File: classOpenBabel_1_1OBRingSearch.shtml

package info (click to toggle)
openbabel 2.3.2%2Bdfsg-2
  • links: PTS, VCS
  • area: main
  • in suites: jessie, jessie-kfreebsd
  • size: 75,308 kB
  • ctags: 41,952
  • sloc: cpp: 321,252; ansic: 89,228; python: 7,262; perl: 6,418; pascal: 793; sh: 194; xml: 97; ruby: 55; makefile: 47; java: 23
file content (315 lines) | stat: -rw-r--r-- 16,826 bytes parent folder | download | duplicates (3)
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
100
101
102
103
104
105
106
107
108
109
110
111
112
113
114
115
116
117
118
119
120
121
122
123
124
125
126
127
128
129
130
131
132
133
134
135
136
137
138
139
140
141
142
143
144
145
146
147
148
149
150
151
152
153
154
155
156
157
158
159
160
161
162
163
164
165
166
167
168
169
170
171
172
173
174
175
176
177
178
179
180
181
182
183
184
185
186
187
188
189
190
191
192
193
194
195
196
197
198
199
200
201
202
203
204
205
206
207
208
209
210
211
212
213
214
215
216
217
218
219
220
221
222
223
224
225
226
227
228
229
230
231
232
233
234
235
236
237
238
239
240
241
242
243
244
245
246
247
248
249
250
251
252
253
254
255
256
257
258
259
260
261
262
263
264
265
266
267
268
269
270
271
272
273
274
275
276
277
278
279
280
281
282
283
284
285
286
287
288
289
290
291
292
293
294
295
296
297
298
299
300
301
302
303
304
305
306
307
308
309
310
311
312
313
314
315
<!DOCTYPE HTML PUBLIC "-//W3C//DTD HTML 4.01 Transitional//EN">
<html>
<head><meta http-equiv="Content-Type" content="text/html;charset=utf-8">
<title>OBRingSearch Class Reference</title>
<link href="/site.css" rel="stylesheet" type="text/css">
<link href="doxygen.css" rel="stylesheet" type="text/css">
<link href="tabs.css" rel="stylesheet" type="text/css">
<script type="text/javascript" src="search/search.js"></script>
<link href="search/search.css" rel="stylesheet" type="text/css"/>
</head>

<body>

<!--#include file="header.html" -->
<!-- Generated by Doxygen 1.7.5.1 -->
<script type="text/javascript">
var searchBox = new SearchBox("searchBox", "search",false,'Search');
</script>
  <div id="navrow1" class="tabs">
    <ul class="tablist">
      <li><a href="index.shtml"><span>Main&#160;Page</span></a></li>
      <li><a href="pages.shtml"><span>Related&#160;Pages</span></a></li>
      <li><a href="modules.shtml"><span>Modules</span></a></li>
      <li><a href="namespaces.shtml"><span>Namespaces</span></a></li>
      <li class="current"><a href="annotated.shtml"><span>Classes</span></a></li>
      <li><a href="files.shtml"><span>Files</span></a></li>
      <li><a href="examples.shtml"><span>Examples</span></a></li>
      <li>
        <div id="MSearchBox" class="MSearchBoxInactive">
        <span class="left">
          <img id="MSearchSelect" src="search/mag_sel.png"
               onmouseover="return searchBox.OnSearchSelectShow()"
               onmouseout="return searchBox.OnSearchSelectHide()"
               alt=""/>
          <input type="text" id="MSearchField" value="Search" accesskey="S"
               onfocus="searchBox.OnSearchFieldFocus(true)" 
               onblur="searchBox.OnSearchFieldFocus(false)" 
               onkeyup="searchBox.OnSearchFieldChange(event)"/>
          </span><span class="right">
            <a id="MSearchClose" href="javascript:searchBox.CloseResultsWindow()"><img id="MSearchCloseImg" border="0" src="search/close.png" alt=""/></a>
          </span>
        </div>
      </li>
    </ul>
  </div>
  <div id="navrow2" class="tabs2">
    <ul class="tablist">
      <li><a href="annotated.shtml"><span>Class&#160;List</span></a></li>
      <li><a href="classes.shtml"><span>Class&#160;Index</span></a></li>
      <li><a href="hierarchy.shtml"><span>Class&#160;Hierarchy</span></a></li>
      <li><a href="functions.shtml"><span>Class&#160;Members</span></a></li>
    </ul>
  </div>
  <div id="nav-path" class="navpath">
    <ul>
      <li class="navelem"><a class="el" href="namespaceOpenBabel.shtml">OpenBabel</a>      </li>
      <li class="navelem"><a class="el" href="classOpenBabel_1_1OBRingSearch.shtml">OBRingSearch</a>      </li>
    </ul>
  </div>
</div>
<div class="header">
  <div class="summary">
<a href="#pub-methods">Public Member Functions</a>  </div>
  <div class="headertitle">
<div class="title">OBRingSearch Class Reference</div>  </div>
</div>
<div class="contents">
<!-- doxytag: class="OpenBabel::OBRingSearch" -->
<p><code>#include &lt;<a class="el" href="ring_8h_source.shtml">openbabel/ring.h</a>&gt;</code></p>

