binaries/src/ViennaRNA/doc/html/ali__plex_8h_source.html

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  68 <h1>/homes/fmmarquesmadeira/Projects/jabaws/binaries/src/ViennaRNA/H/ali_plex.h</h1><div class="fragment"><pre class="fragment"><a name="l00001"></a>00001 <span class="preprocessor">#ifndef __VIENNA_RNA_PACKAGE_ALI_PLEX_H__</span>
  69 <a name="l00002"></a>00002 <span class="preprocessor"></span><span class="preprocessor">#define __VIENNA_RNA_PACKAGE_ALI_PLEX_H__</span>
  70 <a name="l00003"></a>00003 <span class="preprocessor"></span>
  71 <a name="l00004"></a>00004 <span class="preprocessor">#include &quot;<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>&quot;</span>
  72 <a name="l00008"></a>00008 <a class="code" href="structduplexT.html">duplexT</a>** aliLduplexfold( <span class="keyword">const</span> <span class="keywordtype">char</span> *s1[],
  73 <a name="l00009"></a>00009                           <span class="keyword">const</span> <span class="keywordtype">char</span> *s2[],
  74 <a name="l00010"></a>00010                           <span class="keyword">const</span> <span class="keywordtype">int</span> threshold,
  75 <a name="l00011"></a>00011                           <span class="keyword">const</span> <span class="keywordtype">int</span> extension_cost,
  76 <a name="l00012"></a>00012                           <span class="keyword">const</span> <span class="keywordtype">int</span> alignment_length,
  77 <a name="l00013"></a>00013                           <span class="keyword">const</span> <span class="keywordtype">int</span> delta,
  78 <a name="l00014"></a>00014                           <span class="keyword">const</span> <span class="keywordtype">int</span> fast,
  79 <a name="l00015"></a>00015                           <span class="keyword">const</span> <span class="keywordtype">int</span> il_a,
  80 <a name="l00016"></a>00016                           <span class="keyword">const</span> <span class="keywordtype">int</span> il_b,
  81 <a name="l00017"></a>00017                           <span class="keyword">const</span> <span class="keywordtype">int</span> b_a,
  82 <a name="l00018"></a>00018                           <span class="keyword">const</span> <span class="keywordtype">int</span> b_b);
  83 <a name="l00022"></a>00022 <a class="code" href="structduplexT.html">duplexT</a>** aliLduplexfold_XS(<span class="keyword">const</span> <span class="keywordtype">char</span>* s1[],
  84 <a name="l00023"></a>00023                             <span class="keyword">const</span> <span class="keywordtype">char</span>* s2[],
  85 <a name="l00024"></a>00024                             <span class="keyword">const</span> <span class="keywordtype">int</span> **access_s1,
  86 <a name="l00025"></a>00025                             <span class="keyword">const</span> <span class="keywordtype">int</span> **access_s2,
  87 <a name="l00026"></a>00026                             <span class="keyword">const</span> <span class="keywordtype">int</span> threshold,
  88 <a name="l00027"></a>00027                             <span class="keyword">const</span> <span class="keywordtype">int</span> alignment_length,
  89 <a name="l00028"></a>00028                             <span class="keyword">const</span> <span class="keywordtype">int</span> delta,
  90 <a name="l00029"></a>00029                             <span class="keyword">const</span> <span class="keywordtype">int</span> fast,
  91 <a name="l00030"></a>00030                             <span class="keyword">const</span> <span class="keywordtype">int</span> il_a,
  92 <a name="l00031"></a>00031                             <span class="keyword">const</span> <span class="keywordtype">int</span> il_b,
  93 <a name="l00032"></a>00032                             <span class="keyword">const</span> <span class="keywordtype">int</span> b_a,
  94 <a name="l00033"></a>00033                             <span class="keyword">const</span> <span class="keywordtype">int</span> b_b);
  95 <a name="l00034"></a>00034
  96 <a name="l00035"></a>00035 <span class="comment">/*</span>
  97 <a name="l00036"></a>00036 <span class="comment">extern duplexT aliduplexfold(const char *s1[], const char *s2[], const int extension_cost);</span>
  98 <a name="l00037"></a>00037 <span class="comment">extern duplexT aliduplexfold_XS(const char *s1[], const char *s2[],const int **access_s1, </span>
  99 <a name="l00038"></a>00038 <span class="comment">const int **access_s2, const int i_pos, const int j_pos, const int threshold);</span>
 100 <a name="l00039"></a>00039 <span class="comment">*/</span>
 101 <a name="l00040"></a>00040 <span class="preprocessor">#endif</span>
 102 </pre></div></div>
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