JWS-117 Compiled all tools with ./compilebin.sh and some were missing related files.
[jabaws.git] / binaries / src / ViennaRNA / doc / html / edit__cost_8h_source.html
index f642200..c7ceb3c 100644 (file)
 <html xmlns="http://www.w3.org/1999/xhtml">
 <head>
 <meta http-equiv="Content-Type" content="text/xhtml;charset=UTF-8"/>
-<meta http-equiv="X-UA-Compatible" content="IE=9"/>
-<title>RNAlib-2.1.2: /home/mescalin/ronny/public_html/programs/ViennaRNA/H/edit_cost.h Source File</title>
+<title>RNAlib-2.1.2: /homes/fmmarquesmadeira/Projects/jabaws/binaries/src/ViennaRNA/H/edit_cost.h Source File</title>
 <link href="tabs.css" rel="stylesheet" type="text/css"/>
-<script type="text/javascript" src="jquery.js"></script>
-<script type="text/javascript" src="dynsections.js"></script>
-<link href="navtree.css" rel="stylesheet" type="text/css"/>
-<script type="text/javascript" src="resize.js"></script>
-<script type="text/javascript" src="navtree.js"></script>
-<script type="text/javascript">
-  $(document).ready(initResizable);
-</script>
-<link href="doxygen.css" rel="stylesheet" type="text/css" />
+<link href="doxygen.css" rel="stylesheet" type="text/css"/>
 </head>
 <body>
-<div id="top"><!-- do not remove this div, it is closed by doxygen! -->
-<div id="titlearea">
-<table cellspacing="0" cellpadding="0">
- <tbody>
- <tr style="height: 56px;">
-  <td style="padding-left: 0.5em;">
-   <div id="projectname">RNAlib-2.1.2
-   </div>
-  </td>
- </tr>
- </tbody>
-</table>
-</div>
-<!-- end header part -->
-<!-- Generated by Doxygen 1.8.1.1 -->
-  <div id="navrow1" class="tabs">
-    <ul class="tablist">
-      <li><a href="index.html"><span>Main&#160;Page</span></a></li>
-      <li><a href="pages.html"><span>Related&#160;Pages</span></a></li>
+<!-- Generated by Doxygen 1.6.1 -->
+<script type="text/javascript">
+<!--
+function changeDisplayState (e){
+  var num=this.id.replace(/[^[0-9]/g,'');
+  var button=this.firstChild;
+  var sectionDiv=document.getElementById('dynsection'+num);
+  if (sectionDiv.style.display=='none'||sectionDiv.style.display==''){
+    sectionDiv.style.display='block';
+    button.src='open.gif';
+  }else{
+    sectionDiv.style.display='none';
+    button.src='closed.gif';
+  }
+}
+function initDynSections(){
+  var divs=document.getElementsByTagName('div');
+  var sectionCounter=1;
+  for(var i=0;i<divs.length-1;i++){
+    if(divs[i].className=='dynheader'&&divs[i+1].className=='dynsection'){
+      var header=divs[i];
+      var section=divs[i+1];
+      var button=header.firstChild;
+      if (button!='IMG'){
+        divs[i].insertBefore(document.createTextNode(' '),divs[i].firstChild);
+        button=document.createElement('img');
+        divs[i].insertBefore(button,divs[i].firstChild);
+      }
+      header.style.cursor='pointer';
+      header.onclick=changeDisplayState;
+      header.id='dynheader'+sectionCounter;
+      button.src='closed.gif';
+      section.id='dynsection'+sectionCounter;
+      section.style.display='none';
+      section.style.marginLeft='14px';
+      sectionCounter++;
+    }
+  }
+}
+window.onload = initDynSections;
+-->
+</script>
+<div class="navigation" id="top">
+  <div class="tabs">
+    <ul>
+      <li><a href="main.html"><span>Main&nbsp;Page</span></a></li>
+      <li><a href="pages.html"><span>Related&nbsp;Pages</span></a></li>
       <li><a href="modules.html"><span>Modules</span></a></li>
-      <li><a href="annotated.html"><span>Data&#160;Structures</span></a></li>
+      <li><a href="annotated.html"><span>Data&nbsp;Structures</span></a></li>
       <li class="current"><a href="files.html"><span>Files</span></a></li>
     </ul>
   </div>
-  <div id="navrow2" class="tabs2">
-    <ul class="tablist">
-      <li><a href="files.html"><span>File&#160;List</span></a></li>
+  <div class="tabs">
+    <ul>