<p><a href="classOpenBabel_1_1OBRingSearch-members.shtml">List of all members.</a></p>
<table class="memberdecls">
<tr><td colspan="2"><h2><a name="pub-methods"></a>
Public Member Functions</h2></td></tr>
<tr><td class="memItemLeft" align="right" valign="top">&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenBabel_1_1OBRingSearch.shtml#af1211b4680e59ac34a16593ddcdb2761">OBRingSearch</a> ()</td></tr>
<tr><td class="memItemLeft" align="right" valign="top">&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenBabel_1_1OBRingSearch.shtml#a822227d05e90c205e5f2a2a75b313c62">~OBRingSearch</a> ()</td></tr>
<tr><td class="memItemLeft" align="right" valign="top">void&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenBabel_1_1OBRingSearch.shtml#acd7836d1e4e1ab6fbd3faa49403e5503">SortRings</a> ()</td></tr>
<tr><td class="memItemLeft" align="right" valign="top">void&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenBabel_1_1OBRingSearch.shtml#a5e60e6aac8c448ba3216236693e6f28a">RemoveRedundant</a> (int)</td></tr>
<tr><td class="memItemLeft" align="right" valign="top">void&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenBabel_1_1OBRingSearch.shtml#aa1396dc4c11207285a8711b28a1292e0">AddRingFromClosure</a> (<a class="el" href="classOpenBabel_1_1OBMol.shtml">OBMol</a> &amp;, <a class="el" href="classOpenBabel_1_1OBBond.shtml">OBBond</a> *)</td></tr>
<tr><td class="memItemLeft" align="right" valign="top">bool&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenBabel_1_1OBRingSearch.shtml#aba61821d4c16605d56801906db2d0661">SaveUniqueRing</a> (std::deque&lt; int &gt; &amp;, std::deque&lt; int &gt; &amp;)</td></tr>
<tr><td class="memItemLeft" align="right" valign="top">void&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenBabel_1_1OBRingSearch.shtml#a3a5de536030e126350d4b93651f3e07c">WriteRings</a> ()</td></tr>
<tr><td colspan="2"><div class="groupHeader">Iterator methods -- see OBMolRingIter for iteration over a molecule</div></td></tr>
<tr><td class="memItemLeft" align="right" valign="top">std::vector&lt; <a class="el" href="classOpenBabel_1_1OBRing.shtml">OBRing</a> * &gt;::iterator&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenBabel_1_1OBRingSearch.shtml#aa1a05257821a8156625beabb7dd58e0b">BeginRings</a> ()</td></tr>
<tr><td class="memItemLeft" align="right" valign="top">std::vector&lt; <a class="el" href="classOpenBabel_1_1OBRing.shtml">OBRing</a> * &gt;::iterator&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="classOpenBabel_1_1OBRingSearch.shtml#a07ad405727c652a6a280d821b9d1ac47">EndRings</a> ()</td></tr>
</table>
<hr/><a name="details" id="details"></a><h2>Detailed Description</h2>
<div class="textblock"><p>Internal class to facilitate <a class="el" href="classOpenBabel_1_1OBMol.shtml#ad4e3eab0d027bd8e503d02e7261ca477" title="Find Smallest Set of Smallest Rings (see OBRing class for more details)">OBMol::FindSSSR()</a> </p>
</div><hr/><h2>Constructor &amp; Destructor Documentation</h2>
<a class="anchor" id="af1211b4680e59ac34a16593ddcdb2761"></a><!-- doxytag: member="OpenBabel::OBRingSearch::OBRingSearch" ref="af1211b4680e59ac34a16593ddcdb2761" args="()" -->
<div class="memitem">
<div class="memproto">
      <table class="memname">
        <tr>
          <td class="memname"><a class="el" href="classOpenBabel_1_1OBRingSearch.shtml">OBRingSearch</a> </td>
          <td>(</td>
          <td class="paramname"></td><td>)</td>
          <td><code> [inline]</code></td>
        </tr>
      </table>
</div>
<div class="memdoc">

