<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 Page</span></a></li>
- <li><a href="pages.html"><span>Related 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 Page</span></a></li>
+ <li><a href="pages.html"><span>Related Pages</span></a></li>
<li><a href="modules.html"><span>Modules</span></a></li>
- <li><a href="annotated.html"><span>Data Structures</span></a></li>
+ <li><a href="annotated.html"><span>Data 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 List</span></a></li>
+ <div class="tabs">
+ <ul>
+ <li><a href="files.html"><span>File 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> </div>
-<div class="line"><a name="l00006"></a><span class="lineno"> 6</span> <span class="preprocessor">#define PRIVATE static</span></div>
-<div class="line"><a name="l00007"></a><span class="lineno"> 7</span> <span class="preprocessor"></span></div>
-<div class="line"><a name="l00008"></a><span class="lineno"> 8</span> PRIVATE <span class="keywordtype">char</span> sep = <span class="charliteral">':'</span>;</div>
-<div class="line"><a name="l00009"></a><span class="lineno"> 9</span> PRIVATE <span class="keywordtype">char</span> *coding = <span class="stringliteral">"Null:U:P:H:B:I:M:S:E:R"</span>;</div>
-<div class="line"><a name="l00010"></a><span class="lineno"> 10</span> </div>
-<div class="line"><a name="l00011"></a><span class="lineno"> 11</span> <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> <span class="preprocessor"></span></div>
-<div class="line"><a name="l00013"></a><span class="lineno"> 13</span> <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> </div>
-<div class="line"><a name="l00015"></a><span class="lineno"> 15</span> 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> </div>
-<div class="line"><a name="l00017"></a><span class="lineno"> 17</span> PRIVATE CostMatrix UsualCost =</div>
-<div class="line"><a name="l00018"></a><span class="lineno"> 18</span> {</div>
-<div class="line"><a name="l00019"></a><span class="lineno"> 19</span> </div>
-<div class="line"><a name="l00020"></a><span class="lineno"> 20</span> <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> </div>
-<div class="line"><a name="l00022"></a><span class="lineno"> 22</span>  { 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>  { 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>  { 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>  { 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>  { 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>  { 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>  { 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>  { 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>  { 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>  { <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> </div>
-<div class="line"><a name="l00033"></a><span class="lineno"> 33</span> };</div>
-<div class="line"><a name="l00034"></a><span class="lineno"> 34</span> </div>
-<div class="line"><a name="l00035"></a><span class="lineno"> 35</span> </div>
-<div class="line"><a name="l00036"></a><span class="lineno"> 36</span> PRIVATE CostMatrix ShapiroCost =</div>
-<div class="line"><a name="l00037"></a><span class="lineno"> 37</span> {</div>
-<div class="line"><a name="l00038"></a><span class="lineno"> 38</span> </div>
-<div class="line"><a name="l00039"></a><span class="lineno"> 39</span> <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> </div>
-<div class="line"><a name="l00041"></a><span class="lineno"> 41</span>  { 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>  { 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>  { 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>  { 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>  { 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>  { 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>  { 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>  { 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>  { 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>  { <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> </div>
-<div class="line"><a name="l00052"></a><span class="lineno"> 52</span> };</div>
-<div class="line"><a name="l00053"></a><span class="lineno"> 53</span> </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">':'</span>;
+<a name="l00009"></a>00009 PRIVATE <span class="keywordtype">char</span> *coding = <span class="stringliteral">"Null:U:P:H:B:I:M:S:E:R"</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
+<a href="http://www.doxygen.org/index.html">
+<img class="footer" src="doxygen.png" alt="doxygen"/></a> 1.6.1 </small></address>
</body>
</html>