br/></td></tr>
+<tr><td class="memItemLeft" align="right" valign="top"><a class="anchor" id="a0f982e6904d012e4fe41e99daa797f5d"></a><!-- doxytag: member="model_detailsT::noGU" ref="a0f982e6904d012e4fe41e99daa797f5d" args="" -->
+int </td><td class="memItemRight" valign="bottom"><a class="el" href="structmodel__detailsT.html#a0f982e6904d012e4fe41e99daa797f5d">noGU</a></td></tr>
+<tr><td class="mdescLeft"> </td><td class="mdescRight">Do not allow GU pairs. <br/></td></tr>
+<tr><td class="memItemLeft" align="right" valign="top"><a class="anchor" id="ae9cedf375cd904e5fb8e56cf3f64bcd9"></a><!-- doxytag: member="model_detailsT::noGUclosure" ref="ae9cedf375cd904e5fb8e56cf3f64bcd9" args="" -->
+int </td><td class="memItemRight" valign="bottom"><a class="el" href="structmodel__detailsT.html#ae9cedf375cd904e5fb8e56cf3f64bcd9">noGUclosure</a></td></tr>
+<tr><td class="mdescLeft"> </td><td class="mdescRight">Do not allow loops to be closed by GU pair. <br/></td></tr>
+<tr><td class="memItemLeft" align="right" valign="top"><a class="anchor" id="a415556dc150e02d108be81ecc5c48e85"></a><!-- doxytag: member="model_detailsT::logML" ref="a415556dc150e02d108be81ecc5c48e85" args="" -->
+int </td><td class="memItemRight" valign="bottom"><a class="el" href="structmodel__detailsT.html#a415556dc150e02d108be81ecc5c48e85">logML</a></td></tr>
+<tr><td class="mdescLeft"> </td><td class="mdescRight">Use logarithmic scaling for multi loops. <br/></td></tr>
+<tr><td class="memItemLeft" align="right" valign="top"><a class="anchor" id="a55f083dad18c216505805a8062e63074"></a><!-- doxytag: member="model_detailsT::circ" ref="a55f083dad18c216505805a8062e63074" args="" -->
+int </td><td class="memItemRight" valign="bottom"><a class="el" href="structmodel__detailsT.html#a55f083dad18c216505805a8062e63074">circ</a></td></tr>
+<tr><td class="mdescLeft"> </td><td class="mdescRight">Assume molecule to be circular. <br/></td></tr>
+<tr><td class="memItemLeft" align="right" valign="top"><a class="anchor" id="aa1ecdce7bc3f375bd8a9a7b738abc0ea"></a><!-- doxytag: member="model_detailsT::gquad" ref="aa1ecdce7bc3f375bd8a9a7b738abc0ea" args="" -->
+int </td><td class="memItemRight" valign="bottom"><a class="el" href="structmodel__detailsT.html#aa1ecdce7bc3f375bd8a9a7b738abc0ea">gquad</a></td></tr>
+<tr><td class="mdescLeft"> </td><td class="mdescRight">Include G-quadruplexes in structure prediction. <br/></td></tr>
</table>
-<hr/><a name="details" id="details"></a><h2>Detailed Description</h2>
-<div class="textblock"><p>The data structure that contains the complete model details used throughout the calculations. </p>
-</div><hr/><h2>Field Documentation</h2>
-<a class="anchor" id="a89f9df217a4a7f4351a642655976376b"></a>
+<hr/><a name="_details"></a><h2>Detailed Description</h2>
+<p>The data structure that contains the complete model details used throughout the calculations. </p>
+<hr/><h2>Field Documentation</h2>
+<a class="anchor" id="a89f9df217a4a7f4351a642655976376b"></a><!-- doxytag: member="model_detailsT::dangles" ref="a89f9df217a4a7f4351a642655976376b" args="" -->
<div class="memitem">
<div class="memproto">
<table class="memname">
<tr>
- <td class="memname">int model_detailsT::dangles</td>
+ <td class="memname">int <a class="el" href="structmodel__detailsT.html#a89f9df217a4a7f4351a642655976376b">model_detailsT::dangles</a></td>
</tr>
</table>
-</div><div class="memdoc">
+</div>
+<div class="memdoc">
-<p>Specifies the dangle model used in any energy evaluation (0,1,2 or 3) </p>
-<dl class="section note"><dt>Note:</dt><dd>Some function do not implement all dangle model but only a subset of (0,1,2,3). Read the documentaion of the particular recurrences or energy evaluation function for information about the provided dangle model. </dd></dl>
+<p>Specifies the dangle model used in any energy evaluation (0,1,2 or 3). </p>
+<dl class="note"><dt><b>Note:</b></dt><dd>Some function do not implement all dangle model but only a subset of (0,1,2,3). Read the documentaion of the particular recurrences or energy evaluation function for information about the provided dangle model. </dd></dl>
</div>
</div>
<hr/>The documentation for this struct was generated from the following file:<ul>
-<li>/home/mescalin/ronny/public_html/programs/ViennaRNA/H/<a class="el" href="data__structures_8h_source.html">data_structures.h</a></li>
+<li>/homes/fmmarquesmadeira/Projects/jabaws/binaries/src/ViennaRNA/H/<a class="el" href="data__structures_8h_source.html">data_structures.h</a></li>
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