</div>
</div>
<a class="anchor" id="a822227d05e90c205e5f2a2a75b313c62"></a><!-- doxytag: member="OpenBabel::OBRingSearch::~OBRingSearch" ref="a822227d05e90c205e5f2a2a75b313c62" args="()" -->
<div class="memitem">
<div class="memproto">
      <table class="memname">
        <tr>
          <td class="memname">~<a class="el" href="classOpenBabel_1_1OBRingSearch.shtml">OBRingSearch</a> </td>
          <td>(</td>
          <td class="paramname"></td><td>)</td>
          <td></td>
        </tr>
      </table>
</div>
<div class="memdoc">

<p>Destructor -- free all rings created from this search. </p>

</div>
</div>
<hr/><h2>Member Function Documentation</h2>
<a class="anchor" id="acd7836d1e4e1ab6fbd3faa49403e5503"></a><!-- doxytag: member="OpenBabel::OBRingSearch::SortRings" ref="acd7836d1e4e1ab6fbd3faa49403e5503" args="()" -->
<div class="memitem">
<div class="memproto">
      <table class="memname">
        <tr>
          <td class="memname">void SortRings </td>
          <td>(</td>
          <td class="paramname"></td><td>)</td>
          <td><code> [inline]</code></td>
        </tr>
      </table>
</div>
<div class="memdoc">

<p>Sort ring sizes from smallest to largest. </p>

<p>Referenced by <a class="el" href="classOpenBabel_1_1OBMol.shtml#a39a5ee36b2320d9191dac24acf90b03e">OBMol::FindLSSR()</a>, and <a class="el" href="classOpenBabel_1_1OBMol.shtml#ad4e3eab0d027bd8e503d02e7261ca477">OBMol::FindSSSR()</a>.</p>

</div>
</div>
<a class="anchor" id="a5e60e6aac8c448ba3216236693e6f28a"></a><!-- doxytag: member="OpenBabel::OBRingSearch::RemoveRedundant" ref="a5e60e6aac8c448ba3216236693e6f28a" args="(int)" -->
<div class="memitem">
<div class="memproto">
      <table class="memname">
        <tr>
          <td class="memname">void RemoveRedundant </td>
          <td>(</td>
          <td class="paramtype">int&#160;</td>
          <td class="paramname"><em>frj</em></td><td>)</td>
          <td></td>
        </tr>
      </table>
</div>
<div class="memdoc">

<p>Starting with a full ring set - reduce to SSSR set. </p>

<p>Referenced by <a class="el" href="classOpenBabel_1_1OBMol.shtml#a39a5ee36b2320d9191dac24acf90b03e">OBMol::FindLSSR()</a>, and <a class="el" href="classOpenBabel_1_1OBMol.shtml#ad4e3eab0d027bd8e503d02e7261ca477">OBMol::FindSSSR()</a>.</p>

</div>
</div>
<a class="anchor" id="aa1396dc4c11207285a8711b28a1292e0"></a><!-- doxytag: member="OpenBabel::OBRingSearch::AddRingFromClosure" ref="aa1396dc4c11207285a8711b28a1292e0" args="(OBMol &amp;, OBBond *)" -->
<div class="memitem">
<div class="memproto">
      <table class="memname">
        <tr>
          <td class="memname">void AddRingFromClosure </td>
          <td>(</td>
          <td class="paramtype"><a class="el" href="classOpenBabel_1_1OBMol.shtml">OBMol</a> &amp;&#160;</td>
          <td class="paramname"><em>mol</em>, </td>
        </tr>
        <tr>
          <td class="paramkey"></td>
          <td></td>
          <td class="paramtype"><a class="el" href="classOpenBabel_1_1OBBond.shtml">OBBond</a> *&#160;</td>
          <td class="paramname"><em>cbond</em>&#160;</td>
        </tr>
        <tr>
          <td></td>
          <td>)</td>
          <td></td><td></td>
        </tr>
      </table>
</div>
<div class="memdoc">