+      <li><a href="files.html"><span>File&nbsp;List</span></a></li>
       <li><a href="globals.html"><span>Globals</span></a></li>
     </ul>
   </div>
-</div><!-- top -->
-<div id="side-nav" class="ui-resizable side-nav-resizable">
-  <div id="nav-tree">
-    <div id="nav-tree-contents">
-    </div>
-  </div>
-  <div id="splitbar" style="-moz-user-select:none;" 
-       class="ui-resizable-handle">
-  </div>
-</div>
-<script type="text/javascript">
-$(document).ready(function(){initNavTree('edit__cost_8h.html','');});
-</script>
-<div id="doc-content">
-<div class="header">
-  <div class="headertitle">
-<div class="title">edit_cost.h</div>  </div>
-</div><!--header-->
-<div class="contents">
-<a href="edit__cost_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>&#160;</div>
-<div class="line"><a name="l00006"></a><span class="lineno">    6</span>&#160;<span class="preprocessor">#define PRIVATE static</span></div>
-<div class="line"><a name="l00007"></a><span class="lineno">    7</span>&#160;<span class="preprocessor"></span></div>
-<div class="line"><a name="l00008"></a><span class="lineno">    8</span>&#160;PRIVATE <span class="keywordtype">char</span>   sep    = <span class="charliteral">&#39;:&#39;</span>;</div>
-<div class="line"><a name="l00009"></a><span class="lineno">    9</span>&#160;PRIVATE <span class="keywordtype">char</span>  *coding = <span class="stringliteral">&quot;Null:U:P:H:B:I:M:S:E:R&quot;</span>;</div>
-<div class="line"><a name="l00010"></a><span class="lineno">   10</span>&#160;</div>
-<div class="line"><a name="l00011"></a><span class="lineno">   11</span>&#160;<span class="preprocessor">#define  INF 10000  </span><span class="comment">/* infinity */</span><span class="preprocessor"></span></div>
-<div class="line"><a name="l00012"></a><span class="lineno">   12</span>&#160;<span class="preprocessor"></span></div>
-<div class="line"><a name="l00013"></a><span class="lineno">   13</span>&#160;<span class="keyword">typedef</span> <span class="keywordtype">int</span> CostMatrix[10][10];</div>
-<div class="line"><a name="l00014"></a><span class="lineno">   14</span>&#160;</div>
-<div class="line"><a name="l00015"></a><span class="lineno">   15</span>&#160;PRIVATE CostMatrix *EditCost;  <span class="comment">/* will point to UsualCost or ShapiroCost */</span></div>
-<div class="line"><a name="l00016"></a><span class="lineno">   16</span>&#160;</div>
-<div class="line"><a name="l00017"></a><span class="lineno">   17</span>&#160;PRIVATE CostMatrix  UsualCost =</div>
-<div class="line"><a name="l00018"></a><span class="lineno">   18</span>&#160;{</div>
-<div class="line"><a name="l00019"></a><span class="lineno">   19</span>&#160;</div>
-<div class="line"><a name="l00020"></a><span class="lineno">   20</span>&#160;<span class="comment">/*  Null,   U,   P,   H,   B,   I,   M,   S,   E,   R     */</span></div>
-<div class="line"><a name="l00021"></a><span class="lineno">   21</span>&#160;</div>
-<div class="line"><a name="l00022"></a><span class="lineno">   22</span>&#160;   {   0,   1,   2,   2,   2,   2,   2,   1,  1,  <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>},   <span class="comment">/* Null replaced */</span></div>
-<div class="line"><a name="l00023"></a><span class="lineno">   23</span>&#160;   {   1,   0,   1, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, INF},   <span class="comment">/* U    replaced */</span></div>
-<div class="line"><a name="l00024"></a><span class="lineno">   24</span>&#160;   {   2,   1,   0, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, INF},   <span class="comment">/* P    replaced */</span></div>
-<div class="line"><a name="l00025"></a><span class="lineno">   25</span>&#160;   {   2, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>,   0,   2,   2,   2, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, INF},   <span class="comment">/* H    replaced */</span></div>
