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-<div class="title">subopt.h</div> </div>
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-<div class="contents">
-<a href="subopt_8h.html">Go to the documentation of this file.</a><div class="fragment"><div class="line"><a name="l00001"></a><span class="lineno"> 1</span> <span class="comment">/* subopt.h */</span></div>
-<div class="line"><a name="l00002"></a><span class="lineno"> 2</span> <span class="preprocessor">#ifndef __VIENNA_RNA_PACKAGE_SUBOPT_H__</span></div>
-<div class="line"><a name="l00003"></a><span class="lineno"> 3</span> <span class="preprocessor"></span><span class="preprocessor">#define __VIENNA_RNA_PACKAGE_SUBOPT_H__</span></div>
-<div class="line"><a name="l00004"></a><span class="lineno"> 4</span> <span class="preprocessor"></span></div>
-<div class="line"><a name="l00005"></a><span class="lineno"> 5</span> <span class="preprocessor">#include "<a class="code" href="data__structures_8h.html" title="All datastructures and typedefs shared among the Vienna RNA Package can be found here.">data_structures.h</a>"</span></div>
-<div class="line"><a name="l00006"></a><span class="lineno"> 6</span> </div>
-<div class="line"><a name="l00007"></a><span class="lineno"> 7</span> <span class="preprocessor">#define MAXDOS 1000</span></div>
-<div class="line"><a name="l00008"></a><span class="lineno"> 8</span> <span class="preprocessor"></span></div>
-<div class="line"><a name="l00043"></a><span class="lineno"> 43</span> <a class="code" href="structSOLUTION.html" title="Solution element from subopt.c.">SOLUTION</a> *<a class="code" href="group__subopt__wuchty.html#ga700f662506a233e42dd7fda74fafd40e" title="Returns list of subopt structures or writes to fp.">subopt</a> (<span class="keywordtype">char</span> *seq,</div>
-<div class="line"><a name="l00044"></a><span class="lineno"> 44</span>  <span class="keywordtype">char</span> *structure,</div>
-<div class="line"><a name="l00045"></a><span class="lineno"> 45</span>  <span class="keywordtype">int</span> delta,</div>
-<div class="line"><a name="l00046"></a><span class="lineno"> 46</span>  FILE *fp);</div>
-<div class="line"><a name="l00047"></a><span class="lineno"> 47</span> </div>
-<div class="line"><a name="l00053"></a><span class="lineno"> 53</span> <a class="code" href="structSOLUTION.html" title="Solution element from subopt.c.">SOLUTION</a> *<a class="code" href="group__subopt__wuchty.html#ga554dedfcdb249fdf151caade58666e4d" title="Returns list of subopt structures or writes to fp.">subopt_par</a>( <span class="keywordtype">char</span> *seq,</div>
-<div class="line"><a name="l00054"></a><span class="lineno"> 54</span>  <span class="keywordtype">char</span> *structure,</div>
-<div class="line"><a name="l00055"></a><span class="lineno"> 55</span>  <a class="code" href="structparamT.html" title="The datastructure that contains temperature scaled energy parameters.">paramT</a> *parameters,</div>
-<div class="line"><a name="l00056"></a><span class="lineno"> 56</span>  <span class="keywordtype">int</span> delta,</div>
-<div class="line"><a name="l00057"></a><span class="lineno"> 57</span>  <span class="keywordtype">int</span> is_constrained,</div>
-<div class="line"><a name="l00058"></a><span class="lineno"> 58</span>  <span class="keywordtype">int</span> is_circular,</div>
-<div class="line"><a name="l00059"></a><span class="lineno"> 59</span>  FILE *fp);</div>
-<div class="line"><a name="l00060"></a><span class="lineno"> 60</span> </div>