<p>Add a new ring from a "closure" bond: See <a class="el" href="classOpenBabel_1_1OBBond.shtml#ab91f9d866c216bcb3ffc5aa0774b5177">OBBond::IsClosure()</a> </p>

<p>Referenced by <a class="el" href="classOpenBabel_1_1OBMol.shtml#a39a5ee36b2320d9191dac24acf90b03e">OBMol::FindLSSR()</a>, and <a class="el" href="classOpenBabel_1_1OBMol.shtml#ad4e3eab0d027bd8e503d02e7261ca477">OBMol::FindSSSR()</a>.</p>

</div>
</div>
<a class="anchor" id="aba61821d4c16605d56801906db2d0661"></a><!-- doxytag: member="OpenBabel::OBRingSearch::SaveUniqueRing" ref="aba61821d4c16605d56801906db2d0661" args="(std::deque&lt; int &gt; &amp;, std::deque&lt; int &gt; &amp;)" -->
<div class="memitem">
<div class="memproto">
      <table class="memname">
        <tr>
          <td class="memname">bool SaveUniqueRing </td>
          <td>(</td>
          <td class="paramtype">std::deque&lt; int &gt; &amp;&#160;</td>
          <td class="paramname"><em>d1</em>, </td>
        </tr>
        <tr>
          <td class="paramkey"></td>
          <td></td>
          <td class="paramtype">std::deque&lt; int &gt; &amp;&#160;</td>
          <td class="paramname"><em>d2</em>&#160;</td>
        </tr>
        <tr>
          <td></td>
          <td>)</td>
          <td></td><td></td>
        </tr>
      </table>
</div>
<div class="memdoc">

</div>
</div>
<a class="anchor" id="a3a5de536030e126350d4b93651f3e07c"></a><!-- doxytag: member="OpenBabel::OBRingSearch::WriteRings" ref="a3a5de536030e126350d4b93651f3e07c" args="()" -->
<div class="memitem">
<div class="memproto">
      <table class="memname">
        <tr>
          <td class="memname">void WriteRings </td>
          <td>(</td>
          <td class="paramname"></td><td>)</td>
          <td></td>
        </tr>
      </table>
</div>
<div class="memdoc">

<p>For debugging only, write the rings to std::cout. </p>

</div>
</div>
<a class="anchor" id="aa1a05257821a8156625beabb7dd58e0b"></a><!-- doxytag: member="OpenBabel::OBRingSearch::BeginRings" ref="aa1a05257821a8156625beabb7dd58e0b" args="()" -->
<div class="memitem">
<div class="memproto">
      <table class="memname">
        <tr>
          <td class="memname">std::vector&lt;<a class="el" href="classOpenBabel_1_1OBRing.shtml">OBRing</a>*&gt;::iterator BeginRings </td>
          <td>(</td>
          <td class="paramname"></td><td>)</td>
          <td><code> [inline]</code></td>
        </tr>
      </table>
</div>
<div class="memdoc">
<dl class="return"><dt><b>Returns:</b></dt><dd>an iterator pointing to the beginning of the list of rings </dd></dl>

<p>Referenced by <a class="el" href="classOpenBabel_1_1OBMol.shtml#a39a5ee36b2320d9191dac24acf90b03e">OBMol::FindLSSR()</a>, and <a class="el" href="classOpenBabel_1_1OBMol.shtml#ad4e3eab0d027bd8e503d02e7261ca477">OBMol::FindSSSR()</a>.</p>

</div>
</div>
<a class="anchor" id="a07ad405727c652a6a280d821b9d1ac47"></a><!-- doxytag: member="OpenBabel::OBRingSearch::EndRings" ref="a07ad405727c652a6a280d821b9d1ac47" args="()" -->
<div class="memitem">
<div class="memproto">
      <table class="memname">
        <tr>
          <td class="memname">std::vector&lt;<a class="el" href="classOpenBabel_1_1OBRing.shtml">OBRing</a>*&gt;::iterator EndRings </td>
          <td>(</td>
          <td class="paramname"></td><td>)</td>
          <td><code> [inline]</code></td>
        </tr>
      </table>
</div>
<div class="memdoc">
<dl class="return"><dt><b>Returns:</b></dt><dd>an iterator pointing to the end of the list of rings </dd></dl>