-<div class="line"><a name="l00026"></a><span class="lineno">   26</span>&#160;   {   2, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>,   2,   0,   1,   2, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, INF},   <span class="comment">/* B    replaced */</span></div>
-<div class="line"><a name="l00027"></a><span class="lineno">   27</span>&#160;   {   2, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>,   2,   1,   0,   2, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, INF},   <span class="comment">/* I    replaced */</span></div>
-<div class="line"><a name="l00028"></a><span class="lineno">   28</span>&#160;   {   2, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>,   2,   2,   2,   0, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, INF},   <span class="comment">/* M    replaced */</span></div>
-<div class="line"><a name="l00029"></a><span class="lineno">   29</span>&#160;   {   1, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>,   0, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, INF},   <span class="comment">/* S    replaced */</span></div>
-<div class="line"><a name="l00030"></a><span class="lineno">   30</span>&#160;   {   1, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>,   0, INF},   <span class="comment">/* E    replaced */</span></div>
-<div class="line"><a name="l00031"></a><span class="lineno">   31</span>&#160;   { <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>,   0},   <span class="comment">/* R    replaced */</span></div>
-<div class="line"><a name="l00032"></a><span class="lineno">   32</span>&#160;</div>
-<div class="line"><a name="l00033"></a><span class="lineno">   33</span>&#160;};</div>
-<div class="line"><a name="l00034"></a><span class="lineno">   34</span>&#160;</div>
-<div class="line"><a name="l00035"></a><span class="lineno">   35</span>&#160;</div>
-<div class="line"><a name="l00036"></a><span class="lineno">   36</span>&#160;PRIVATE CostMatrix ShapiroCost =</div>
-<div class="line"><a name="l00037"></a><span class="lineno">   37</span>&#160;{</div>
-<div class="line"><a name="l00038"></a><span class="lineno">   38</span>&#160;</div>
-<div class="line"><a name="l00039"></a><span class="lineno">   39</span>&#160;<span class="comment">/*  Null,   U,   P,   H,   B,   I,   M,   S,   E,  R     */</span></div>
-<div class="line"><a name="l00040"></a><span class="lineno">   40</span>&#160;</div>
-<div class="line"><a name="l00041"></a><span class="lineno">   41</span>&#160;   {   0,   1,   2, 100,   5,   5,  75,   5,   5, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>},   <span class="comment">/* Null replaced */</span></div>
-<div class="line"><a name="l00042"></a><span class="lineno">   42</span>&#160;   {   1,   0,   1, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, INF},   <span class="comment">/* U    replaced */</span></div>
-<div class="line"><a name="l00043"></a><span class="lineno">   43</span>&#160;   {   2,   1,   0, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, INF},   <span class="comment">/* P    replaced */</span></div>
-<div class="line"><a name="l00044"></a><span class="lineno">   44</span>&#160;   { 100, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>,   0,   8,   8,   8, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, INF},   <span class="comment">/* H    replaced */</span></div>
-<div class="line"><a name="l00045"></a><span class="lineno">   45</span>&#160;   {   5, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>,   8,   0,   3,   8, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, INF},   <span class="comment">/* B    replaced */</span></div>