-<div class="line"><a name="l00075"></a><span class="lineno"> 75</span> <a class="code" href="structSOLUTION.html" title="Solution element from subopt.c.">SOLUTION</a> *<a class="code" href="group__subopt__wuchty.html#ga8634516e4740e0b6c9a46d2bae940340" title="Returns list of circular subopt structures or writes to fp.">subopt_circ</a> ( <span class="keywordtype">char</span> *seq,</div>
-<div class="line"><a name="l00076"></a><span class="lineno"> 76</span>  <span class="keywordtype">char</span> *sequence,</div>
-<div class="line"><a name="l00077"></a><span class="lineno"> 77</span>  <span class="keywordtype">int</span> delta,</div>
-<div class="line"><a name="l00078"></a><span class="lineno"> 78</span>  FILE *fp);</div>
-<div class="line"><a name="l00079"></a><span class="lineno"> 79</span> </div>
-<div class="line"><a name="l00086"></a><span class="lineno"> 86</span> <span class="keyword">extern</span> <span class="keywordtype">int</span> <a class="code" href="group__subopt__wuchty.html#ga873cf8ed69e0437f8efa8b1fec854a0e" title="Sort output by energy.">subopt_sorted</a>;</div>
-<div class="line"><a name="l00087"></a><span class="lineno"> 87</span> </div>
-<div class="line"><a name="l00088"></a><span class="lineno"> 88</span> </div>
-<div class="line"><a name="l00095"></a><span class="lineno"> 95</span> <span class="keyword">extern</span> <span class="keywordtype">double</span> <a class="code" href="group__subopt__wuchty.html#ga5e57d914bcb5feeecdf520e25313fcfe" title="printing threshold for use with logML">print_energy</a>;</div>
-<div class="line"><a name="l00096"></a><span class="lineno"> 96</span> </div>
-<div class="line"><a name="l00113"></a><span class="lineno"> 113</span> <span class="keyword">extern</span> <span class="keywordtype">int</span> <a class="code" href="group__dos.html#ga937634a76b46a22530a74906f1957a9e" title="The Density of States.">density_of_states</a>[<a class="code" href="data__structures_8h.html#a5ec740b80afb4906ba4311dbd8ddbd89" title="Maximum density of states discretization for subopt.">MAXDOS</a>+1];</div>
-<div class="line"><a name="l00114"></a><span class="lineno"> 114</span>  <span class="comment">/* End of group dos */</span></div>
-<div class="line"><a name="l00116"></a><span class="lineno"> 116</span> </div>
-<div class="line"><a name="l00117"></a><span class="lineno"> 117</span> <span class="preprocessor">#endif</span></div>
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- <li class="navelem"><a class="el" href="dir_d72344b28b4f2089ce25682c4e6eba22.html">H</a></li><li class="navelem"><a class="el" href="subopt_8h.html">subopt.h</a></li>
- <li class="footer">Generated on Wed Jul 24 2013 13:38:56 for RNAlib-2.1.2 by
- <a href="http://www.doxygen.org/index.html">
- <img class="footer" src="doxygen.png" alt="doxygen"/></a> 1.8.1.1 </li>
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-</div>
+<h1>/homes/fmmarquesmadeira/Projects/jabaws/binaries/src/ViennaRNA/H/subopt.h</h1><a href="subopt_8h.html">Go to the documentation of this file.</a><div class="fragment"><pre class="fragment"><a name="l00001"></a>00001 <span class="comment">/* subopt.h */</span>
+<a name="l00002"></a>00002 <span class="preprocessor">#ifndef __VIENNA_RNA_PACKAGE_SUBOPT_H__</span>
+<a name="l00003"></a>00003 <span class="preprocessor"></span><span class="preprocessor">#define __VIENNA_RNA_PACKAGE_SUBOPT_H__</span>
+<a name="l00004"></a>00004 <span class="preprocessor"></span>
+<a name="l00005"></a>00005 <span class="preprocessor">#include "<a class="code" href="data__structures_8h.html" title="All datastructures and typedefs shared among the Vienna RNA Package can be found...">data_structures.h</a>"</span>