<p>Referenced by <a class="el" href="classOpenBabel_1_1OBMol.shtml#a39a5ee36b2320d9191dac24acf90b03e">OBMol::FindLSSR()</a>, and <a class="el" href="classOpenBabel_1_1OBMol.shtml#ad4e3eab0d027bd8e503d02e7261ca477">OBMol::FindSSSR()</a>.</p>

</div>
</div>
<hr/>The documentation for this class was generated from the following files:<ul>
<li><a class="el" href="ring_8h_source.shtml">ring.h</a></li>
<li><a class="el" href="ring_8cpp.shtml">ring.cpp</a></li>
</ul>
</div>
<!-- window showing the filter options -->
<div id="MSearchSelectWindow"
     onmouseover="return searchBox.OnSearchSelectShow()"
     onmouseout="return searchBox.OnSearchSelectHide()"
     onkeydown="return searchBox.OnSearchSelectKey(event)">
<a class="SelectItem" href="javascript:void(0)" onclick="searchBox.OnSelectItem(0)"><span class="SelectionMark">&#160;</span>All</a><a class="SelectItem" href="javascript:void(0)" onclick="searchBox.OnSelectItem(1)"><span class="SelectionMark">&#160;</span>Classes</a><a class="SelectItem" href="javascript:void(0)" onclick="searchBox.OnSelectItem(2)"><span class="SelectionMark">&#160;</span>Namespaces</a><a class="SelectItem" href="javascript:void(0)" onclick="searchBox.OnSelectItem(3)"><span class="SelectionMark">&#160;</span>Files</a><a class="SelectItem" href="javascript:void(0)" onclick="searchBox.OnSelectItem(4)"><span class="SelectionMark">&#160;</span>Functions</a><a class="SelectItem" href="javascript:void(0)" onclick="searchBox.OnSelectItem(5)"><span class="SelectionMark">&#160;</span>Variables</a><a class="SelectItem" href="javascript:void(0)" onclick="searchBox.OnSelectItem(6)"><span class="SelectionMark">&#160;</span>Typedefs</a><a class="SelectItem" href="javascript:void(0)" onclick="searchBox.OnSelectItem(7)"><span class="SelectionMark">&#160;</span>Enumerations</a><a class="SelectItem" href="javascript:void(0)" onclick="searchBox.OnSelectItem(8)"><span class="SelectionMark">&#160;</span>Enumerator</a><a class="SelectItem" href="javascript:void(0)" onclick="searchBox.OnSelectItem(9)"><span class="SelectionMark">&#160;</span>Friends</a><a class="SelectItem" href="javascript:void(0)" onclick="searchBox.OnSelectItem(10)"><span class="SelectionMark">&#160;</span>Defines</a></div>

<!-- iframe showing the search results (closed by default) -->
<div id="MSearchResultsWindow">
<iframe src="javascript:void(0)" frameborder="0" 
        name="MSearchResults" id="MSearchResults">
</iframe>
</div>

</div><!-- end content -->

<!--#include file="footer.html" -->

<div id="footer">
<hr size="1">
<img src="http://openbabel.org/babel256.png" width="136" height="127" alt="" style="float: left;" />
<p>This file is part of the documentation for <a href="http://openbabel.org/wiki/">Open Babel</a>, version 2.3.</p>
<div class="bottom">
Documentation copyright &copy; 1998-2007, the <a href="http://openbabel.org/wiki/THANKS">Open Babel Developers</a>.<br>
Open Babel is hosted by: <a href="http://sourceforge.net">
<img src="http://sourceforge.net/sflogo.php?group_id=40728" 
width="88" height="31" border="0" alt="SourceForge Logo"></a><br>
Generated on Thu Oct 13 2011 16:08:11 by&nbsp;<a href="http://www.doxygen.org/"><img src="doxygen.png" alt="doxygen" align="middle" border="0"></a> 1.7.5.1.
</div>

</body>
</html>