-<div class="line"><a name="l00046"></a><span class="lineno">   46</span>&#160;   {   5, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>,   8,   3,   0,   8, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, INF},   <span class="comment">/* I    replaced */</span></div>
-<div class="line"><a name="l00047"></a><span class="lineno">   47</span>&#160;   {  75, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>,   8,   8,   8,   0, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, INF},   <span class="comment">/* M    replaced */</span></div>
-<div class="line"><a name="l00048"></a><span class="lineno">   48</span>&#160;   {   5, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>,   0, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, INF},   <span class="comment">/* S    replaced */</span></div>
-<div class="line"><a name="l00049"></a><span class="lineno">   49</span>&#160;   {   5, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>,   0, INF},   <span class="comment">/* E    replaced */</span></div>
-<div class="line"><a name="l00050"></a><span class="lineno">   50</span>&#160;   { <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>,   0},   <span class="comment">/* R    replaced */</span></div>
-<div class="line"><a name="l00051"></a><span class="lineno">   51</span>&#160;</div>
-<div class="line"><a name="l00052"></a><span class="lineno">   52</span>&#160;};</div>
-<div class="line"><a name="l00053"></a><span class="lineno">   53</span>&#160;</div>
-</div><!-- fragment --></div><!-- contents -->
-</div><!-- doc-content -->
-<!-- start footer part -->
-<div id="nav-path" class="navpath"><!-- id is needed for treeview function! -->
-  <ul>
-    <li class="navelem"><a class="el" href="dir_d72344b28b4f2089ce25682c4e6eba22.html">H</a></li><li class="navelem"><a class="el" href="edit__cost_8h.html">edit_cost.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>
-  </ul>
-</div>
+<h1>/homes/fmmarquesmadeira/Projects/jabaws/binaries/src/ViennaRNA/H/edit_cost.h</h1><a href="edit__cost_8h.html">Go to the documentation of this file.</a><div class="fragment"><pre class="fragment"><a name="l00001"></a>00001 
+<a name="l00006"></a>00006 <span class="preprocessor">#define PRIVATE static</span>
+<a name="l00007"></a>00007 <span class="preprocessor"></span>
+<a name="l00008"></a>00008 PRIVATE <span class="keywordtype">char</span>   sep    = <span class="charliteral">&apos;:&apos;</span>;
+<a name="l00009"></a>00009 PRIVATE <span class="keywordtype">char</span>  *coding = <span class="stringliteral">&quot;Null:U:P:H:B:I:M:S:E:R&quot;</span>;
+<a name="l00010"></a>00010 
+<a name="l00011"></a>00011 <span class="preprocessor">#define  INF 10000  </span><span class="comment">/* infinity */</span>
+<a name="l00012"></a>00012 
+<a name="l00013"></a>00013 <span class="keyword">typedef</span> <span class="keywordtype">int</span> CostMatrix[10][10];
+<a name="l00014"></a>00014 
+<a name="l00015"></a>00015 PRIVATE CostMatrix *EditCost;  <span class="comment">/* will point to UsualCost or ShapiroCost */</span>
+<a name="l00016"></a>00016 
+<a name="l00017"></a>00017 PRIVATE CostMatrix  UsualCost =
+<a name="l00018"></a>00018 {
+<a name="l00019"></a>00019 
+<a name="l00020"></a>00020 <span class="comment">/*  Null,   U,   P,   H,   B,   I,   M,   S,   E,   R     */</span>
+<a name="l00021"></a>00021 
+<a name="l00022"></a>00022    {   0,   1,   2,   2,   2,   2,   2,   1,  1,  <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>},   <span class="comment">/* Null replaced */</span>
+<a name="l00023"></a>00023    {   1,   0,   1, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, INF, INF, INF, INF, INF},   <span class="comment">/* U    replaced */</span>
+<a name="l00024"></a>00024    {   2,   1,   0, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, INF, INF, INF, INF, INF},   <span class="comment">/* P    replaced */</span>