+<a name="l00006"></a>00006
+<a name="l00007"></a>00007 <span class="preprocessor">#define MAXDOS 1000</span>
+<a name="l00008"></a>00008 <span class="preprocessor"></span>
+<a name="l00043"></a>00043 <a class="code" href="structSOLUTION.html" title="Solution element from subopt.c.">SOLUTION</a> *<a class="code" href="group__subopt__wuchty.html#ga700f662506a233e42dd7fda74fafd40e" title="Returns list of subopt structures or writes to fp.">subopt</a> (<span class="keywordtype">char</span> *seq,
+<a name="l00044"></a>00044 <span class="keywordtype">char</span> *structure,
+<a name="l00045"></a>00045 <span class="keywordtype">int</span> delta,
+<a name="l00046"></a>00046 FILE *fp);
+<a name="l00047"></a>00047
+<a name="l00053"></a>00053 <a class="code" href="structSOLUTION.html" title="Solution element from subopt.c.">SOLUTION</a> *<a class="code" href="group__subopt__wuchty.html#ga554dedfcdb249fdf151caade58666e4d" title="Returns list of subopt structures or writes to fp.">subopt_par</a>( <span class="keywordtype">char</span> *seq,
+<a name="l00054"></a>00054 <span class="keywordtype">char</span> *structure,
+<a name="l00055"></a>00055 <a class="code" href="structparamT.html" title="The datastructure that contains temperature scaled energy parameters.">paramT</a> *parameters,
+<a name="l00056"></a>00056 <span class="keywordtype">int</span> delta,
+<a name="l00057"></a>00057 <span class="keywordtype">int</span> is_constrained,
+<a name="l00058"></a>00058 <span class="keywordtype">int</span> is_circular,
+<a name="l00059"></a>00059 FILE *fp);
+<a name="l00060"></a>00060
+<a name="l00075"></a>00075 <a class="code" href="structSOLUTION.html" title="Solution element from subopt.c.">SOLUTION</a> *<a class="code" href="group__subopt__wuchty.html#ga8634516e4740e0b6c9a46d2bae940340" title="Returns list of circular subopt structures or writes to fp.">subopt_circ</a> ( <span class="keywordtype">char</span> *seq,
+<a name="l00076"></a>00076 <span class="keywordtype">char</span> *sequence,
+<a name="l00077"></a>00077 <span class="keywordtype">int</span> delta,
+<a name="l00078"></a>00078 FILE *fp);
+<a name="l00079"></a>00079
+<a name="l00086"></a>00086 <span class="keyword">extern</span> <span class="keywordtype">int</span> <a class="code" href="group__subopt__wuchty.html#ga873cf8ed69e0437f8efa8b1fec854a0e" title="Sort output by energy.">subopt_sorted</a>;
+<a name="l00087"></a>00087
+<a name="l00088"></a>00088
+<a name="l00095"></a>00095 <span class="keyword">extern</span> <span class="keywordtype">double</span> <a class="code" href="group__subopt__wuchty.html#ga5e57d914bcb5feeecdf520e25313fcfe" title="printing threshold for use with logML">print_energy</a>;
+<a name="l00096"></a>00096
+<a name="l00113"></a>00113 <span class="keyword">extern</span> <span class="keywordtype">int</span> <a class="code" href="group__dos.html#ga937634a76b46a22530a74906f1957a9e" title="The Density of States.">density_of_states</a>[<a class="code" href="data__structures_8h.html#a5ec740b80afb4906ba4311dbd8ddbd89" title="Maximum density of states discretization for subopt.">MAXDOS</a>+1];
+<a name="l00114"></a>00114 <span class="comment">/* End of group dos */</span>
+<a name="l00116"></a>00116
+<a name="l00117"></a>00117 <span class="preprocessor">#endif</span>
+</pre></div></div>
+<hr size="1"/><address style="text-align: right;"><small>Generated on 11 Apr 2017 for RNAlib-2.1.2 by
+<a href="http://www.doxygen.org/index.html">
+<img class="footer" src="doxygen.png" alt="doxygen"/></a> 1.6.1 </small></address>
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