+<a name="l00025"></a>00025    {   2, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>,   0,   2,   2,   2, INF, INF, INF},   <span class="comment">/* H    replaced */</span>
+<a name="l00026"></a>00026    {   2, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>,   2,   0,   1,   2, INF, INF, INF},   <span class="comment">/* B    replaced */</span>
+<a name="l00027"></a>00027    {   2, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>,   2,   1,   0,   2, INF, INF, INF},   <span class="comment">/* I    replaced */</span>
+<a name="l00028"></a>00028    {   2, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>,   2,   2,   2,   0, INF, INF, INF},   <span class="comment">/* M    replaced */</span>
+<a name="l00029"></a>00029    {   1, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, INF, INF, INF, INF,   0, INF, INF},   <span class="comment">/* S    replaced */</span>
+<a name="l00030"></a>00030    {   1, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, INF, INF, INF, INF, INF,   0, INF},   <span class="comment">/* E    replaced */</span>
+<a name="l00031"></a>00031    { <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, INF, INF, INF, INF, INF, INF, INF,   0},   <span class="comment">/* R    replaced */</span>
+<a name="l00032"></a>00032 
+<a name="l00033"></a>00033 };
+<a name="l00034"></a>00034 
+<a name="l00035"></a>00035 
+<a name="l00036"></a>00036 PRIVATE CostMatrix ShapiroCost =
+<a name="l00037"></a>00037 {
+<a name="l00038"></a>00038 
+<a name="l00039"></a>00039 <span class="comment">/*  Null,   U,   P,   H,   B,   I,   M,   S,   E,  R     */</span>
+<a name="l00040"></a>00040 
+<a name="l00041"></a>00041    {   0,   1,   2, 100,   5,   5,  75,   5,   5, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>},   <span class="comment">/* Null replaced */</span>
+<a name="l00042"></a>00042    {   1,   0,   1, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, INF, INF, INF, INF, INF},   <span class="comment">/* U    replaced */</span>
+<a name="l00043"></a>00043    {   2,   1,   0, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, INF, INF, INF, INF, INF},   <span class="comment">/* P    replaced */</span>
+<a name="l00044"></a>00044    { 100, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>,   0,   8,   8,   8, INF, INF, INF},   <span class="comment">/* H    replaced */</span>
+<a name="l00045"></a>00045    {   5, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>,   8,   0,   3,   8, INF, INF, INF},   <span class="comment">/* B    replaced */</span>
+<a name="l00046"></a>00046    {   5, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>,   8,   3,   0,   8, INF, INF, INF},   <span class="comment">/* I    replaced */</span>
+<a name="l00047"></a>00047    {  75, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>,   8,   8,   8,   0, INF, INF, INF},   <span class="comment">/* M    replaced */</span>
+<a name="l00048"></a>00048    {   5, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, INF, INF, INF, INF,   0, INF, INF},   <span class="comment">/* S    replaced */</span>
+<a name="l00049"></a>00049    {   5, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, INF, INF, INF, INF, INF,   0, INF},   <span class="comment">/* E    replaced */</span>
+<a name="l00050"></a>00050    { <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, <a class="code" href="energy__const_8h.html#a12c2040f25d8e3a7b9e1c2024c618cb6">INF</a>, INF, INF, INF, INF, INF, INF, INF,   0},   <span class="comment">/* R    replaced */</span>
+<a name="l00051"></a>00051 
+<a name="l00052"></a>00052 };
+<a name="l00053"></a>00053 
+</pre></div></div>
+<hr size="1"/><address style="text-align: right;"><small>Generated on 11 Apr 2017 for RNAlib-2.1.2 by&nbsp;
+<a href="http://www.doxygen.org/index.html">
+<img class="footer" src="doxygen.png" alt="doxygen"/></a> 1.6.1 </small></address>
 </body>
 </html>